A Database of Drosophila Genes & Genomes

 

FB2008_03 Release Notes

hide General FlyBase FB2008_03 Statistics
Number of references in FlyBase
187026
Number of research papers
79107
Number of abstracts
36433
Number of personal communications to FlyBase
3967
Number of fly stocks
85591
Number of fly images
981
Drosophila workers registered with FlyBase
7419
hideDrosophila melanogaster (R5.6)
Statistics
Gene records
30436
Genes located to the genome
15178
Genes not located to the genome
15258
Alleles
102052
Alleles of located genes
83454
Alleles of unlocated genes
18598
Aberrations
30217
Deficiencies
19730
Deficiencies with mapped endpoints
13479
Transposable element insertions
89880
Insertions mapped to the sequence
42051
Annotation Release 5.6
Summary of changes from previous release
New Gene Models
0
Restored Gene Models
0
Deleted Gene Models
1
Merged Gene Models
11 -> 4
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15178
5392
258567
19
-8
Protein coding genes
14140
5739
258567
132
-6
Protein coding transcripts
21028
2339
69439
132
102
Exons
68418
478
27725
1
150
Introns
50785
1610
166135
11
137
5' untranslated regions
18840
183
3391
1
85
3' untranslated regions
13194
373
5684
1
129
Unique polypeptides
18141
576
22971
25
86
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
88
3015
31065
31
0
Miscellaneous non-coding RNA
105
1182
14084
31
0
Pseudogenes
88
3218
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
42051
2
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
15980
0
D. melanogaster EST
sim4,splign
482548
-21042
Other melanogaster DNA sequences
sim4tandem,splign
12673
0
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
7556
1423
Other insect proteins
WU-blastx 2.0
5195
0
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
13046
0
Other vertebrate proteins
WU-blastx 2.0
10443
0
Other proteins
Prosplign
14637
0
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
CM000460 : 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
CG33964
Discovered during genome annotation
cn
Known from strain genotype
Gr22b
Discovered during genome annotation
Gr22d
Discovered during genome annotation
GstD5
Discovered during genome annotation
lab
Discovered during genome annotation
LysC
Discovered during genome annotation
MstProx
Discovered during genome annotation
oc
Discovered during genome annotation
Or98b
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
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 (R1.1)
Statistics
Gene records
15692
Genes located to the genome
15275
Genes not located to the genome
417
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 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
2 -> 1
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15275
4232
1176744
9
-1
Genes with annotated transcripts
15275
4232
1176744
9
-1
Protein coding transcripts
15276
1458
32862
9
0
Exons
56593
393
32862
2
0
Introns
41425
1030
1034096
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15159
487
10953
2
0
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 (R1.1)
Statistics
Gene records
15425
Genes located to the genome
15320
Genes not located to the genome
105
Alleles
0
Alleles of located genes
0
Aberrations
0
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
0
Annotation Release 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
8 -> 4
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15320
3670
1170937
6
-4
Genes with annotated transcripts
15320
3670
1170937
6
-4
Protein coding transcripts
15324
1434
29742
6
0
Exons
56282
390
29459
1
0
Introns
41038
835
1121756
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15143
481
9913
1
0
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 (R1.1)
Statistics
Gene records
15288
Genes located to the genome
15266
Genes not located to the genome
22
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 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
8 -> 4
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15266
4096
238808
6
-4
Genes with annotated transcripts
15266
4096
238808
6
-4
Protein coding transcripts
15270
1474
32244
6
0
Exons
56630
397
31264
1
-1
Introns
41458
967
216011
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15018
496
10747
1
0
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 (R1.1)
Statistics
Gene records
15122
Genes located to the genome
14848
Genes not located to the genome
274
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 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
2 -> 1
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
14848
4387
299059
6
-1
Genes with annotated transcripts
14848
4387
299059
6
-1
Protein coding transcripts
14849
1463
26781
6
0
Exons
55010
394
25692
2
0
Introns
40290
1083
245033
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
14764
488
8926
1
0
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 (R1.1)
Statistics
Gene records
17442
Genes located to the genome
17321
Genes not located to the genome
121
