GgaINT1002403 @ galGal4
Intron Retention
Description
NA
Coordinates
chr1:178343972-178345911:-
Coord C1 exon
chr1:178345787-178345911
Coord A exon
chr1:178344474-178345786
Coord C2 exon
chr1:178343972-178344473
Length
1313 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
CTTTGTTTTTCTTCAAACAGCAG
3' ss Score
8.39
Exon sequences
Seq C1 exon
ATCACACAGCTTTTGCAGAAGGTAGCAAGTTGATGCAAGAAGAGCAGGCTCCCCACAGGAAGAAAAAATAAAAGGTCTTGGAGCAACTTACTAAGGTAAACAGATTGCAGTGGATTTCTGGATGG
Seq A exon
GTAAGTATTTATGAGTGGGATATTTCAACTTCCTCTATTCAGCTTCCTTTAATAAAGAATTTATAAGAACGCACAGAAAGCAACTTGCAGCTTTTTATAAATGTTCAGTGATGTCACACATCAGTGTGTACTTGGACATACCCTAATTATAATGTTAACTATATATTTCCTGTTGTATGTATCAAGGTCAGCTTAATTCACTTTTTTTTAGTACAAATATTATTTACAGAAATTTTAATTCCCTTAACAACAGTCATATGCTTGTTTGGAATTGCAGAAGGTAAGAAGAAGTATAGAAGTTACATATCCTGTTTGCCTTTTATCAGCGTTGAGTTCATGATGAAATAGTTATAAATGGGAAGTTTGACCAAATTGAACAAAATGCAAACTGAAACCCGCAAGCAAAATAGCTGTTGTGAGGGAACCTGAAGAAGCATTGCTTACTGTTAGAGAGAAAAGAGATGAAAGCTGCAGTGGAACATGAAGTAGTAAGTCAGGACCTCGGATGAGCCACATCTGATAATGGCTAGAAATGCAAAATTGCTGTGCACCTGTAATAACGTGTGTATTCTCAGTGCACATGCCATTTCCGTATCTCTTTTGCTTCTCTGTCTCAGTTGTACTGGGACCACATAGGGAGTGGGAGTGGGGGAACATCAGTTGAACTTCAAAGTTACTAATATGCAAAGCTTTTTGCCTAGCTTTTGCTAGGCAAAAATGATGTGCGTTAATATGGCTTCAGTCTTTTTTTGTATATATCTGTTGTTGAAAGTTGGTAATGTTTCTGATAGCAATGAAACTTAATAGGAATTCATTTTTTTATTCTGATTGTCTAAATCTTGACCTTGCTTTGCAGTCTAGCTAAATAAGTGTTATGGGCTCATTGTGTCTGTGCGTGGAGGGAGTCCCTCAGGAGGGGGACTGAGAAAATGGAAGATCTTGTAGTGAATACCAACAAAAATTCCGCTTCTGTGTTTTTTGCTAAACACAATGGTTTATAGCTGTTAGTGGGAAATGTTGGTATTGGCCATTTCTCTTCCTAGTTACAGGCTTAGAAATGAATATTAAGATATTCAACAAAGAGCATAGAGTAACTATGTGGATTTTCTTGGTGTATTATCCAAGATAAAAAGAAAAATAAAAACTAAAACCACAAATTCTGTAGTTGGATGTTGGACTAGATGATCTTGAGAGATCCCTTCCAACCAACTCTCCATGAATCTGTGTAGTTGTTTTAGAAACTGGTACTGGAAAGTTATGTCTTACTCTGACATTTGTTTGTTGTTGTTGTTGCTTTGTTTTTCTTCAAACAG
Seq C2 exon
CAGGTCTGGAATGGACACAAGTTCTCTGGGAGGATTAGAACTGTCTGAACATACTCCTGACCTACTAGCAAATACCACCATGGCAGCAGGTCTTGCAAATGTAGGCAATACATTTGCTGGTCCAACAAGTTCTTTAGTTTCTAGACCGAGTAAATTCCAGAACTCTACTGTAGAAGATGATGATGATGTAGTTTTTATTGAACCTGTACAAACGCCACAAAATTCTACATCACTGATAGCAGAACAAAGGAACGCTGCATTTGCATTGTCAAAAAATGACGAACTTCAAGGAGATGATTGCAAAATGCTTCCTCCTCCGAAAGACTTGAATTCTCAAAAGGGGAGTATAAGTGAAACTATTATTATTGATGATGAAGAAGATATTGAAACAAATCAAGGACAAGAGAAGAATGCTTCCGGTTTTAATGAGCGAAGACTTCCAGAGTGTAAAAACAGAGCCAACGATATGGATTTCTCAGCTTCCAGTTTTTCAAGAAGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017139:ENSGALT00000043420:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.927
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTCCCCACAGGAAGAAAA
R:
GCAAATGCAGCGTTCCTTTGT
Band lengths:
344-1657
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]