FB2025_01 , released February 20, 2025
Sequence Feature: Dmel\Dmel:r6:2L:13508021:13508190:+
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General Information
Symbol
Dmel\Dmel:r6:2L:13508021:13508190:+
Species
D. melanogaster
Feature type
exon_junction
FlyBase ID
FBsf0000138540
Collection
Associated gene
Genomic Location
Chromosome (arm)
2L
Sequence location

2L:13,508,021..13,508,190 [+]

Genomic Maps
Sequence Data
Length
Comments

GT..AG

Associated Information
Gene(s) (targeted or local)
    Allele(s)
      Transcripts(s)
        Polypeptide(s)
          Construct
            Experimental Data
            RNA-Seq Read Counts
            Dataset: BCM_1_RNAseq_junctions
            BCM_1_RNAseq_junctions
            Expression stage(s)
            Read Count
            embryonic stage 4 -- 9

            Comment: 2-4 hr, rep1, 75nt reads

            0
            embryonic stage 4 -- 16

            Comment: 2-16 hr, rep1, 75nt reads

            0
            embryonic stage 4 -- 16

            Comment: 2-16 hr, rep2, 100nt reads

            0
            embryonic stage 16

            Comment: 14-16 hr, rep1, 75nt reads

            0
            second instar larval stage -- third instar larval stage

            Comment: 48 to 120 hrs post egg-lay, rep1, 75nt reads

            1
            late third instar larval stage

            Comment: wandering, rep1, 75nt reads

            0
            late third instar larval stage

            Comment: wandering, rep2, 100nt reads

            0
            pupal stage

            Comment: aged 1 to 5 days after collection as third instar larvae, rep1, 75nt reads

            0
            pupal stage P6 -- pharate adult stage P10

            Comment: aged 72 hrs after collection as third instar larvae, rep1, 75nt reads

            0
            adult stage

            Comment: aged 17 days post-eclosion, rep1, 75nt reads

            1
            adult stage | female

            Comment: aged 2-3 days post-eclosion, rep1, 75nt reads

            0
            adult stage | male

            Comment: aged 2-3 days post-eclosion, rep1, 75nt reads

            0
            Total
            2
            Dataset: modENCODE_mRNA-Seq_EXTRA_junctions
            modENCODE_mRNA-Seq_EXTRA_junctions
            Expression stage(s)
            Read Count
            embryonic stage 1 -- 4

            Comment: 0-2 hr AEL

            0
            embryonic stage 4 -- 9

            Comment: 2-4 hr AEL

            0
            embryonic stage 9 -- 11

            Comment: 4-6 hr AEL

            2
            embryonic stage 11 -- 12

            Comment: 6-8 hr AEL

            0
            embryonic stage 12 -- 13

            Comment: 8-10 hr AEL

            0
            embryonic stage 13 -- 15

            Comment: 10-12 hr AEL

            0
            embryonic stage 15 -- 16

            Comment: 12-14 hr AEL

            0
            embryonic stage 16

            Comment: 14-16 hr AEL

            0
            embryonic stage 17(i)

            Comment: 16-18 hr AEL

            0
            embryonic stage 17(ii)

            Comment: 18-20 hr AEL

            0
            embryonic stage 17(iii)

            Comment: 20-22 hr AEL

            0
            embryonic stage 17(iv)

