GgaINT0040102 @ galGal3
Intron Retention
Description
NA
Coordinates
chr6:32954360-32955605:+
Coord C1 exon
chr6:32954360-32954574
Coord A exon
chr6:32954575-32955454
Coord C2 exon
chr6:32955455-32955605
Length
880 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GTGTCTGCTCTTCTTTTCAGCAA
3' ss Score
9.96
Exon sequences
Seq C1 exon
ATTTAATCCTTCTTCAAGCTGTGAAACAGAAAGTATTAAAGTCTATGATGGCCCCTCATCTAATTCACCTCTTCTTGGACAAGTATGTAACAACACTGACGCCGTCCCAGTGTTCCAATCATCTTCAAACAGTCTGACTTTCCTCATTACAACAAACTCTGTGGCTTTCACACGGAATTTCTTTGTTTCCTATTACTACTTCTCACCAGAAACAA
Seq A exon
GTAAGTCAGAACTTAATGCGGTCATTGAACACCATTTAAGCTGTACCACTAAAGAAGGGCTCATAAGGCAAAGCCTGGTCTGGTGGTTGGTGACCCTGCACATAGCAGGGGGTTGAAACTCAAGGATCATCGTGGTCCTTTTCAACCCAGGCCATTCTATGATTCTATGAAGTTTCGTTCAGTAATTCTTCTGCGTTTGTTCAAGATATTCTTATTCTGAAGGAAAAGCAATAATAATAATAACCAGCCCTATCTCGTGACCAGTTCCTTTGCTTCTGTTGATCTGAGTGGCGTGGTATTCAACACTTGAAAACTTAACTGGAGAGAGAACTTATCACATCATTGCTTACACTGCTCCAGTGTTTAATTAACTCCACTTCTTAAAAAACACGCCCTAAGTTTAACCTGTGTTTTCTGTCTGAGTTTTCCACTGTGTTGATTTTATTTTGCCGTTGTCTATCAATCAAACATGAAGACTGCACTTCCATGCAGACCACGACCAAGACCTCTCTAACAAAGTCATTCAGGGCTTCTTTTGGTTGGTACAGTCTTCTCAATATTCATTTTCCAAACTTACCCCACAAGTAAATACAGTTCAGTTGTTCACGGTTCCAACGTCAATTAATCTATAGCCATTTCAGTTTCGTTTACACTTGCATACAGACACGTGCTAACAGGCTCCATTTTATAACTAATTATGAGCTGCCACCTGACCTCAAATTCCCCAAAATTGATAGAAATGTTATCTTTAGTACATTTATTCCATCCCAGGGGAATGGAATCCTAGAGAAGCAACCCTGCTTTAGCTTTTGAATTTATTACTTACGGCTCATTATATATACACCACTGTGTTAACCGATGTGTCTGCTCTTCTTTTCAG
Seq C2 exon
CAATTGAAAACTGTGGGGGAAGCTTAACTGATCCCAGTGGGACATTTACCAGCCCCAACTACCCAGCAGCTTACCCTGAATTTACCTATTGTGTCTGGCACATACAGACTACAAAAAACTCGAAGATAAGCTTAGAGTTCCAGGATTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023421:ENSGALT00000038694:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(60.4=87.7),PF082396=SH3_3=WD(100=49.3)
A:
NA
C2:
PF0043115=CUB=PU(42.2=90.2)
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:
TCCTTCTTCAAGCTGTGAAACAG
R:
CCTGGAACTCTAAGCTTATCTTCGA
Band lengths:
353-1233
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]