A Database of Drosophila Genes & Genomes

FB2008_06, released July 3, 2008
 

FB2008_06 Release Notes

hide General FlyBase FB2008_06 Statistics
Number of references in FlyBase
188933
Number of research papers
79689
Number of abstracts
37379
Number of personal communications to FlyBase
4110
Number of fly stocks
86625
Number of fly images
981
Drosophila workers registered with FlyBase
7441
hideDrosophila melanogaster (R5.9)
Statistics
Gene records
30747
Genes located to the genome
15045
Genes not located to the genome
15702
Alleles
105377
Alleles of located genes
86520
Alleles of unlocated genes
18857
Aberrations
18109
Deficiencies
7590
Deficiencies with mapped endpoints
1491
Transposable element insertions
90619
Insertions mapped to the sequence
42791
Annotation Release 5.9
Summary of changes from previous release
New Gene Models
3
Restored Gene Models
0
Deleted Gene Models
65
Merged Gene Models
71 -> 31
Split Gene Models
8 -> 18
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15045
5484
258567
19
-100
Protein coding genes
14008
5840
258567
132
-100
Protein coding transcripts
21064
2368
69439
132
-6
Exons
68370
479
27725
1
-139
Introns
50836
1385
166135
17
-60
5' untranslated regions
19086
184
3391
1
124
3' untranslated regions
13396
374
5684
1
125
Unique polypeptides
18104
583
22971
25
-53
rRNA genes
161
504
6026
123
0
rRNA
161
504
6026
123
0
tRNA genes
314
75
186
61
0
tRNA
314
73
87
61
0
snRNA genes
47
115
275
36
0
snRNA
47
115
275
36
0
snoRNA genes
249
113
316
46
0
snoRNA
249
113
316
46
0
miRNA genes
90
24
100
19
0
miRNA
90
24
100
19
0
Miscellaneous non-coding RNA genes
87
3042
31065
31
0
Miscellaneous non-coding RNA
104
1185
14084
31
0
Pseudogenes
88
3217
179585
53
0
Transposable elements present in the sequenced strain
5552
1507
66001
23
0
Annotated repeat regions
10159
hide Other Annotated Gene Features
Mapped Nucleotide Changes
Annotated Gene Features
Count
Change
total mapped nucleotide changes
3583
0
aberration junction
193
0
complex substitution
52
0
deletion
225
0
insertion site
48
0
point mutation
2804
0
sequence variant
204
0
TE target site duplication
40
0
uncharacterized change in nucleotide sequence
17
0
Mapped Regulatory Elements
Annotated Gene Features
Count
Change
total mapped regulatory elements
2319
0
enhancer
22
0
poly A site
98
0
protein binding site
1396
0
regulatory region
240
0
rescue fragment
563
0
Mapped Reagent Features
Annotated Gene Features
Count
Change
transposable element insertion site
42791
50
microarray amplicons
14095
0
dsRNA amplicons
67381
0
BAC
973
0
oligonucleotide
583294
0
hide Aligned Evidence Features
Nucleotide Alignments
Annotated Gene Features
Algorithm
Count
Change
D. melanogaster cDNA inserts
sim4tandem,splign
16159
0
D. melanogaster EST
sim4,splign
483268
0
Other melanogaster DNA sequences
sim4tandem,splign
12707
13
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
Augustus prediction
Augustus 1.0
12292
0
BATZ Contrast
CONTRAST
14219
0
BATZ Contrast NA
CONTRAST
13589
0
CONGO exons
CONGO
40544
0
DGIL snap
SNAP
19640
0
DGIL snap homology
SNAP
22949
0
Genie prediction
Genie v2.2/flyGenie
11248
0
Genscan prediction
Genscan 1.0
18909
0
NCBI gnomon
GNOMON
19729
0
RGUI geneid
GENEID 1.2
12389
0
RGUI geneid u12
GENEID 1.2
12717
0
Proteins Aligned
Annotated Gene Features
Algorithm
Count
Change
D. melanogaster proteins
WU-blastx 2.0, Prosplign
30522
22312
Other insect proteins
WU-blastx 2.0
7076
1881
Nematode proteins
WU-blastx 2.0
6361
0
Yeast proteins
WU-blastx 2.0
2170
0
Plant proteins
WU-blastx 2.0
8396
0
Rodent proteins
WU-blastx 2.0
14824
0
Primate proteins
WU-blastx 2.0
13691
0
Other invertebrate proteins
WU-blastx 2.0
13070
24
Other vertebrate proteins
WU-blastx 2.0
10443
0
Other proteins
Prosplign
27576
837
Translated Nucleotide Alignments
Annotated Gene Features
Algorithm
 
