GgaINT0070622 @ galGal4
Intron Retention
Gene
ENSGALG00000010081 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:HGNC:30418]
Coordinates
chr4:32715608-32717733:-
Coord C1 exon
chr4:32717532-32717733
Coord A exon
chr4:32716607-32717531
Coord C2 exon
chr4:32715608-32716606
Length
925 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CTTTAATTTTCTGTTAGCAGGAC
3' ss Score
6.12
Exon sequences
Seq C1 exon
CTTCCTCCGTCTTATGAGCAGGTGATAAAGGAAATAAATCAAGTGCAAGTGAATACAACAAATAACAATAATGCTGCTGCTCCTAGACATACCACTACTTCTGCAACACAAACTGACTTTCCAGAGGAATTAATCAGCCATTTGCCAGAAAGTAATGTAAAAAGTGGTGTGCCTACACACTGGGAATCTACAAACTATCCAG
Seq A exon
GTGAGATCTTTTTGAATTCCCATTGATGAAAATCCTAGTTGGTTTCCTGAAGATGTTCTTTGTTATTCATCTCAAGCTGTGCTAGGGAAGGTTCAATTTGGATATTAGGAAAAAATTATTCACAGCAAGGGTTCTGATGCACTGGAAGGGGCTGCCCAGGGAAGTGGTGGAATCACCATCTCTTGAGATGTTCAGGAAACGTGTAGGTGTGGCACTGAGGGACATGATATAGTTGGCACTGTAGCATAGAGTTGACGGTTAGCTTAGATGATCTTAGAGGTCTTTTTCAACATTAATGATTCTAACATTCTGTCATCTGTGCAACAGTTGTCATGAATAACAGTTACATTTCTGTGAATGATTGATACTGTAAATTACTGCAAAACTCCTCTTTTCTGAAGTATCATTGCATTCACCTTTAGACTTCATTTAAAACTTCTCTAAGATGAATAAAATCATGTGTCGTTATGACTTTGTAATAAAAATCTTTACTGTTTTGCTCAATTCAGCCATATTGGCAGTTTTGTTCCAGTAGAGCTCACATATCTAATCAGAATAACAGCAGTGTTACACATTCAAACTGGAAAGTAACTGTCTGGATGTGTGTAATACTCAGCTGAGGGAATTACTGTACTGTTCTTTGGCCAAGATGTTACTTGTATACCCTTCCGGCTGCAAGCTAACAAGTAATTTTGAATTCACAACATGCAGATGCCATGCATTTCAGCAATCTTCAGTTTCTTCGTGGAGTTTATGTATTTTTTCTATTTCTCTCTTTTGAAAGAGAGTTTCAGTTTCACAAGCAGCACTGTGAACACAGTTCTGAGCAAAAACTATTGTTTCACATTCTTATGGCCAATAGAAAAGTAATATAAATACGGTGTTCTATAATAGGTAACTGAAACCTTTAATTTTCTGTTAGCAG
Seq C2 exon
GACCGAGTCCCCTGAAACCTCCTAGGCCTTCTGCATCTCTCTTGAACAGATCTTCTTCAGAAAATGAGACTTTCTTAATAGTTCGTGAAAATTCTGAAGGTCAAAGGCGCCAAGAAAATCCCAATGCTGTGATATGTCCTGTACCAAAGCCAAGATCAAGAAGCAATCTCAGACCTTTGGTCAAAAATACTGGAAGTCAGATAAGAGAGAATGGGGAAGAAGTGAACCAGTCTGACACGAAGAGGCAGCAACTTCCAGTTCAGCAGTCATCTGTCTTAGATGATAGCTTACTAGACAATCACGTGACAGTGGACAGCATGAGTACAGGCAAGAGCCAAAGTAGTATTGTTTCAAGAATCAAAGTTTTTGAAACCCAAGGAGCTAATGATACCTCAGGATTATTAAAGAAACCAGAAATTGCCCCTCGTTCCTTTGCCACAAGACCTGTACCTGCAAAGAAGCCAGTAGTTGCTCCAAAGCCAGGGGTAAACAGAGTTTCAGGAGACTGGGATGCATGGACAGAAAGCAAACCAACACCTTCCTCCAGAGAATTGCAGCTTCAACCTGAAGCAGCTGGGAGTAGTGTTGTAGCCAAACCTGAACTGCCAAAGAAACCAAAACCTGGCCTTGTAAAAAGTAGTAGTAGCGATTTTCTCAATGCAAAAAGCAGCTCAGTGGCAGAGAACAGCAACGAACAAAGAAAGTTTCCTGTTCCTGCTCCGAGGCCTCTTATTTCTAAAAAGTCACATTCTGCAGAATATCCTGCCCTTTCTTTGGTCCCTCTGAAACCAATCTCTGCTCCACCACGGACTTCTGTATCAGCCCAAGAAAAAGTTTTCAAGTCTCTGGGGGAATTGTCACCCGCAGAGAACTCCTCAGCACCTGCTTTGCAGAGTAAGCTAGATCTGGGAGGAGATCTGATCAGTTTTGATGACGATGTTTTGCCCCTAAGTCCACCCTGTGCTGTTAAAGATAGCATCAGTTGTGAAGCAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010081:ENSGALT00000016385:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.719
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCTACACACTGGGAATCT
R:
GCTGTCCACTGTCACGTGATT
Band lengths:
351-1276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]