GgaINT0005849 @ galGal3
Intron Retention
Gene
ENSGALG00000007388 | SRRM4
Description
NA
Coordinates
chr15:10018238-10022597:-
Coord C1 exon
chr15:10022467-10022597
Coord A exon
chr15:10018250-10022466
Coord C2 exon
chr15:10018238-10018249
Length
4217 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CACCACGCGACTTTTTATAGAAC
3' ss Score
3.74
Exon sequences
Seq C1 exon
ATGGCCAGCGTGCAGCAGGGCGAGAAGCAGCTCTTCGAGAAGTTCTGGCGAGGGACCTTCAAAGCCGTGGCCACACCGCGACCGGAGAGCATCATCGTGGCCAGCATCACCGCCCGCAAACCGCTGCCCAG
Seq A exon
GTAAGGGCGTGGGGAACCCTCGGCTTGGGGGCAGCTCCCTTCTGCAAATGTCTTACTTAGGGGCCGGGGTCACAGGAGACCCCCCCGCCTTGGGCTGGGGGGATCTGAGCTTTCCGTTCTCCCCTCCCCAAGTGATGCTTGGGAAACTTTGGCTCTTTGGAGCCTGGAGTAGTGTTAGGGGCTGGATTATAGTTATGGGGTGGGGGCTCAACCATGCAGCCCCCAGCACATGTCCCTCTGATTGTCTGTCCCCCTCCTTCCCTTGGAGCCGAAGCCCAGGGCAGCAGGGTCCGACAACACAAAATGGGACCAAGGGGCTGCTGGTACCCACTGAGCTCTGCTGGGATGCGCAGGGATTTGTGAGACTTCGTCACAACAACACATCCTCAAATTTAGAGCGTCTTTATTCTGGTGGCTGTCACAATATTGGTTAAGAGCATCCTTGCACTGTTTTTCAAAGGGAGTGAAGCTCCTTTCCATTGCTCAGTGTCACCAGAGTTTGGCAGAGATGTTGGATCGGTGCAGGAGAGGGCTGGGGGATCAGCCTGCACCAAACATCCAAGAGTCCATGGGGACCCCCACTGAGGTCACTGAGCGCTTCCACCTCTCCATTAGTGATCAGTCAGGTTTGGAAATCGGGGAATCTCAGCTTGGGGCACCATGGACAGCAGTGGCTCTTACAGCATTTCCACGCCTGGGCTGCGATCCCAAAGGCTTCACTGCAGAACTGATCTAAAAGCAGAGCCCTCTGTGCCAGCAGGCAGAGGGATGAAGGGAGCAGGGAGCCCAGCACAACACTACGGTGACCATCTGTGTCCCCGTTCCCTCCCAGCTTGGCAGCTGCGGGCAGCGTGGGGTTCCCATTGCAGAAGGGGATTTTCCTCCTCCTGGAGGGGTCTGTGGGTTTCTTGCCTTTCGGGTCCATGCGCAGCCCCAGATCAGAGTACAGTGCTTCCCCACGATGCCCCGGCCCTGCAGATAAAGCCTCTTCCATCCTAATTCCCGACAGGCGCACTGGGAGGTTTGCAGGGTTAAAGCTTCACTAAAACCACATTTCATCCAGAACAAAAGAATACATTAATCCCACCCGTGCCCGGCCGGGGGCTGCGCTCAGGGGTCTGCCCTTGACTCCATAGAGCAAAGGGGATACCAAACACTGTGGCACAGAGGGAAGAGCTGAAGTCCCTCCTTTTCCATCTCCACTTTCTTCTTGCACAGTCTTTTATTTTAAGGCAGTGGGTGGTTGTTCATTATTGTCATTACCCGCACACAGCCCCACGGAGCAGCTGTGGGATGCTGCTTCTCCTTCCATGAGGGGCTCCAAGGGGCACGGGGCTGCCACTGCCCCCTGTCACCCCCTGGCACCCCTAGTACCAGCCACATCCCTGCTGCCAGATGGCTGAAGTGGGTCACCCCGGGCCAGCACAGGGATTTATTTTAACCCCTAATCCCCCAGGATATGCTGTGCTACACGTGGTTTCACTGCCCAATTTGCAATCGGCAGTGATTTCGGGGCTGGGATGGGGCCCAGCTCTCTGCCACCCCAACCTGCAGCTTGCTGGGCACATCCCTGTAGTTCCTTCATCCCCATTGCTCCGCTCGGTCCCCACGTGTCAGCACCGGGCTGTGCTGCCGGAGGGCCCCCGGCTCCGCTAATCCCCCCCTTGTCCATCGGGCATCTGCTCAGCGGGGCCTGGCTGCCATCTGCTCCTTCCCGCGCCCAACGAGCCGCAGCGCTAATGAGCCCATGGCCGCGGCCCAGCGGGGGGAGCGGGCCAGGAGGAGGAAAGCGGAGGGGGGAGAAGCAAAGCCCCTCTGCTCGGGGCGCTGTCAATAGGGCGGCTTTGTCAGCCCCTGCCCGCCGGCTCCAGCTGCACGGCGGCTGCGCTCATGAGGCAGCTCGAGGGGGTGAAGGCAGAACCAGGGATGCCCACAGGACCCATAGAGCCTTCCTCCTCCTTCTCCTCCTCTTCCTCCTCCTCCTGTTCCTCTTCCCTCAGCCCCATCCCTGGCTTGGTGATGGGGCGATTCTCAGTGGTAAAAGTTCATCGATCCCCAAAGGCACCGTCTGCATCCCAGGGCACGGTGAGGCGGTGCGGGGTCTTGTGGAGCTCTGCAGGATGAACCTGGGACAAAGTGAGGGGCTGCAGGGCTTTAGGTCTCCATTGGGGTGAGGGGCTGCAGGAAACCATATGAGGCTAATCCCCCCCACCCCATTCCTGACTCCAACTCAGGAATGGGAGATGTGTCCAAAAAAGTGACTTAGCCCAGCTTGGCATGGCAAGACCCTGTATGGAGAGGGCTCATAACCCTGCACCACTCCTTCAAGGTTTAACTAACAAATATTTGGGGCTGTGAGATCCGAGCATGGCACTCCTTGGGGGGGGGTTTACCCATCCATAGGGCCGGGGCTGGAGCTGAGTCCTTCTCTCCCCCTCCCTGCCCCTCTCCCTGCAGCTGGACCTTCATGCATGTTTTTCCATAATATGAACTTTCCAAAGGCAATCCCTTCCTCAGTGAAATGAAATCATTTCATGCATGACTGCAATTCCTTTTTCTCTTTTTTTTCCCCCCCCCACCTTTTCTTCCCATTAACACTGAAACCTCTCTGTCATTGCAAAGCCCGGAGTGGGGCATTAAATCCCACCTGTGCCTGGGGTTGGCACCGGGGCTGGGCACTGAGGACAGCACTTTGTGTGACCATACAGCAACTGAGGGGCAGTTGGTTGCCTGGAGTGGTCACCCCAATTTGGAACCCATTGGTGCTCAGCAGGCAGAGGAATGGGGCCCGATAGCACAGGAGTAGTGATGGTGCGCTGGTGCGATGCGGTCCTGGTGCCACCACCTCCCCTCCACGGGTAAGCTGAAAGTGCTGACAAACACTGGGAGTGTAAAAATAGCATTTTTTTTTCTTTTTTTTTCACAAGTGCCTTCCCTGCTAGTGCAGCAGGGACTGCAAGGAGAGCTTAAAGAGCTGGAAGTGGGAACAAACTCTATTAAAAGAGAGAAAGGTGCTGGGGAATGCACAGCGGTCCCTGCACTGTTCTTGCCCTTTTCTAGGAACAGTGGGACTGGTCTGAAATTGGTCTCTTTCGGAGCAGAGTTGGGTTGAAAATGACCTCTTTTGGGGCAGGATTTGGCTGAAATTGGCCTCTTTTGGGGCAGCAGGGCTTGCTCAGGGCATCTTGGGGCTGAAATAGTTCCTGAATCCCCATCCTGAGGTCGGGGCTAATTGATCTGCTGACAACCCCGTTCAACACTCCATGTTTAATTGATGTCTCTCCATTGATGAAATGAGCAGCTGGCTGCAGCTGGCCCAGCTCCAGGCTGGTCAGCAGGACCATGGGCACGGGGCTCAGTGCTGCTCCTCCGGGGTCACTCTGCTCGCTGCGCCATCCCCACTTTGCATTCCTTCTCCAAAGCCCCATTTTGGCTCTCAGCTACGTTCCTCATGGAGCAGAGGACGGGGCTCACCTTGCTGTTCCTGGTGCAGAAGCAGCAGAGCCGGCACCCCGCTCACCCTCCCCACTGCTCCGCTATCGATTTGCCCTGACATCGCTTTACCATGCTCTGATTTCTTTCAATCAGGCTTTGAATGAAGCCTCTGCACCGTTCGATAGAACCAGCCCTGGGATGACCCAACTGGAGGTGCTTGGAGCACTCCTGCATCCCCCCCGGAGTATCTGCTGGTGATGCAGTGGCACAGGCTGCCCAGGGAGTGGTGGGGTCACCATTCCTGGAGGTGTTCAAGGAAAGGGCAGATGTTACACTGAGTGATGTGGTCTGGAGCAATCACGGCATGGATTAGGGTTGGACCAGATGACCTCTAAGTGGTCTTTCCAACCTCAATGATTCTATGAGCCCCTGTGTGTCCCATGTCCCACAGCATAAGCCCACTGCTTCCAGGCTGCTGCCTGTCCTCTTTGCCCCAAACCTGAGCATCCCATCATCCACCCACAAAAGCCTTCCCCAGTCTCCTTGGTGGCTGTCCCCTCCTCGGTTGCTCGGTGTCACGTTGGTTCCGGCAGGCTGATGGGCACAGTGCTGTTTGCAGAGATTGCACAGAGCAGAAATCCCTGCACTTCATCTCCAGCTGCAATTACCGAAGCCAAGTCGATGCAGTTGATGGTAATGGGATGGTAACACTGTCTGAATTTGTATTTAATGCTGATTCCAAGGGTCTATAATTTTCATCAGCACCACGCGACTTTTTATAG
Seq C2 exon
AACAGAAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007388:ENSGALT00000011947:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.523 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]