 
Insect ESTs
WU-tblastx 2.0
 
 
A. gambiae genomic
WU-tblastx 2.0
 
 
D. pseudoobscura genomic
WU-tblastx 2.0
 
 
hide Release 5 Sequence Assembly

Date updated: 12-FEB-2008

TABLE 1: Overview of the Release_5 Assembly (from BDGP)

Current Release
Release 5
 
Sequencing Center
Primary Center: BDGP
Collaborating Centers: DHGP, BCM-HGSC, Celera
Sequenced Strain
y1; cn1 bw1 sp1
Flies available:
Bloomington: 2057
DGRC-Kyoto: 106641
Tucson: 14021-0231.36
BAC clones available:
CHORI BPRC
Date Released:
Finished Arms
See Table 2 for arm accessions
18-APR-2006
WGS Heterochromatin
AABU01000000
20-NOV-2007

TABLE 2: Detailed Information on the Release_5 Assembly

Scaffold
Length (bp)
Internal Gaps
(see Table 3)
GenBank
Accession
Major Difference Compared to Release 4 (Arm Scaffolds Only)
ArmX
22,422,827
3
AE014298
8kb added to the distal end.
Gaps filled in regions 1-11.
Arm2L
23,011,544
2
AE014134
591kb added to the proximal end of the arm.
Arm2R
21,146,708
1
AE013599
380kb added to the proximal end.
Arm3L
24,543,557
1
AE014296
16kb added on distal end.
718kb added to proximal end.
Other gaps filled
Arm3R
27,905,053
0
AE014297
None.
Arm4
1,351,857
1
AE014135
70kbp added to the distal end.
XHet
204,112
0
CM000460
WGS
YHet
347,038
Draft
CM000461
WGS - Unordered
2LHet
368,872
2
CM000456
WGS
2RHet
3,288,761
Draft
CM000457
WGS - Unordered
3LHet
2,555,491
Draft
CM000458
WGS - Unordered
3RHet
2,517,507
Draft
CM000459
WGS - Unordered
ArmUn
10,049,037
Draft
FA000001
WGS - Unordered

TABLE 3: Known Gaps in the Release 5 Major Arms Assembly

Scaffold
GenBank
Accession
Gaps
Notes
Gene Association
ArmX
AE014298
111523..129522
sized
 
ArmX
AE014298
21684450..21684549
unsized
 
ArmX
AE014298
21687344..21759343
sized
 
Arm2L
AE014134
21485539..21485638
unsized
Histone Gene Cluster *
Arm2L
AE014134
22420242..22420341
unsized
 
Arm2R
AE013599
16668213..16668312
unsized
 
Arm3L
AE014296
5107767..5107866
unsized
 
Arm3R
AE014297
None
--
 
Arm4
AE014135
1221289..1221388
unsized
 
* 20 copies of the ca. 100 copies of the 5kb histone repeat unit are present in the Release 5 AE014134 scaffold.

TABLE 4: Distribution of Centric Heterochromatin in Release 5 Scaffolds

Locations of the euchromatin/heterochromatin boundaries on the five major chromosome arm scaffolds has been determined by the DHGP.

