GgaINT0005857 @ galGal3
Intron Retention
Gene
ENSGALG00000007388 | SRRM4
Description
NA
Coordinates
chr15:10000148-10006743:-
Coord C1 exon
chr15:10006593-10006743
Coord A exon
chr15:10000486-10006592
Coord C2 exon
chr15:10000148-10000485
Length
6107 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGT
5' ss Score
9.9
3' ss Seq
AATGGCTTTTTTGCTTTCAGATC
3' ss Score
10.96
Exon sequences
Seq C1 exon
GCACAGAGCCAGGTCTCGGGAGGAAGGGCGTAAAGCACGGCGGAGACGCTCCCAGCGCCATGCAAAAGTCCCAGCAAAGAGAAGCTCCTCTGCAGAGGTTCAGGCCAGCCAAACCCTCCCACTGCACAGCTTCCTGTCTCCTAAGGAAGTC
Seq A exon
GTAAGTATTACGCACTGGGCTTCTTTGCTTTCAGTAGCCACGGGAATATGGGCGAGAAGTCTGACATGAAATTTGTATAACTCGATTATAGTGATGTTAGACAAAATTTGTTTAAAACAGCATTACTTATTAACGGTGCTGTTCTCCAAATGGATTTAGAGTCATTCATTCCTTCCTTCAGCACTTCCTCTTCAAGAGTGGGGTTGGAGAGGGGAAAGATGTGGTGAGTCTCTAGCCTCTGAATAATGAATTGAAGACACTTAACATAAAAAAAAAAAAAAAGAAAGAAAAGGAAAGAAAAGAAAGTGGCCTTCAGCAATGATATTTCACAGGGATGTGTTTGTTATGCAGTCTTTGCTCAGCTGAACGTGAACTTAATTCATCGGTCTTCATGTCCGAAAGTTTAGTCCTTCAGGGGTAAAAAAGGGAATCAGACGTATATAAAGGAAATATTTACATGTAATGAGTTGGCGATTATTGGCAGGGGATGTTTTCTATTGGGATCCTTCTGAGATCGCTGTTGCTCTGGACTGACAAGCCCAGGGGCCAACTTGAGAGCTTGTGTGCAGCTCTCATTGATGCTAATGGGAACTGCATGTGCAGCCGAGGGTAAAGTCAGTCTCAGTGCCTTGGGATGTTTTTCCATATACATGGAAAGAGATGATATAATACATTCCTTAGAACAGAAGGAGCAAAAATGGAGAGAAATCTTAGATAGCGGTTGATATGAAATCTTTGTTTCCCATGGCACATTTTCCCCTTGTTCCCAGTAGCTGCCAAGCAGAGGTGTGATGTTCTTTGATCAGTGTTAGTATCTGATGGGTGTTCTGGAGAGGGGCAGTGCTGCATAAGACCTGAGGTAGTACAGAACCTGGTGCTCGTGTGTGGATATGGAATGTTACCAGTGGCTTGAGTGGAGTCCTCTGAGCCCTGAAGTGGTATATAGTGGGGGACTGACTTTCTACTCTTAAGCCCAGTCCTCACCTCGAAATAGCTCAGCCATACCTCAGATAGAGGAAATAGTGCCAGCAAGAGGAGGCACTTTCTCTGCTCACCTACACAGCTGGCATTTCAATCACAGTACACAGAGATCATATATGGATACAGACAGGCACAAGCTGTCTCCCAGAGTCGTAGACACATATTTACTCCTGTCATATACACCTACTGAGTGTGTAGTGCACAACTGAGTCATTGCTTATAAGGCCATGTAAGACAGAGCATGAGTAGCAGAACCTGCACGCTGTGCTTACGTGTGTGTCCCTACAGCAGCACATGCAAAGAAAGAAGGACAAGCTGCAGAGCTTTCATTGCCACCGGCCTGGGGTGGTACCCTGTGTCAACTCAGCAAGGTCAGGGTGAGTTAATGACGCAGGGAAACCAATGGCAAAAAGACCTTTACTCTGCAGACCATTGGTGTCCTCTCTTTTCCCAGACAGAAGTCCTCTCTCTTGGGACATCGTTCAAGAACACATTTATGCACTTGTTTAAATTGAAGCCCCTGGCGAAGTGCTGAAAAAGGTCTTTAAATATCAAGTACTCAGAACCAGCAGGGAAAAATGGAATGGGAGCTTTCAGTCTTGTCTGCTAACGCTATACATTCTCTGTCACACCCCCTGGCCTGGGCTTCCAACCCAAACCCTCCTGACCTGGGGAGATTCACTGTGATATCTCCAAAGGAAAGTGATGGTCCGGGGAGGGCTCTGACACACAGAAGAGACCCAGACAGGCAACACACAGACTTCCTCGAGGTAATGCTACAGCATTTCCAAGTCTGTTCTTAAAAAAAATATTTAATGTTTGGCCAGATTTTGTTCTATTTTCTTCTGAAAAATGGAAGCATTCTGCGGTAAACCTTGTCTGCACGCCTTTTGTCCATTCTTTTCTATTGGAATGACCACATCCAGCTCAGTTTACCTGCAATCTGAGGGATGAAGCACACAGAAGGGTGCCCGGTCCAGCATCCACCTCACTGCTTCTTCCCCTCTCGCCTTTATGTGCAAGTTGGCGCATGCATGAGCATGCACACATGCAAAAACACCCCCAGAGCTCCCTGCTTCTTTTGAGCAACGAATTTCCAAGCTTCACAAACTTGTTTTTTTCCTTTAATCACACGCAGCCACAATAGGCACCTGTTGAGAAAGAGGATTGTGAGGCTGTGCCTCAGCATGCAGAGAAACTGGTAATACGCTGCTGCTATATCTGAACATTAACAGCAACCCCCTGTCCTGCTGCAGACACCGTTCCGCATTGGTACAGATGTATTCCATGCCCTTGTGCTTCTGGTTGAGCAGAGCAATATAAATACCTGCAGGGTGTGAGCTTAATTGCCTTTTGTTGTACCTGATAAAGATAACTGCACACCGCATCTACCTTCCCTGCCAGCTCCTTTGCTTTCACTGAAGCTCGTTTGCAATGTCACTAATTAACACAGGCTTGACCCAAATTTTCAGGGAGGCTCAGTGGGGTCTGGTTGTTCCAAGCAGCACTGCCTGTGCTGGCATGCCTGCAGGGTGGTACAGGTGGGGCAACACAGTGCAGGGATGGGGACAGTGTGTGCAAGGGGGCTGGGGGAGGCTGACAGCACGCCTGCAGACTGCGTTGCTCTTGCTCTCTGTTTTCCAGCCTGGGTTGTGGTTTCTATAGGAAAAGCTGCTCTTTTAACTGCTGCACGCCGTGTTTCTGATGACAAACAGGGCTCTTCAGTGGCTGGAAGGCAAAGCCTTCCCTAAACATGAAAGCCTCTCTCGTTTGCTGTTCCTCCAAGCCAGAGGACTGAATGTACCCCTGGTTATCACCTGATAAATTTGCAGCTCAGTGCTCAGGCGGAGGCAGGAGAGTGTGCAGCCATGGGAGGACCAAGCAGTGCCCCAGATACCCAAAGGAGGCAACACGATGCAAACCCTCACCCCAAAACTGAGCCAGACCAGCCCAAACCGAGCTGGATGTGCTCACTGCAGCGGGCTGAGAGGAGTTTTGCACTGATGTCAGCTCAGGCAGAGGGTTAGCAGAGCCCAGCCCATCTCCCCATTAAAGGGCAGCCCCCTGGGCCCCACTCCCTGCAAGACAGCAGGTGCTGCGGTGGCAGCTGTCCGCGGGGAGCAGGGGTCACTGCTGTGAGCTTTGTGTGCCTTTCATTGGTACAATGCACAGACAGACAGAGGGAGGGAGACATTATGCACTTCTGAAAAAGAAATTAACTCTTGTTTTGCGACTCATTTCAAAGCAGAGAAAAAGACCCCAGAAAAACCCTCTGGCAATGAGCGGGGCTGTGCCGTGCTGCTCACTGATGGGCCTCGGTCCCCTTATGGCTGAGAAAATTTATAGTCCTGTCTCTCCTCGAGGCTGTTTGAAGCACAGTAAATGAACTCGTTGAGTTTAATTGGAAGACGAGCAGTGATTGTATTGTTGTAAGCCATTAGGCTGCACCGCCTCTTGATCTAGGAGCGCACTCAGCGTTGCGTTGTGCAGCATCAGGGCCTCGTTTCTACTCGTCCCTTCATCGTGCTTAAATAATGATTTGAAACAGAAAAAATAACAAAACCCAAACAATAAATACATATCTTGGGTTCTCTTGAGGGCGGCAGTATGTCTCACGCTGAAATCATTGAGATTATTTAATTACTTATTAGAGGGGGGAGGAGGGGGGGATGCCACATGTTCACACGGAGAAAATTAGATTCACAGAAGACCAGACTCCCTAAAAGACACCCTAGAAAAAAGAAAAAGCCATTAGAATTCATTTGAACTCTGCAGCGTCTTCAGACGCAGCTCATGGTTCCCATTTTGGGTGGCAGGAAAATGGAACCAGAGGCAAAGCCAAGGTCACCAGATGGGGGAATTTGCCTCTGTCCAGCACCTCAGTGCTTGTCCTGCCTCCTACCACTGGACAGAAACCACAGGCCAGGCCTTCCAGCCCTCACAAGGACATATTCTACTTCTATCCATGTTACCTCTTCCCAGAGTGCTGCTATTGCAGTGGTGGAGCTACAGAGAGGCACTGGGGGATCATTGGGTTGACAGCAGCTGTTACTTCAATGCAAGCAAAACAATAGTTTCTCGCAGTCCTAGGTCCCAGGGGTAGAAATGCCAAGAAATGGGTGGATTTCTTGGCTGGGAAGAACTAAAAGCTGTTTGGCTTGGACTGGGAGGGAACAGAGGTGAGGGAGATGCACATGCCCACCCCCAGACTCCCACCTCTGGACCCAGGGAGTACTTCACATGGTGTTTTTATGCCTGTAGATGAAATGTAGCCAAAAGCTGGCTGCCTCTCGGTCAGGGTTCAGGTATAACACAAGCGATAATCTTTAGGAAAAACCTGGTGCCATGTTTGAAAGCACAGTCTTGTATATTATGGGTTGTGTCTGGGGAGAGAGCATGGTTCTGATCGTGGAGGCCACGTCCCTTGTGTCTTTGGGTGCAAAACAGAGCAGGGCCGGACCCCCAGCTCTGTTACACTCCTTTGACATCTCTGGAGTATACTTCTGCTGGAATAAACAAGAACTGGCAGAGAAATGGCAAAGAGCAGTACCTGTGCTGCAAACCCTGGGGCCTGGAGGAGGCCGCACAGGGTGCAGATGTGCCAGGTCTGTGTTTGTCCTTAATGCTCCCCATCACAAGGGCAGGCACTAGCACTCATGTAGCCTCGCTGACCAGTGCTGGACTGGCTCTGGTAGATGCCAGTAGAGATAAAACTGAAGAGATAAGACATTCAGATGATGTAAGTCCCCTGGTGGTGTACGGGGTCCCAGCTGACAGCCCCAGCCAAGGCAGCCAGCACGGCCGTAGGGTCCCTGCTGACCCATCAGCTTCAGCAGCCTATCAAAACCATCATCCCTTTCCCGTAGGTCTCCAGTACAGCCAAAGTGGGGAAATGTTGTTTCCCCCTCGACTTTATTTTTGGCTTCTTCGCTTGAGTTCCTTTTGCCACTTCCACGTACCCGCGGGCCACCATGAAACCCAAGGGGATTGAGCACAAGCCACGATTTTCCAGCACAAGTCATCAGCCCCCAGGAACTGTCTGGGCAGCCTAATGTAAAGCAGAAGGAAACAAAAATAGGGAATAATAAGTGAGAGAAGCGAGCAGACAAAAAGCAGTTGTGACATTTACATAGCAGAGTCAAGTGAACAGTTGGCAGTGTGGATTGAAGAGAGGGTTTATGTTTTTTTCATGTAATTTGAGACTCTAATGATGGACTTATGTTGCCCGCTCTTCCTTTTTTCTTACACCTTACCTACTAAAGGAGGAGTTCTTGATGGGTAAGTGGATGCTATCCGCAAGACACCAGGGAATTTATTAGAGGTCACTTGAGCGCATTAGCTATATCTTCTTCAGGGGGAAAAAAGCACACAGAGAAGTGTCTGTATACCTTTTATTTCCAGAGGGATTTTTCTTTTTTCCCCTTCTCCTTTTTTTTTTTTTTTCCTTTTTTTTTCTTTTTTTTTCCTTTTTTTCTCCCCCTTTCTTAGTTTTTATTTTCAAAGTGCTAAGCTTGTTAATTTGCCAATTTGTACAGAAGCTCTCGTTTGATTTGCTTTGATTTTTCTTTACTTATTTTTGTGACATTCATTCAAAAATTCGCTTATTTAAGCATTTGTTTCATTTTTGTTTTTTTTTCCAAGGATTATAAAGTTGTGGTTTTTTTTTGTGTGTGTGTGTATATATATTCCCGTTCCCTCTTTTGTTTCTTTTTTTGCCCTCCCCCTTTTAGGTTAAATAAGGGCTTTTTCCTCTGCTGCCCCTTTTTTTATTAAGTTAGCCCATTACTTTGATTCCTTGGTTGCCCGTTTACTTTGTTGAACTCTTTCGTTTATCATGGATCGCATGCTGATACTCTTTGCATGATCTCTAGATCTTCCCGTTATCATAGCAGGGGGAAAAGGAGTTTCTTCTTACTGTGGATTTCTTTCAGGGATATGTGCTTTTGTTTTCTTCTCTTTCTTCTTTTTCTTTCTTTCTTTCTTTGTTTCTTTCCTTTTGTTTCAGTGCATCATGATGATAAAATTTCTGGGTTTATTTAAAACATAAAATAAAAGCAAAGTAAAACCAAGAGCAACACTCCTCAATAAAACATTCAAACAATGCCAAATGGCTTTTTTGCTTTCAG
Seq C2 exon
ATCTCTCAGTCAGGGTCTTCTGCTGACCTCTTTACCAAAACAGACAGCCCTCCTGGCCACCTAGCCAGCCAGAACGGAGAGTGTCATGAATATGACTCAGGAAACGACACTTCTTCCCCTCCCTCCACTCAAACGAGCTCATCCAGGTCAAAGGACAGCCAGGAAAAACGAAGTGTAGCCCACGATGGCTTTGGCCATGCCTTCTCATCCGGGAAGCCCAAAGTGGCCAACGGTGATAACAGCTCTGATTCAGGAAATTCCTTCACCAGTTGCTTTTCCCAGACCAAGGCAATGGCTTCGGAAAATCTGTCTCCAGATGCCCATGGACAAGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007388:ENSGALT00000011947:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.956
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 1 annotated functions for this event
PMID: 27984743
Likely leads to nuclear retention and reduction of SRRM4 protein levels upon prolonged neuronal activity.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]