DmeINT0032828 @ dm6
Intron Retention
Gene
FBgn0027339 | jim
Description
The gene jim is referred to in FlyBase by the symbol Dmeljim (CG11352, FBgn0027339). It is a protein_coding_gene from Dmel. It has 8 annotated transcripts and 8 polypeptides (5 unique). Gene sequence location is 3L:22789233..22835194. Its molecular function is described by: RNA polymerase II cis-regulatory region sequence-specific DNA binding. It is involved in the biological process described with: regulation of transcription, DNA-templated; regulation of chromatin silencing; dendrite morphogenesis. 46 alleles are reported. The phenotypes of these alleles manifest in: larval dorsal multidendritic neuron ddaC; embryonic/larval hemocyte. The phenotypic classes of alleles include: neuroanatomy defective; viable; lethal; fertile; lethal - all die before end of pupal stage; some die during pupal stage. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of extremely low expression. Peak expression observed during late larval stages, at stages throughout the pupal period.
Coordinates
chr3L:22789233-22799190:-
Coord C1 exon
chr3L:22798802-22799190
Coord A exon
chr3L:22798479-22798801
Coord C2 exon
chr3L:22789233-22798478
Length
323 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTT
5' ss Score
6.3
3' ss Seq
AATTTATTTTCACCAAGCAGGGC
3' ss Score
4.11
Exon sequences
Seq C1 exon
GCCAAAAGATACTGCCCGAGGTGCTGCAGCATATCGGCGTGAGACCGGCAAACATGCCGCTCTACGTGCGGTGCCCCATCTGCGACAAGGAGTTTAAGCAGAAGACGACGCTGTTGCAACACGGCTGCATCCACATCGAGTCGCGGCCGTACCCCTGCCCGGAGTGCGGAAAACGTTTCCGGCAGCAGTCGCATCTTACGCAGCACCTGCGCATTCACACTAACGAGAAGCCCTTTGGCTGCATGTACTGTCCGCGATTCTTCCGCCAGCGGACCATCCTCAATCAGCACTTGCGTATCCACACCGGCGAGAAGCCGTACAAGTGTGGTCAGTGCGGCAAGGACTTCCGTCAGAAGGCCATCCTGGACCAGCACACGCGCACCCACCAG
Seq A exon
GTAGTTGTAGCCTGGCCTCAGCCCGCGTAGGCTCTATTTCTCAAAATCAATTTAAATTGTGAACTTTAATTTCTAATGTCAAAGCAGTAGGCCTCGGTAACCATTGTTAGAAAGTCCTAATGCTTATAGACATGTACATATGTCAAATCTTATTCGCAGATTATTTTATAAATTATTTAATAAATTTATTAGCTAGCCACTTCTGAGATCGTACTGAAATTTCACAGTGCTCTTGATTGATCTTATCATGAAATTGAGAAATCGTTCCTGAACTATCTACCCTAGTCTGAGCTCTAATCTATCAATTTATTTTCACCAAGCAG
Seq C2 exon