Chr.
Arm
Major Arm Scaffold GenBank
Accessions & Seq. Coordinates
Heterochromatin Scaffold GenBank
Accessions & Seq. Coordinates
X
AE014298 : 22030326..22422827
CM000460 : 1..204112
2L
AE014134 : 22000975..23011544
CM000456 : 1..368872
2R
AE013599 : 1..1285689
CM000457 : 1..3288761
3L
AE014296 : 22955576..24543557
CM000458 : 1..2555491
3R
AE014297 : 1..378656
CM000459 : 1..2517507
4
AE014135 : undefined
none
Y
none
CM000461 : 1..347038
ArmUn
none
FA000001 : 1..10049037

The sequenced strain, usually described as the y1; cn1 bw1 sp1 strain, was known to carry mutations in those four genes. During annotation, mutations in other genes have been discovered (Table 5). To allow compilation of a comprehensive proteome, wild-type protein sequences for these genes have been included in sequence entries in FlyBase and GenBank.

TABLE 5: Genes with Known Mutations in the Release 5 Sequence

Gene_Symbol
Gene_ID
Annotation_ID
Information about Mutation
bw
Known from strain genotype
CG9812
Discovered during genome annotation
CG31013
Discovered during genome annotation
CG33282
Discovered during genome annotation
CG33301
Discovered during genome annotation
CG33632
Discovered during genome annotation
CG33964
Discovered during genome annotation
CG34143
Discovered during genome annotation
cn
Known from strain genotype
FucTC
Discovered during genome annotation
LysC
Discovered during genome annotation
MstProx
Discovered during genome annotation
Rh6
Discovered during genome annotation
sdk
Sequencing error in Release 5: Incorrect insertion of a T at position X:587140.
sp
unidentified
Known from strain genotype
Ugt86Dd
Discovered during genome annotation
y
Known from strain genotype

TABLE 6: Known Polymorphisms in the Sequenced Strain

Type of
Polymorphism
Affected Scaffold
Structure of Variation
Comments
35KB Tandem Duplication
2L: AE014134
Repeat 1: 15654568..15686758
Repeat 2: 15688165..15721755
(Repeat 1 and Repeat 2 are sequence Identical)

Bracketed by Sequence-Identical Hobo Elements:
H{}377 = 15653162..15654567 [-]
H{}380 = 15686759..15688164 [-]
H{}382 = 15721756..15723161 [-]
Polymorphic with single copy of this 35KB sequence.
Reference sequence includes tandem duplication.
CG18477 (in Repeat 1) and CG31780 (in Repeat 2) are sequence-identical.
CG18478 (in Repeat 1) and CG31827 (in Repeat 2) are sequence-identical.
Citations:
  • Drosophila 12 Genomes Consortium. 2007. Evolution of genes and genomes on the Drosophila phylogeny.
    Nature 450: 203-218.
  • Zimin AV, Smith DR, Sutton G, Yorke JA. 2008. Assembly reconciliation. Bioinformatics 24: 42-45.
Abbreviations Used:
  • BAC: Bacterial Articifical Chromosome
  • BCM-HGSC: Baylor College of Medicine - Human Genome Sequencing Center
  • BDGP: Berkeley Drosophila Genome Project
  • CHORI BPRC: Childrens Hospital of Oakland Research Institute, BAC PAC Resource Center
  • DGRC-Kyoto: Drosophila Genetic Resource Center (Kyoto, Japan)
  • DHGP: Drosophila Heterochromatin Genome Project
  • WGS: Whole Genome Shotgun sequencing and assembly
hideDrosophila ananassae (R1.2)
Statistics
Gene records
16603
Genes located to the genome
15978
Genes not located to the genome
625
Alleles
597
Alleles of located genes
173
Alleles of unlocated genes
424
Aberrations
161
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
21
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
909
Restored Gene Models
0
Deleted Gene Models
206
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15978
4029
1176744
49
703
Protein coding genes
15069
4266
1176744
102
-206
Protein coding transcripts
15070
1471
26718
102
-206
Exons
57154
389
13661
2
561
Introns
41345
1026
1034096
1
-80
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
14954
491
8905
33
-205
rRNA genes
135
154
2010
76
135
rRNA
135
154
2010
76
135
tRNA genes
307
75
195
71
307
tRNA
307
74
94
71
307
snRNA genes
29
166
262
98
29
snRNA
29
166
262
98
29
snoRNA genes
194
112
219
49
194
snoRNA
194
112
219
49
194
miRNA genes
76
84
117
57
76
miRNA
82
22
35
19
82
Miscellaneous non-coding RNA genes
3
289
297
276
3
Miscellaneous non-coding RNA
3
289
297
276
3
Pseudogenes
165
72
75
67
165
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
18891
0
BREN N-Scan
N-Scan
20227
0
DGIL snap
SNAP
41918
0
DGIL snap homology
SNAP
41007
0
EISE exonerate
EXONERATE
33504
0
EISE genemapper
GENE MAPPER
32718
0
EISE genewise
Genewise
20081
0
GLEANR consensus
GLEANR
22551
0
NCBI gnomon
GNOMON
23784
0
OXFD exonerate
EXONERATE
12920
0
PACH genemapper
GENE MAPPER
17892
0
RGUI geneid
GENEID 1.2
30348
0
RGUI geneid u12
GENEID 1.2
30800
0
hideDrosophila erecta (R1.2)
Statistics
Gene records
16198
Genes located to the genome
15811
Genes not located to the genome
387
Alleles
2
Alleles of located genes
0
Aberrations
0
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
766
Restored Gene Models
0
Deleted Gene Models
275
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15811
3552
1170937
30
491
Protein coding genes
15045
3727
1170937
66
-275
Protein coding transcripts
15049
1455
26613
66
-275
Exons
56656
388
13790
1
374
Introns
40986
835
1121756
1
-52
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
14869
488
8870
21
-274