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 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
8 -> 4
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
17321
3550
231798
15
-4
Genes with annotated transcripts
17321
3550
231798
15
-4
Protein coding transcripts
17325
1260
24363
15
0
Exons
59113
369
9522
1
0
Introns
41902
950
160788
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
17186
421
8120
4
0
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 (R2.1)
Statistics
Gene records
19197
Genes located to the genome
16363
Genes not located to the genome
2834
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 2.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
192 -> 94
Split Gene Models
200 -> 417
Complex combinations
165 -> 174
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
16363
3468
196341
15
4171
Genes with annotated transcripts
16363
3468
196341
15
6495
Protein coding transcripts
16363
1418
55449
15
6492
Exons
57864
401
16920
2
18069
Introns
41587
808
195141
1
11683
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
16285
473
18482
4
6414
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 (R1.1)
Statistics
Gene records
17066
Genes located to the genome
16880
Genes not located to the genome
186
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 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
8 -> 4
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
16880
3273
215256
9
-4
Genes with annotated transcripts
16880
3273
215256
9
-4
Protein coding transcripts
16884
1285
43656
9
0
Exons
58582
370
37887
1
0
Introns
41814
805
173070
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
16536
433
14551
2
0
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 (R1.1)
Statistics
Gene records
16957
Genes located to the genome
15981
Genes not located to the genome
976
Alleles
363
Alleles of located genes
173
Alleles of unlocated genes
190
Aberrations
33
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
6
Annotation Release 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
4 -> 2
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15981
3319
179058
9
-2
Genes with annotated transcripts
15981
3319
179058
9
-2
Protein coding transcripts
15983
1227
25239
9
0
Exons
54291
361
7825
1
0
Introns
38380
872
168520
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15913
409
8412
2
0
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 (R1.0)
Statistics
Gene records
15235
Genes located to the genome
14680
Genes not located to the genome
555
Alleles
565
Alleles of located genes
110
Alleles of unlocated genes
455
Aberrations
83
Deficiencies
0
Deficiencies with mapped endpoints
0
Transposable element insertions
3
Annotation Release 1.0
Summary of changes from previous release
New Gene Models
14680
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
14680
4415
565985
27
14680
Genes with annotated transcripts
14680
4415
565985
27
14680
Protein coding transcripts
14680
1485
40500
24
14680
Exons
55005
396
23577
1
55005
Introns
40441
1073
535952
1
40441
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
14570
496
13499
7
14570
hide Aligned Evidence Features
Gene Predictions
Annotated Gene Features
Algorithm
Count
Change
BATZ Contrast NA
CONTRAST
14476
14476
BREN N-Scan
N-Scan
18350
18350
DGIL snap
SNAP
35378
35378
DGIL snap homology
SNAP
35285
35285
EISE exonerate
EXONERATE
33940
33940
EISE genemapper
GENE MAPPER
32430
32430
EISE genewise
Genewise
19550
19550
GLEANR consensus
GLEANR
17679
17679
NCBI gnomon
GNOMON
18636
18636
OXFD exonerate
EXONERATE
11117
11117
PACH genemapper
GENE MAPPER
16744
16744
RGUI geneid
GENEID 1.2
26095
26095
RGUI geneid u12
GENEID 1.2
27145
27145
hideDrosophila willistoni (R1.1)
Statistics
Gene records
16037
Genes located to the genome
15815
Genes not located to the genome
222
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 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
2 -> 1
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
15815
4500
683577
6
-1
Genes with annotated transcripts
15815
4500
683577
6
-1
Protein coding transcripts
15816
1450
131991
6
0
Exons
56638
404
130991
2
0
Introns
40955
1208
682464
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
15731
484
43996
1
0
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 (R1.1)
Statistics
Gene records
16668
Genes located to the genome
16418
Genes not located to the genome
250
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 1.1
Summary of changes from previous release
Restored Gene Models
0
Deleted Gene Models
0
Merged Gene Models
10 -> 5
Split Gene Models
0
hide Annotated Gene Models
Annotated Gene Models
Count
Avg. size
Longest
Shortest
Change
Genes
16418
3535
252576
6
-5
Genes with annotated transcripts
16418
3535
252576
6
-5
Protein coding transcripts
16423
1385
26793
6
0
Exons
59086
384
13188
2
0
Introns
42749
827
161037
1
0
5' untranslated regions
0
NA
NA
NA
0
3' untranslated regions
0
NA
NA
NA
0
Unique polypeptides
16279
463
8930
1
0
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