GGCGATCGTCCATTCTGTTGTCCTATGCCCAACTGTCGTCGGCGCTTTGCTACGGAGAATGAGGTTACCAAGCACATCGACAACCACATGAACCCCAACACCACTAAGGTGCGCCGACAGCAACAGCAGCAGCACCAACAACAGCAACAGCAACAGCAGCAGCAGCAGCAGCAGCAACAGCAGCAGAATAACAACGCTGTCGCCCAGGTGGCCAATCACCTGATGAACGACGCCAAGAGCCTGGCGGCCCAACAGTTCCTCAACAACAACAATCCCTCGGCAGTGGACAACAAGGCCAACATCCTTCCGGTGCGCAGTATAGCATCCAACGCTGCGGCAGCCGCTGTTGTCCAGCAGTCCGTAGTAAAGAACGAGCTCTATTTTCCGCAGTGCTACGGACCACCCTTCCAGCATCCCTTTCAGGCACAGCAGCAGCAGGCCCAACAGCCCAGCGTGGCCCACGCAAACGGAGGACCCACTCCACCCGTAACCGTAACGGTGGCCAACTCTGTGGCATCCGGCGTGGTGGTTCAGCAGAATGCTTCTGCCTCTGTGGTAGCCCAGTGACATCCCACCACTGCAGCAACTGGGGCACAACAACAGCAGCCATCGGCGCCGCAGCAGCAGCACCATCCGCCGCCACCTCCGCCCACGTCGACCGCGCATCACATTGCATCAGCGGCCGCCGCTGTCACCGCGGTCACGCCCTCATCCGCCCACGCCTCACCAGTTGCGGCGCCACAGACTGTGACGCTCTCGATCACGCTGCCGCCGCCACCGGCCTCCCATACGGTCCATCCGGGTCACCCGGGTCATCCGGGTCATCCGGGCGTGGCTAACGGGGCAGCGCCTCCGCCACCAACTCTATCACACGCGATTCCCATTCATCCACACATACACTCGATATTCGGATCTCTATGATGTCATCAGTAGGAGAGACAGGAGCCGGAGGCAGGAATTCAAAGTTAATAAACACAAACTATTCACCATACTTCATAGGTTCGATTAGTTCTTTAGTATTAGACGCAAAACAAATTCTCCTAGTTTTTAAAACTAATCTTAAAATCACAAAACACAGTTTGGTAATGGCAAACGAACGAACCGAGAGGAGCTGAACAGAACGCAAACAGGACGAGTACTAGTCTTTTTGAAAAGGACTCTAAACTTCTTTAATATAAACCATGAACATAAAATGCAAATGGTCAATGTGTAAGAGAAGTAATGAGCAGAATGAAGGAGAGAAACGAGAGCCAAAACACAACGTTATACGATTTCTATTTGTTTTAGCACCCCAACAACTTTTAAGACTAAAAATACATCAAATATTTATACACACAAAAACACACGGACACTTTAGTACAGGCAAATTTCGTAACCCTTAATTTTGGATACAATTAATCGAGGATATACCACTTAGGCGTAATACTAGGATAGCTCCGATACAATGAGTATGAACATGTGACGTGATAGATAGGGCAGCTATTTGTGGCGAAGGCAGAAGGGGCAGAGCAAAAGGTTGATGGCAAAGAATAGGATGGGGAACGCAGACGTTGGCGCTGAGTAATTTGATTTTTGAAGCAGCATCAAAATTTGAGTTATATATACTTCAGATATGTTGATGTATTGGAGTTTTTGTTTAATGCGCATGGTTGATCGATTTACGCTTGGCTCAGCCAAGGGGATTAGCCAATGGGCCACCAAACTCTTATTAGAAATTTCTTTTTCATTTCAATTGATATGTGATTTTTAAAGTGTATAAATGAATACTGGAATGCAATTTAATGATACGATAAATCAAGTATAAGTTATGAAACCTTAAGTACATTGACTTAGGATTCATTTGTTGTCTTCCCCAACTAATTATGTGTAATTTATGTTGAGTTTTTATTTAGTTATTAGGCACGCATACGTTTAACCCAAATATGTCCACACTTTTGCACACACAAGGCAGACAAAAGAAATCAGCTGGAACATCTTGTTTATCAAGCAGGCAAATTCGAATGTGACTCTTCAGGTGCCATACACAAACATAAACAATAGTCAAAAGATTATGGATAATCGCGTATCAATCCTCCAACTTATACTCAGTATAATCTACCGTAATGATGACCACCCGATCCCCACCATCTAAGTTCTTCCCCTGCCAACTGTGTGGATATAATCGACAAATTTAGTTTCTTAACAAATTTTCCAATGTACCGTCAAAGCATTTATAACTGTTATTGATATTTTAGAATATGTTTCCTAAAAAGTATACATATTTTATGTATATGTAGAAAACACCGTGGAAGATAAGAAATTATATTCAGTTAGTCGTTTCACTTTATCAAGTATCTACTCATTATTTCATAAATTTAATAATTAGTCAATTAAGTTTCTAATGCAATCAAAGTAAGTGCTCCGAATACGGTTTGTTTTCACTGTTTTAAATTTAAAGTTTATGAATTATGTTTGGATATTTTATTTAAATTTTTTCAATAAAACAATTATATGATTTATCAGATTTTATTTTGCATTATGTTTTCAAGTATCCTTTGATTTTATCCTTACCAAAGTCTGTTTCTTATGATTCCCCTCTCCAAATGGGGCAACTCAGACAATTCTGGCATTATACAACACTACGAATTTTCGGCTTGGGCAGGCGTCTGGTTTTTGTGATACGAGTGTCGCTGCAAAAGTTTCGGCAACAATGGTTTATTCAAAATTGTACATAGAATGTTTTGGCAAAAATTAAATGTAACTCTACAAGCAAAAGTTTTATTAAAAGTTTGAATGAATTGTTTGACATTGTAAAATATTAAATTACGCCTACGGTTACGGTAAATTTAGTCAAAATTTTAAAATCACTTTTTAGGCACATTAAAATTGCACATCTAAATCAAAATTGAGAGCGGATCACGACGAATAATCCAAAAATATTGCATGCTCCGTCACAGGCAACCAACATCCAAAAATTGATATGGTACCCAATATGGTGGCTTTTATTGGAATTAGACAAAAGGGACTTGATCAGAATGATCTGATCAGCATGATTTGCTATAAAAACACAAAGTTTATCATTAAGCTCTAGCAAACCTTTAGGCCTTTTAGACAAAATTTTATTAATCCTTTCGGCTTTAAAAAATCGAAAATGTAAAATCGATAATAACATACGACGAAAACACACATGAACCCTTTGGCTTTAAATCAAAATTATGTTTAGTTTTAGTTAAAAAAAAAACAAATGAAAATGTTTATGAGAACGTTTATATCAAAGAAAATTATGGCAAATTATGCTATAATTCCAATAAAAGCAAAATTTAGACTGAATGTCGCTGTGATAAATGCAAATTAAAAACAAACCTAAACGTAAAACTTTTGTACATTTTAGGCATTAACACAAAATTAAAAGCATACTCCTAATCAAAAAAAATCATAAATTTAGGCGCAACAAAATCTAGCATAAAGACAGAGACTAAGAACAAAATTTTAAATGCTCCAAAATCATTTTGCAGAACATACTGGGAAATACAAATTGTCCTACCATGTTCTGCAAACACTTATAGTTTTCCAATTACCTATTATTTAATATACTTTGAATTTTGTTTACATTACTAGTTTGATTAAGTATTGTTTATTTAATTTGATAGTTGCTAACCAAACTGAATAGCAAACATGAGTTATAAGAAAGCTGCACAATGTAGTACACCAGCTGCTTCAGTGGAATTTTGCTCTTAGAAGTCTTCTAAGAAGCATCAGTAAGTGAAGACAAGACCGTAGATCACACCGGCCGTGACATTGAAAACATAGAAACTGCATTCTAAGGTACATATGTACAAATGTGCATTTATGAGAACGTAACAGTTGAGATGGGGAAACATTTGGGATGACTCAAGCCTAGAGTGACAAAGGGGCTACGACGTGACTAACCGGATAGACCAGACCGAAACAGAACCATAATAATGTAAAACCCGGACAAACCATCGGAGGATATAAATGCTGCAGATAATTACTGATAAAGAAATAGGAAAACCAATCAAAGTTACACGCATACCTAACAAAAAACAATAGCCCAATTTAAATAACCAAGAGTACAAATACAAGTAATTTTTATAGCAGAAATTTTAATTGCAGTTTCAAAGAGCCATAATAAGTATACATAAGTAACGAGTAACCATATTGCAAACCCAAGAAACACAATCACACAAGGTAACAGAGGCATGAAAAAATACATATTAAACTTGGCACATCAAAATCGACAAAGAAAAATCAGACTTGACAAAAGTAAAATTATCTAGAATCTGCGTTTCGATACGAAATCATGACACCCCGAAAATCCAAAACAAAAAACTAAAGTGAAGAACATAAGAAAAATCCTTTCTTCTTAAAATTGAAAACAAATTATAATACCGATGAATAATATATGAAAATGTCAAAATAATATTTGAGAATATTTCAGAAGTGATTACATTTCCGGCTTACATTTCCGACTCAGAATATACATAGCTCAATACCAGAGACAAGCAATATTAATAGAAAATGCCCACAACCAACATACAAACATCAATGAAGCAAACTCGAAACAGAAAATATTAGGGATAAAGGGCAGTGTAATCTAAGGAAAACTCAGCCCTTCGCCCTAAGATTTCCAGAAGCGAATGCATTATAATTGAGTACAGCCGCTTTCTGCAATAGTGATAATAGTTTTTAAGTCAACCACCAAGCATAAAAGCAACCAACAAACAAAATATAAATCAAGAGATCAGCTAACAGAAGAGATTATTAAAAAATAGATAAATACACATTGAAATAGCAACGGTAAGAATTAAAATAAAAACTGAGTCATTATAATGACGATGATTCTGAATGATAACAATTTGAAATGATAATATTTGATAGCACACAAAAACCCATTCAACATCTGTTTGATTTGATTTGAGATTGTAAAGATTGTAAACACCCAGCTTACGGATTGAATTCCAGTTACAGAAATATTTTTAGTTCAATTACCAAAAATTCGAAAGGGAAGCGATTACCGAATAAAGAAATGGATTGATGTCACTCAAACTAATGAATAAAATAAAACAAATTCAAAGCAAAAGCAAAAATAGTTTCAAAAAACGAAGAAAATAGAGTATAGCATATGTAAAACCCTAAACTCTTAAATTATATGTATGGTGTATTATATTTTTTAAACTATTTAAGGCATACTCTCTATATATATATACGATATATCTACTTATATTTAACGTAACCCCTTAAAGTTTGTGACAGCAGCTAGCTGCGTATATAGGAGGAACTACAGACTTTTATTGAATTGAACGCCAGTTAAAAACTAATACAAGATCACAGAAATTCAAACACATCTTGTTTTTGGCTTATAAGCACCCCAAAAGTGAATTGAAATGACGAAATGAAATCCAAAACAAAACAACAATAGCCTCGTTAGTTGTTAATTCCGCCTATGGCGTTATTGATAAAAACTCTATATTGAAATTATTGCAAATATCTGATCGATCAAGGCATAGAAACTGTACTGGGTCCAGTGTATATCAGAGTGTCCTAAAAGTGGTGACAAAATTACCTTTTCTACCATTCAAGCTGTAAGAATCAAGAGAAGAAGACACAATCTAATCCTATAGGGAAGACTTCTGAGCTTACAATTCGAGCGAAGTTCAGTTTGAATCTCTGCGGAACCAAATTATAATTAATCGCCTTCAATTTTTTAGTCAATGGCCCAAACTCATTCTATGCCTATGAGTACGTTCATTTTTTGCAATAGACACCATGTGCCCATAGAACAAGTAATTTATTGCAGACAGAAATCAAATAATTTATTTATATTATATACGAAGTTGTTTTTGCAACAGGAACGAACCACAAGCCGAAAGAAATAGTACCGAAAATATTTTACAGAATTTTTACAAGAAACCGACAAACCAACAAGTAAATACAGCTCTTAAATAAATAGAAAATCACAATATCAGCAAACACAAGCATAGAGGTACTAAAATAAACCAATCAGACAGCTTACAACTGAAAAAAAACAGCAAAAAAAAAATAGTAAAAGTCGACGAAAACGCCGAAAAAACAAACTAAAAGGAGAACATATAGTAACATTTACTTACAGACATTAAAGTATATTCCATTAAGTGTTAAGTAAAGTATTCAAATGAAAAACTCATTTTAAAACGTGCGCTTGCCTGTGAGCGAAGCAAAGATATCCAATCATCACAAGCGATGATTTACGATAAGTTCAATAACCCGATGGATGGATCAGATCAGATTAGATTAGATCAGATTAGATCAGATCAGATTCTGATCTGAAGAACGAACCGAACACAATTTGTTATGTTGGAATTACTTTTATATATACGTTTGTAATTACTATGAACGATTGACAGGGACTACAATTTAATAACTACCATAGAAATAATAACTGAGCAGTGTCAATAGAAACAAATTTTATTTATGCATATAACAATGTCCGCCTCGAAAGCGAGCAGGAAAGCACTTATTATTAATTGTAACTCAACTGAAACTGTACATAAGCAACCACAAACTGCAACTGCAAATGCAATAGTACCAACGTAAGTAAATCAATTATTTCACTAATTTCGCTAACATATAGCTAATGCACCAAGAAAACGAAGAACAGATATGCCCGATCACCAAAGGAACGCTGAGCCGTTCAGCTGAATGAGATAGGTACGATCGAGTTTCATGAATTTACGCTATGAGTTTAATCAGCTGAAAAAAACATATCCCATGCAGAACTACTGACCACTGCTACCATAGCCGATTACGTTTTTGTGACACATCCAAAACAAACTTTAATTTGTTTTTATCAGAAAGTGAGAATTTCATTGCGGACTAACAGCAAACGTTTTAATCGAAAATCAAAGCCATCAGCCGAATCAAAACCAAAATAGAATCAAACAAAGCAATAGTGATATTATACTACCAGGATCAGGACGAGTACCTGCCCTGGGCCAGCCAATAGCCAATAGCCTGATACAAGTAAATAACAATAAACCGAACAAATCTTTTCATTTACAAGATATACAACAAATGCAACGGATACCGCAGCAGCAACCATAGTACAATAAAAACACTTTTTTCTTACCGACCGACTTTTATACAACCGACAGGAGCAAAAAACCCAATTGAGCATTCTAATAGCAAAGCAGCAGCGGGATGATCCTCATGAGGTTGAGGATAGAGGTGATGATGAGATGGATAGATAGCAAGATACAAAGCAGATTGAACCGAATCAAAAATAGCGACAGAGGCGATTTTAAGTATACAACAAGCATAAGGCAAGAACAAGCAAGCTAACTACCTATATACATATATTTTTTAAAGAGGCAAATGCAAAAACCGAGAGCAGAAGTAACAATAGCTAAAAGTTGTTAAGCAATTTCATATTTGAATTTGTATCATTTTGAATCGATTAAATGTAAAAACCAAGTTATACATATATAAATAAAAACCAACGCAGTGAAAATCAAAACAAACGAATGAAAAACATTTTTATATTACAAGAAACAAACTAGAAGAACAAAAATCTCACTTTCCTGGTAAAAATTGAATTAATTGGTACAAAAATAATAAAAACAGATTGCACCAAAACAATAAAACTGGCTTACCGATATCAATAACAACACACGATGTATACACTTTGTTCGCGTTTTGTATAATCTTCAGTGTTAATTTTTTAATCTAAACCAATCCTAGTTTGATAGTTCAATTGTTGATTTAGTTTTACACTTACAACTACAATAACCGGGAAACAAAAACGAATAGGATTTTACATAGGAAAGAACACCCCTGGCAACTATTTCGAATATTAAAATCATCTTCATTTCGGCTGAATCAAAAATGAGGTTCGTAACATACCACTTATTAATTTGCATAATAATAAATGTTTCTCTAAACTATTCAGAAAACATATTCTACATAACAATCTAGAGAGAAAAATAAAACGAAATTATTGCAAACCTTACGAAGAAAAGTTTTGGGACAAAAACTTGCTTTCAAGCGACAACCGATGTCTTTAGATATCAAAATCTGAAAAAGAAATGGTGACTTAACCACTGGCATTGAATAAAAAATACAAGAAACATGTCTTGCGCAAATTATAAATGCATTGATGTATACCTTCTCGGCGATATTCCAAATAAAATTCTCGGAACAACACTAATCTCGGTCATTGCAAAATTGATTGCATAAAACAATGTATACTCAAGTCTTGGCAACTATTTAAAAAAAAATTCACGTTTAATTCCATTTTTCGGAGCAACCAAAAACAAAAATTAAATTTAAGCCAATGTATAAGCATCATTTTTTACATAAAAATTAGGTAATACTACAAGTAAATACTCTAGGACTTAAAAATAAGCAAAAATTAAATGAAAGAAAAGAGGACATCCAAAAAGCGATAAGCAACTTTGAGTATGAACGAAACGTAAAAGGTTAGATGAAAAGCGAATAGTGAATAAACAAAATTCACCGTCATGAAAATAAAAACTACTAAATCCAAAAAAAAGGTCAAATTCAAAATTATAATTGTTATAAGCAAATAAAAACACACTATATATCCAGACAATTCATTACACCAGCCAAACTATAAGTAATCCCTTAGATTACGCATACCAAAAAGAAACACCATGGGACACGCAACTACCACCAAATCACACACCAACATTCTCCACCACACACACACTCAGACCCACACAACTTCCATTGGTTTAGATTTTAAGCATCATTTTAAACTTAATCGTCAGCCAAAAAAAAAAAAAAAAACAGAAAAATACAAAAAGAATCCTATCATGGCAGTCCAAAATTAATCGAACTCACAAAAGAATAAATAAGATTTTAAGGCAAGCAAATATTACCGCGTCAAAAATTAATATTTAAGCAAGTAAACTTATGCAAAATCTTGCGTCGTCTAGTTTAATGTCGTAAAATTTTACTTTTTGTAACAATTAATTAACATTTAAATATATATTCTGTACCAAGCAAAAGAAATGGTAAACGCAAAAGTATTGTAAACATCTATTGAATTACTAATTTCGAAAAGAAAGAAGAAACCAATTTTTCAATAGCTCACCAAATATGAAAATGGAAAAACCAATGCTACGGCGAGTGCAACAAAAAAAAAATCAAAGAATTTCTGGCATCCAAAATATAGAACTACTAAAATACGAACCCATATTATTATACAAGAAAATGATTTGAAATAAATTGAGTCTTGTAATATAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0027339:FBtr0078582:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.129 A=NA C2=0.649
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=17.7),PF0009621=zf-C2H2=WD(100=17.7),PF134651=zf-H2C2_2=WD(100=19.2),PF134651=zf-H2C2_2=PU(29.6=6.2)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(63.0=9.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0303109
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0078231, FBpp0099541, FBpp0305414, FBpp0305415
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGACCATCCTCAATCAGCAC
R:
GGCGTCGTTCATCAGGTGATT
Band lengths:
354-677
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)