rRNA genes
104
213
3518
30
104
rRNA
104
213
3518
30
104
tRNA genes
284
76
189
70
284
tRNA
284
74
86
70
284
snRNA genes
38
153
274
47
38
snRNA
38
153
274
47
38
snoRNA genes
252
111
316
45
252
snoRNA
252
111
316
45
252
miRNA genes
81
84
127
63
81
miRNA
88
22
29
20
88
Miscellaneous non-coding RNA genes
5
1178
3727
275
5
Miscellaneous non-coding RNA
5
1178
3727
275
5
Pseudogenes
2
72
73
72
2
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
14863
0
BREN N-Scan
N-Scan
16723
0
DGIL snap
SNAP
25198
0
DGIL snap homology
SNAP
24654
0
EISE exonerate
EXONERATE
33587
0
EISE genemapper
GENE MAPPER
28987
0
EISE genewise
Genewise
43127
0
GLEANR consensus
GLEANR
16880
0
NCBI gnomon
GNOMON
18662
0
OXFD exonerate
EXONERATE
13568
0
PACH genemapper
GENE MAPPER
19020
0
RGUI geneid
GENEID 1.2
18654
0
RGUI geneid u12
GENEID 1.2
18866
0
hideDrosophila grimshawi (R1.2)
Statistics
Gene records
15893
Genes located to the genome
15585
Genes not located to the genome
308
Alleles
4
Alleles of located genes
3
Alleles of unlocated genes
1
Aberrations
1
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
603
Restored Gene Models
0
Deleted Gene Models
284
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15585
3993
238808
46
319
Protein coding genes
14982
4150
238808
117
-284
Protein coding transcripts
14986
1488
26535
117
-284
Exons
56795
393
13188
1
165
Introns
41370
965
216011
1
-88
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
14741
500
8844
38
-277
rRNA genes
70
132
180
97
70
rRNA
70
132
180
97
70
tRNA genes
260
76
191
71
260
tRNA
260
73
86
71
260
snRNA genes
32
155
266
98
32
snRNA
32
155
266
98
32
snoRNA genes
154
110
244
46
154
snoRNA
154
110
244
46
154
miRNA genes
82
83
126
63
82
miRNA
88
22
29
20
88
Miscellaneous non-coding RNA genes
4
308
348
293
4
Miscellaneous non-coding RNA
4
308
348
293
4
Pseudogenes
1
75
75
75
1
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
14003
0
BREN N-Scan
N-Scan
17378
0
DGIL snap
SNAP
34975
0
DGIL snap homology
SNAP
34420
0
EISE exonerate
EXONERATE
34389
0
EISE genemapper
GENE MAPPER
32724
0
EISE genewise
Genewise
19258
0
GLEANR consensus
GLEANR
16901
0
NCBI gnomon
GNOMON
17922
0
OXFD exonerate
EXONERATE
11052
0
PACH genemapper
GENE MAPPER
16572
0
RGUI geneid
GENEID 1.2
29516
0
RGUI geneid u12
GENEID 1.2
30148
0
hideDrosophila mojavensis (R1.2)
Statistics
Gene records
15709
Genes located to the genome
15179
Genes not located to the genome
530
Alleles
41
Alleles of located genes
33
Alleles of unlocated genes
8
Aberrations
10
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
585
Restored Gene Models
0
Deleted Gene Models
254
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15179
4262
299059
60
331
Protein coding genes
14594
4429
299059
105
-254
Protein coding transcripts
14595
1482
26781
105
-254
Exons
55195
392
14595
2
185
Introns
40199
1075
245033
1
-91
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
14512
494
8926
34
-252
rRNA genes
75
149
1990
103
75
rRNA
75
149
1990
103
75
tRNA genes
264
75
194
71
264
tRNA
264
73
86
71
264
snRNA genes
30
158
264
98
30
snRNA
30
158
264
98
30
snoRNA genes
139
116
273
60
139
snoRNA
139
116
273
60
139
miRNA genes
71
84
127
62
71
miRNA
78
22
29
20
78
Miscellaneous non-coding RNA genes
