GgaINT0071345 @ galGal3
Intron Retention
Description
NA
Coordinates
chr4:58666794-58668676:+
Coord C1 exon
chr4:58666794-58666979
Coord A exon
chr4:58666980-58667698
Coord C2 exon
chr4:58667699-58668676
Length
719 bp
Sequences
Splice sites
5' ss Seq
ACAGTATGT
5' ss Score
6.05
3' ss Seq
ACTTTAAATTCCTCTCATAGGGT
3' ss Score
8.97
Exon sequences
Seq C1 exon
GTGAATCCTGGAGATAATTTAGAAAGTGAACGATATCTGATCACAGTTGAAGAAGCAAAAATGAAGGAAAAATCTTGCGAAGATCAACCAAGGAAAGCTGAAGTAGTAGATGTGAATAGACGTGGTGTAAAGCCTGGAGTTCTACCTTCAAGGCATCTGTCTGTTGGCTTAAAGAGGAAGTTTACA
Seq A exon
GTATGTCTGTTTCACAATTTGTTTGACATTAACATACATTTTAAAACGCAAAGGGCACTTTTAAATGGAATAGTAAATATATAGATAACCTCTTCCTACCCTTTTTTTGGAACTGTCAGTCAAAACATGTTACCAGTAGCTATTTTTTCCAAAGCTCTTTAAATCTTTGTTTAGTTTAGTAGGATTACTATTGCTAAGGCTGCTGTGAAAATTGCTAGGATCGTGATTATTTTTATACATCCGTGGAATTGTTATACATGTGCTGTTTTATCTGAATCAACCAAGAGAGTTTGGAGTTGGAGAAGCCGGAGAGGGGATCATATGAATGCTTATAAATATCTAAAAGGCATGAGCCAAGTGGATGGGGCCAGGCTCTTTTTGGTGGTGCCCAGACACAGAACAAGGGGTAGTGGGCACAAACTGCAAAACAGGTAGTTCCCTCTGAACCTGAAGAAAAACTTCCTTATTGTAAGGGTGACAGAACACTGGAACAGGCTGCCCGGAGAGGGTATGGAGCCTTCCTCTCTGGAACTACTCAGTTCAATACTCACTTGGATGCTTTCCTATGCAAGGGGCTTGGATTAGATGATCTCCAGAGGTCCCTTCCAACCCCTATGATTCTGTGAATATACTTTATGGAAAGTTCTCAATTTTCATCTTTTGCTTATGAAATGTGAAGTTGATTTCTGAGTAGAATTAACTTTAAATTCCTCTCATAG
Seq C2 exon
GGTTTCCAAGGGCCACGTCAGGTTGAAAAGAAAGTATCGACAGTAGAAGATGGAGAAGGAGTGGCAGCATTGCCTATATCTGAGCAGAGTCGAGATCCTTTTCCATCCAGGTTTTATATTACCTCTCCCTTATTTTCTACTGTTTACAAGAAGAATGCAGAAACAAATCTATGTACAGACTTGCATGAAGGTGGAGGTACAGATAACAGAGATCATGTGACTCCCTCCTCAGTGGTTTCATTTCCATTTCTTCATACGCATAATGAAACTGAGAAGAAAAATTCTGATCAGTCCATGGTAAAGCCAGAGTCTCCTGTATTTAGTGGGCACACCAAATCTAGTAGTTGGACAGCTGGTCATGGGGCAGTGTCACAGAACATCAGGAGCGCTGCACAGATCATAGCTCTTTTGAAATCTAAAACAACACAAGTCTGCAGAGAGCAAGCAACATCTGAAGTCACAGAATGTCATAGATCTCAAGCACTGGAAAACATAAATAGTTCATATAACCTAAAAAGCACAACCCTGCCTGCCTTTTCTGTCAACTCTGACAAAAGAATTGCACAAAATCTTCAGCACTTGCCTTTTAAAAAGGAAATGGTAAATGATGAAAAGGAACAGAATATTGAAATGCTTCTAAATTCATCTGAACCTTGTGATAAAGAAATCACAGGGCAAAGACATGACAAAAAGGCTAATAGTTTAAGCCGAGATTTACAAGATCCCTGCAGGACAAATAGTTCTGTACTAGCTGAATTAACCATAAGCAGAGTGAGTGACAGCCAGTTTGTCTCTTCTTGTTCAGCAAGTCCAGTTGCCTTTGAAACACCTGTCTCCTTAGACAGAGAGCATTTGGCAATTAATGGTCTTCAGGATAATTCATCAATCAAGTCTCAAAGTGACCTTCAGCTGAGACAAAGCTCAGAAAGAGTGCCTAGTGAGATAGAGCTCTCTGAGGATGTAACACTGGCTGAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012063:ENSGALT00000019706:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.355 A=NA C2=0.561
Domain overlap (PFAM):
C1:
PF103824=DUF2439=PD(33.3=41.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAGGCATCTGTCTGTTGGC
R:
ACAGGAGACTCTGGCTTTACCA
Band lengths:
356-1075
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]