            Comment: 22-24 hr AEL

            0
            first instar larval stage

            Comment: 42-44hr AEL

            0
            second instar larval stage

            Comment: 66-70h AEL

            0
            early third instar larval stage

            Comment: 83-85hr AEL

            0
            third instar - uncleared gut stage

            Comment: indicated as puff stage 1-2

            0
            third instar - partially cleared gut stage

            Comment: indicated as puff stage 3-6

            0
            third instar - cleared gut stage

            Comment: indicated as puff stage 7-9

            0
            prepupal stage P1
            2
            pupal stage P5

            Comment: aged 12 hrs after collection as white prepupae

            0
            pupal stage P6

            Comment: aged 24 hrs after collection as white prepupae

            0
            pharate adult stage P8

            Comment: aged 2 days after collection as white prepupae

            0
            pharate adult stage P9 -- P10

            Comment: aged 3 days after collection as white prepupae

            0
            pharate adult stage P15

            Comment: aged 4 days after collection as white prepupae

            0
            day 1 of adulthood | female

            Comment: aged 1 day after eclosion

            0
            day 1 of adulthood | male

            Comment: aged 1 day after eclosion

            6
            day 5 of adulthood | female

            Comment: aged 5 days after eclosion

            4
            day 5 of adulthood | male

            Comment: aged 5 days after eclosion

            1
            day 30 of adulthood | female

            Comment: aged 30 days after eclosion

            0
            day 30 of adulthood | male

            Comment: aged 30 days after eclosion

            2
            Total
            17
            Collection Information
            Collection: BCM_1_RNAseq_junctions
            Symbol
            BCM_1_RNAseq_junctions
            Title
            Exon junction identification from RNA-Seq assays of D. melanogaster, Canton-S strain, 10 developmental stages.
            Source and Progenitors
            Species of derivation
            D. melanogaster
            Strain of derivation
            Stage
            Tissue/Position (including subcellular localization)
            Reference
            embryonic stage 4 -- 9
            organism

            Comment: 2-4 hr, rep1, 75nt reads

            (Daines et al., 2011)
            embryonic stage 4 -- 16
            organism

            Comment: 2-16 hr, rep1, 75nt reads

            2-16 hr, rep2, 100nt reads

            (FlyBase Curators, 2016-, Daines et al., 2011)
            embryonic stage 16
            organism

            Comment: 14-16 hr, rep1, 75nt reads

            (Daines et al., 2011)
            second instar larval stage -- third instar larval stage
            organism

            Comment: 48 to 120 hrs post egg-lay, rep1, 75nt reads

            (Daines et al., 2011)
            late third instar larval stage
            organism

            Comment: wandering, rep1, 75nt reads

            wandering, rep2, 100nt reads

            (FlyBase Curators, 2016-, Daines et al., 2011)
            pupal stage
            organism

            Comment: aged 1 to 5 days after collection as third instar larvae, rep1, 75nt reads

            (Daines et al., 2011)
            pupal stage P6 -- pharate adult stage P10
            organism

            Comment: aged 72 hrs after collection as third instar larvae, rep1, 75nt reads

            (Daines et al., 2011)
            adult stage | male
            organism

            Comment: aged 2-3 days post-eclosion, rep1, 75nt reads

            (Daines et al., 2011)
            adult stage
            organism

            Comment: aged 17 days post-eclosion, rep1, 75nt reads

            (Daines et al., 2011)
            adult stage | female
            organism

            Comment: aged 2-3 days post-eclosion, rep1, 75nt reads

            (Daines et al., 2011)
            Vector of progenitor construct
            Description

            Umbrella record for 12 collections that differ by developmental stage, from embryos to aged adults. RNA junctions identified and characterized (presented in GBrowse and in RNA junction reports).

            (Daines et al., 2011.3.30)
            Additional data
            Sample preparation
            Collection preparation
            Mode of assay
            Data analysis
            Cell lines
            Observed in
            Not observed in
            Collection: modENCODE_mRNA-Seq_EXTRA_junctions
            Symbol
            modENCODE_mRNA-Seq_EXTRA_junctions
            Title
            Exon junction identification (low confidence) from RNA-Seq assays of D. melanogaster, iso-1 strain, 30 developmental stages.
            Source and Progenitors
            Species of derivation
            D. melanogaster
            Strain of derivation
            Stage
            Tissue/Position (including subcellular localization)
            Reference
            embryonic stage 1 -- 4
            organism

            Comment: 0-2 hr AEL

            (Graveley et al., 2011)
            embryonic stage 4 -- 9
            organism

            Comment: 2-4 hr AEL

            (Graveley et al., 2011)
            embryonic stage 9 -- 11
            organism

            Comment: 4-6 hr AEL

            (Graveley et al., 2011)
            embryonic stage 11 -- 12
            organism

            Comment: 6-8 hr AEL

            (Graveley et al., 2011)
            embryonic stage 12 -- 13
            organism

            Comment: 8-10 hr AEL

            (Graveley et al., 2011)
            embryonic stage 13 -- 15
            organism