3
303
323
294
3
Miscellaneous non-coding RNA
3
303
323
294
3
Pseudogenes
3
78
91
72
3
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
14779
0
BREN N-Scan
N-Scan
18863
0
DGIL snap
SNAP
34235
0
DGIL snap homology
SNAP
39387
0
EISE exonerate
EXONERATE
33573
0
EISE genemapper
GENE MAPPER
31926
0
EISE genewise
Genewise
41625
0
GLEANR consensus
GLEANR
17738
0
NCBI gnomon
GNOMON
17950
0
OXFD exonerate
EXONERATE
10902
0
PACH genemapper
GENE MAPPER
16684
0
RGUI geneid
GENEID 1.2
19994
0
RGUI geneid u12
GENEID 1.2
20482
0
hideDrosophila persimilis (R1.2)
Statistics
Gene records
18143
Genes located to the genome
17574
Genes not located to the genome
569
Alleles
37
Alleles of located genes
8
Alleles of unlocated genes
29
Aberrations
32
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
699
Restored Gene Models
0
Deleted Gene Models
446
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
17574
3484
231798
45
253
Protein coding genes
16875
3623
231798
72
-446
Protein coding transcripts
16879
1284
24363
72
-446
Exons
59146
367
9522
1
33
Introns
41743
949
160788
1
-159
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
16742
429
8120
23
-444
rRNA genes
85
260
3969
103
85
rRNA
85
260
3969
103
85
tRNA genes
305
75
195
71
305
tRNA
305
74
93
71
305
snRNA genes
31
160
313
97
31
snRNA
31
160
313
97
31
snoRNA genes
199
110
277
45
199
snoRNA
199
110
277
45
199
miRNA genes
75
85
110
62
75
miRNA
81
22
29
20
81
Miscellaneous non-coding RNA genes
3
304
322
296
3
Miscellaneous non-coding RNA
3
304
322
296
3
Pseudogenes
1
75
75
75
1
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
18611
0
BREN N-Scan
N-Scan
19699
0
DGIL snap
SNAP
38209
0
DGIL snap homology
SNAP
36086
0
EISE exonerate
EXONERATE
35069
0
EISE genemapper
GENE MAPPER
32760
0
EISE genewise
Genewise
25594
0
GLEANR consensus
GLEANR
23029
0
NCBI gnomon
GNOMON
24696
0
OXFD exonerate
EXONERATE
11924
0
PACH genemapper
GENE MAPPER
17011
0
RGUI geneid
GENEID 1.2
28798
0
RGUI geneid u12
GENEID 1.2
28613
0
hideDrosophila pseudoobscura pseudoobscura (R2.2)
Statistics
Gene records
19788
Genes located to the genome
16731
Genes not located to the genome
3057
Alleles
316
Alleles of located genes
68
Alleles of unlocated genes
248
Aberrations
61
Deficiencies
1
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 2.2
Summary of changes from previous release
New Gene Models
660
Restored Gene Models
0
Deleted Gene Models
292
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
16731
3365
196341
45
368
Protein coding genes
16071
3499
196341
111
-292
Protein coding transcripts
16071
1438
55449
111
-292
Exons
58063
399
16920
2
199
Introns
41476
800
195141
1
-111
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15995
479
18482
36
-290
rRNA genes
56
151
1823
90
56
rRNA
56
151
1823
90
56
tRNA genes
294
75
195
71
294
tRNA
294
74
93
71
294
snRNA genes
31
159
311
85
31
snRNA
31
159
311
85
31
snoRNA genes
203
111
277
45
203
snoRNA
203
111
277
45
203
miRNA genes
73
84
110
62
73
miRNA
79
22
29
20
79
Miscellaneous non-coding RNA genes
2
309
322
296
2
Miscellaneous non-coding RNA
2
309
322
296
2
Pseudogenes
1
75
75
75
1
hide Other Annotated Gene Features
Other Annotated Features
Count
Avg. size
Longest
Shortest
 
Syntenic regions
1013
95325
1262829
105
 
hide Aligned Evidence Features
Nucleotide Alignments
Annotated Gene Features
Algorithm
Count
Change
D. pseudoobscura ESTs
blastn
34292
0
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
16158
0
BREN N-Scan
N-Scan
17088
0
DGIL snap
SNAP
23678
0
DGIL snap homology
SNAP
21676
0
EISE exonerate
EXONERATE
34828
0
EISE genemapper
GENE MAPPER
32857
0
EISE genewise
Genewise
42938
0
GLEANR consensus
GLEANR
17328
0
Genewise
Genewise
17882
0
Genscan
Genscan 1.0
16829
0
NCBI gnomon
GNOMON
19259
0
OXFD exonerate
EXONERATE
11690
0
PACH genemapper
GENE MAPPER
17265
0
RGUI geneid
GENEID 1.2
19060
0
RGUI geneid u12
GENEID 1.2
18970
0
Twinscan
Twinscan
18082
0
hideDrosophila sechellia (R1.2)
Statistics
Gene records
17873
Genes located to the genome
17273
Genes not located to the genome
600
Alleles
11
Alleles of located genes
2
Alleles of unlocated genes
9
Aberrations
1
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
806
Restored Gene Models
0
Deleted Gene Models
413
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
17273
3172
215256
27
393
Protein coding genes
16467
3321
215256
27
-413
Protein coding transcripts
16471
1305
43656
27
-413
Exons
58765
367
11004
1
183
Introns
41665
799
173070
1
-149
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
16125
440
14551
8
-411
rRNA genes
139
235
1997
30
139
rRNA
139
235
1997
30
139
tRNA genes
308
75
189
70
308
tRNA
308
74
86
70
308
snRNA genes
30
156
273
98
30
snRNA
30
156
273
98
30
snoRNA genes
242
112
315
46
242
snoRNA
242
112
315
46
242
miRNA genes
78
84
127
63
78
miRNA
85
22
29
20
85
Miscellaneous non-coding RNA genes
5
1178
3707
277
5
Miscellaneous non-coding RNA
5
1178
3707
277
5
Pseudogenes
4
72
73
71
4
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
15887
0
BREN N-Scan
N-Scan
18367
0
DGIL snap
SNAP
36782
0
DGIL snap homology
SNAP
31358
0
EISE exonerate
EXONERATE
34854
0
EISE genemapper
GENE MAPPER
28216
0
EISE genewise
Genewise
25095
0
GLEANR consensus
GLEANR
21332
0
NCBI gnomon
GNOMON
25689
0
OXFD exonerate
EXONERATE
14423
0
PACH genemapper
GENE MAPPER
18928
0
RGUI geneid
GENEID 1.2
29159
0
RGUI geneid u12
GENEID 1.2
29186
0
hideDrosophila simulans (R1.2)
Statistics
Gene records
17648
Genes located to the genome
16104
Genes not located to the genome
1544
Alleles
363
Alleles of located genes
159
Alleles of unlocated genes
204
Aberrations
33
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
6
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
691
Restored Gene Models
0
Deleted Gene Models
568
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
16104
3233
179058
30
123
Protein coding genes
15413
3373
179058
54
-568
Protein coding transcripts
15415
1234
25239
54
-568
Exons
53950
353
7825
1
-341
Introns
37971
869
168520
1
-409
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15346
411
8412
17
-567
rRNA genes
72
158
180
30
72
rRNA
72
158
180
30
72
tRNA genes
266
75
189
70
266
tRNA
266
74
86
70
266
snRNA genes
32
156
273
97
32
snRNA
32
156
273
97
32
snoRNA genes
246
111
315
46
246
snoRNA
246
111
315
46
246
miRNA genes
70
84
127
63
70
miRNA
75
22
29
20
75
Miscellaneous non-coding RNA genes
3
1426
3706
277
3
Miscellaneous non-coding RNA
3
1426
3706
277
3
Pseudogenes
2
73
74
73
2
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
15530
0
BREN N-Scan
N-Scan
18989
0
DGIL snap
SNAP
28265
0
DGIL snap homology
SNAP
24623
0
EISE exonerate
EXONERATE
35213
0
EISE genemapper
GENE MAPPER
27790
0
EISE genewise
Genewise
27426
0
GLEANR consensus
GLEANR
17049
0
NCBI gnomon
GNOMON
19856
0
OXFD exonerate
EXONERATE
12420
0
PACH genemapper
GENE MAPPER
18260
0
RGUI geneid
GENEID 1.2
13797
0
RGUI geneid u12
GENEID 1.2
14128
0
hideDrosophila virilis (R1.1)
Statistics
Gene records
16090
Genes located to the genome
15343
Genes not located to the genome
747
Alleles
565
Alleles of located genes
105
Alleles of unlocated genes
460
Aberrations
83
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
3
Annotation Release 1.1
Summary of changes from previous release
New Gene Models
852
Restored Gene Models
0
Deleted Gene Models
189
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15343