            Comment: 10-12 hr AEL

            (Graveley et al., 2011)
            embryonic stage 15 -- 16
            organism

            Comment: 12-14 hr AEL

            (Graveley et al., 2011)
            embryonic stage 16
            organism

            Comment: 14-16 hr AEL

            (Graveley et al., 2011)
            embryonic stage 17(i)
            organism

            Comment: 16-18 hr AEL

            (Graveley et al., 2011)
            embryonic stage 17(ii)
            organism

            Comment: 18-20 hr AEL

            (Graveley et al., 2011)
            embryonic stage 17(iii)
            organism

            Comment: 20-22 hr AEL

            (Graveley et al., 2011)
            embryonic stage 17(iv)
            organism

            Comment: 22-24 hr AEL

            (Graveley et al., 2011)
            first instar larval stage
            organism

            Comment: 42-44hr AEL

            (Graveley et al., 2011)
            second instar larval stage
            organism

            Comment: 66-70h AEL

            (Graveley et al., 2011)
            early third instar larval stage
            organism

            Comment: 83-85hr AEL

            (Graveley et al., 2011)
            third instar - uncleared gut stage
            organism

            Comment: indicated as puff stage 1-2

            (Graveley et al., 2011)
            third instar - partially cleared gut stage
            organism

            Comment: indicated as puff stage 3-6

            (Graveley et al., 2011)
            third instar - cleared gut stage
            organism

            Comment: indicated as puff stage 7-9

            (Graveley et al., 2011)
            prepupal stage P1
            organism
            (Graveley et al., 2011)
            pupal stage P5
            organism

            Comment: aged 12 hrs after collection as white prepupae

            (Graveley et al., 2011)
            pupal stage P6
            organism

            Comment: aged 24 hrs after collection as white prepupae

            (Graveley et al., 2011)
            pharate adult stage P8
            organism

            Comment: aged 2 days after collection as white prepupae

            (Graveley et al., 2011)
            pharate adult stage P9 -- P10
            organism

            Comment: aged 3 days after collection as white prepupae

            (Graveley et al., 2011)
            pharate adult stage P15
            organism

            Comment: aged 4 days after collection as white prepupae

            (Graveley et al., 2011)
            day 1 of adulthood | female
            organism

            Comment: aged 1 day after eclosion

            (Graveley et al., 2011)
            day 1 of adulthood | male
            organism

            Comment: aged 1 day after eclosion

            (Graveley et al., 2011)
            day 5 of adulthood | female
            organism

            Comment: aged 5 days after eclosion

            (Graveley et al., 2011)
            day 5 of adulthood | male
            organism

            Comment: aged 5 days after eclosion

            (Graveley et al., 2011)
            day 30 of adulthood | male
            organism

            Comment: aged 30 days after eclosion

            (Graveley et al., 2011)
            day 30 of adulthood | female
            organism

            Comment: aged 30 days after eclosion

            (Graveley et al., 2011)
            Vector of progenitor construct
            Description

            Additional low confidence modENCODE junctions identified by RNA-Seq analysis of cDNA prepared from polyadenylated RNA.

            (Graveley, 2011.11.3)
            Additional data
            Sample preparation
            Collection preparation
            Mode of assay
            Data analysis

            These junctions were excluded from the original exon junction identification analysis because they supported gene merges and were not cross validated by another data source. The full list has been provided to FlyBase, and only those junctions that come to be supported by additional evidence are made public.

            (Graveley, 2011.11.3)
            Cell lines
            Observed in
            Not observed in
            Comments

            Reviewed, but not incorporated into a FlyBase gene model.

            (FlyBase Genome Annotators, 2014)

            Predicted Novel Junction.

            Stocks (0)
            External Crossreferences and Linkouts ( 0 )
            Synonyms and Secondary IDs (4)
            Reported As
            Symbol Synonym
            2L:13508021-13508189
            (Daines et al., 2010.2.8)
            Dmel:r5:2L:13508021:13508190:+
            (FlyBase, 1992-)
            Dmel:r6:2L:13508021:13508190:+
            (FlyBase, 1992-)
            chr2L_13508022_13508189
            (Graveley, 2011.11.3)
            Secondary FlyBase IDs
              References (4)