4220
565985
49
663
Protein coding genes
14491
4461
565985
93
-189
Protein coding transcripts
14491
1500
40500
93
-189
Exons
55557
393
23577
1
552
Introns
40386
1071
535952
1
-55
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
14382
501
13499
30
-188
rRNA genes
299
189
1995
49
299
rRNA
299
189
1995
49
299
tRNA genes
277
76
191
71
277
tRNA
277
73
86
71
277
snRNA genes
31
158
261
98
31
snRNA
31
158
261
98
31
snoRNA genes
165
113
282
57
165
snoRNA
165
113
282
57
165
miRNA genes
74
84
126
58
74
miRNA
81
22
29
20
81
Miscellaneous non-coding RNA genes
4
303
330
294
4
Miscellaneous non-coding RNA
4
303
330
294
4
Pseudogenes
2
92
96
89
2
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
14476
0
BREN N-Scan
N-Scan
18350
0
DGIL snap
SNAP
35378
0
DGIL snap homology
SNAP
35285
0
EISE exonerate
EXONERATE
33940
0
EISE genemapper
GENE MAPPER
32430
0
EISE genewise
Genewise
19550
0
GLEANR consensus
GLEANR
17679
0
NCBI gnomon
GNOMON
18636
0
OXFD exonerate
EXONERATE
11117
0
PACH genemapper
GENE MAPPER
16744
0
RGUI geneid
GENEID 1.2
26095
0
RGUI geneid u12
GENEID 1.2
27145
0
hideDrosophila willistoni (R1.2)
Statistics
Gene records
16912
Genes located to the genome
16385
Genes not located to the genome
527
Alleles
203
Alleles of located genes
6
Alleles of unlocated genes
197
Aberrations
57
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
873
Restored Gene Models
0
Deleted Gene Models
303
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
16385
4318
683577
30
570
Protein coding genes
15512
4555
683577
90
-303
Protein coding transcripts
15513
1462
27624
90
-303
Exons
57093
399
21318
2
455
Introns
40896
1203
682464
1
-59
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15434
488
9207
29
-297
rRNA genes
80
308
1987
30
80
rRNA
80
308
1987
30
80
tRNA genes
296
76
191
70
296
tRNA
296
73
84
70
296
snRNA genes
37
160
363
97
37
snRNA
37
160
363
97
37
snoRNA genes
216
119
209
57
216
snoRNA
216
119
209
57
216
miRNA genes
77
85
138
63
77
miRNA
83
22
29
20
83
Miscellaneous non-coding RNA genes
3
314
346
298
3
Miscellaneous non-coding RNA
3
314
346
298
3
Pseudogenes
164
72
79
65
164
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
12928
0
BREN N-Scan
N-Scan
16784
0
DGIL snap
SNAP
53474
0
DGIL snap homology
SNAP
50296
0
EISE exonerate
EXONERATE
34660
0
EISE genemapper
GENE MAPPER
32996
0
EISE genewise
Genewise
19279
0
GLEANR consensus
GLEANR
20211
0
NCBI gnomon
GNOMON
24902
0
OXFD exonerate
EXONERATE
10778
0
PACH genemapper
GENE MAPPER
16855
0
RGUI geneid
GENEID 1.2
25184
0
RGUI geneid u12
GENEID 1.2
27260
0
hideDrosophila yakuba (R1.2)
Statistics
Gene records
17493
Genes located to the genome
16891
Genes not located to the genome
602
Alleles
5
Alleles of located genes
2
Alleles of unlocated genes
3
Aberrations
0
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 1.2
Summary of changes from previous release
New Gene Models
814
Restored Gene Models
0
Deleted Gene Models
341
Merged Gene Models
0
Split Gene Models
0
Complex combinations
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
16891
3422
252576
39
473
Protein coding genes
16077
3590
252576
39
-341
Protein coding transcripts
16082
1408
26793
39
-341
Exons
59388
382
13188
2
302
Introns
42642
824
161037
1
-107
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15940
471
8930
12
-339
rRNA genes
57
242
3981
91
57
rRNA
57
242
3981
91
57
tRNA genes
374
75
191
71
374
tRNA
374
73
86
71
374
snRNA genes
37
158
276
98
37
snRNA
37
158
276
98
37
snoRNA genes
255
110
316
45
255
snoRNA
255
110
316
45
255
miRNA genes
80
85
127
63
80
miRNA
87
22
29
20
87
Miscellaneous non-coding RNA genes
5
1169
3705
275
5
Miscellaneous non-coding RNA
5
1169
3705
275
5
Pseudogenes
6
71
73
62
6
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
16923
0
BREN N-Scan
N-Scan
19482
0
DGIL snap
SNAP
32761
0
DGIL snap homology
SNAP
32029
0
EISE exonerate
EXONERATE
34716
0
EISE genemapper
GENE MAPPER
29982
0
EISE genewise
Genewise
20916
0
GLEANR consensus
GLEANR
18816
0
NCBI gnomon
GNOMON
20302
0
OXFD exonerate
EXONERATE
14290
0
PACH genemapper
GENE MAPPER
18907
0
RGUI geneid
GENEID 1.2
15647
0
RGUI geneid u12
GENEID 1.2
16037
0