GgaINT0011572 @ galGal3
Intron Retention
Description
NA
Coordinates
chr20:9718354-9722956:+
Coord C1 exon
chr20:9718354-9718429
Coord A exon
chr20:9718430-9719732
Coord C2 exon
chr20:9719733-9722956
Length
1303 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CCTTGTCTCCTTCGGTGCAGGCC
3' ss Score
9.09
Exon sequences
Seq C1 exon
GTTTCTGCGATAAGACAGGAGCTGAGGAAGAAGCAGCTACCAGAGGTGGTGGTAGAAAACTATGAAAACTTGCCAG
Seq A exon
GTTTGTGTACTGTGCAACAGCTAATAATGTCTGGTTGCATTTCTAGGTCTCCTGCTTGCTAGGGAGGACTTTCCCAGTCAGGTTTGTGGACAGGAGAGTCTATTGCAGCTGCAGTCACTGTGTAATGGGCGAGGAGTAGGGGCACTGGGTGGTTAGCAGAGCATCTTAATGTTGTCCTTGTTGAAATGCTTGAGGGAGAGCTGATGAAGCAAATGGCTCATTATGGGCATTCACCCATGGCTGGATGGCAGGGTGCTCTGCCTTTCCTTGCTATGTCTGCCATACAGCATTTTTGCACATTTCTTGTGCTGGATACCCAGGTTAGCTAATGCTCATCTGGTGAGTGCCCATCTGTACACTTCCCTGCAAATACCCCAGCTGCTCTCATGGCAAAATGCCTCTTGGGCTGAGTGATGTGGGGCTGCCAGCAGAGTCCCACTGCCCTTCCCCACAGCTCCCCGCTGCTGCAACCCACATAGTGCCGATGAGGAGGGAGCACCTAGAAATCGTCTGGCTGATTTCCATCCCCGTCTGGTTGGTAACTCCTTGATTTCATTCTTGCCTTAGTCAATAAGATTTCACACTGAATTAAATCTGCACCCAGCCACCAACTCCTTTCAAACTTACAGATGTTGCTGGGCAGGAGGGTGGGAACCCTGTAAGTGTAATCCCAGAGCCGTCAGCATGTATGAATCATGTGAAGCCCTCAGGTACTCCCAGGGATGCCAATGGAAGGGAACTGAAACCAGCATGCCCTCTGGGTGCCAATCACAGCAAAACTGCAGAACAGTTTCTGAAGGAGTTGTCTGTTGTTCTTGATGATGAGAGAGGGGTAGGGCTGGTTCAGTTCTCTAGGTGACTCTTTGTGTCTCATCTATGTTTTTATTATTACTGTTTTTTATTGTACAGCCAGGACTGCGCGTGGTGAGAATAACTGACCCCTGGGGTGTGTTCCTGATCTTCACACCCTTTCTTTACCATCTCTTAGCTTGGAAATCACAGGGTGCCTCCTGCTGTTTGCTACTTGCTGTGCTGGCAGCACTGTCCTTGAGGGTAGAGGGACACTCGTGAAAGGGGCACTGCACTGACCTTGCCACTGCTTCAGTGCCCAGCCTTTCCCCTGCCTTCACAGTGCATGGGTGGTGGTGACTTAGCATCATAGACTGGCTTGAGCTGGAAGGAACCTCAAAGATCACCTCGTTCCAACCCCTCACTTGGTGGCATCCATCCCAGATCATGGACGTTGCAATCCCAGAGAGCTTTCCTATGCTGAGTGATTTCTCCCTTGTCTCCTTCGGTGCAG
Seq C2 exon
GCCGTGAGTTCCGGGTCATCATCATCAGCACAGTCCACACCAGTGAGAGCCTGCGCGTCTCGGCCTCCCACAACCATGAGTTCTTCAACGAGGCCAGAGTGCTCAACACCATCATGACGAGGGCTCAGTCACAGGTCATTGTGGTGGGGGATGCGGTGGCCTTGTGCTCCCATGGTCAGTGCAGCAAGGTGTGGAAGCGCTTCATCCAGGAGTGCATTGAGAAGGGGAGCATCTCCCCAGCAAACCTGACCATGGCCCAGATCAAACAGGCAGCATGCGACAAGGAGAGCTGGTGCAGGAGGAGCCCAGAGGGCAATGATGAGGACAGTGACACGGATTCCTGGAGCTCTGAGACTGAAAGCATGAATCCCGATGATCCCATCCTCCAGGAGCTCTTAGATGAGAGCAAGAACGTGCTGGTAACAGTGTCTGAAGAAGGGCTGCTCAATGTGAAGTCTGACACTTCAAACCAATGGGAAGACAGGCAGGAATACGTCAGCTTCTCATCTCAGATGATGCAGAAATATCTGCACATGCACCCCCAAATGTACAAGAGGTGTGAGCTGGTCAAAGAAGGGTTTGACAAGGCTTCAGCCTTCCCCCTTGATGACTCTCCCGCCGTTACCATTCAGATCAAAGGCAGAGTGCACTGCGGGACAGCCTTCACCGGCGATGAAGTGCTTGTGGAAATCCTGCAGAACGGCACAGCTGACAGCAGCAGCCTGCGGCCCCAGGGGAAGGTGGTGGGCATCCTGAAGCGTGCCGAGAGAGAGCGCAACTTCATCTGCACAATGGACGAGTTTGATCCCCGGGTGATGATACCCATTGATCCCACTGTCACCAAAATATTTGTCCCGGGGCTGAAAGAGAAACCTAATGTCATCCCCATCCGCAAGCTTGTCAATGGGAAGTACAAAGTGGTCAGCTGCAAGAAGATCAACCAGGACACGAGGAGATGCCAGATCTTCTCTGTCCAGATCATCGCCTGGCGGGAGGGTTTCTACTACCCTCTGGGGATAGTAACTGAGATTTTGCATGTGGCTTTGACTTCAGAAGAAGGCTTAAGGATTCTCAACTTAGAGTATGGCTTGGAGAGGAAACACCCAGCTGTTGTTACCAAGGAGTTAGCCAAATACAGCACCTCCAGTAAACCAAACCCCAGCAAGGAAAACCTGAGGGACTGTCGGAGTTACCTGACTTTCACTGTCGATCCTCAAGGTGCGAGGGATCTGGACGATGCTGTCAGTGTCAGGGACCTTGGACATCAATATGAGATTGGGATCCACATTGCAGATGTGGCCAGCATCGTCCCCAAGGGCAGTGCTGTGGACGTGGAAGCAAAGAAGCGAGGTGTCAGCTACTATGCTCCTGAGCAGGAGCCGGTGCACATGCTCCCACCCCGTGTTAGCAATGACATCTGCAGCCTCCTGCCACAAAAGGACCGTCGTGTGATCTCCCTTTTTGTCATTGTAGAAAAAAAGACTGACAAGGTGACTGATGGAAACTTCACCCTCTCTGTGATTTGCTCAGACTGGCAGCTGTCCTACGAAGAGGCAGAGCTCTGCATTCAGGACCACTACCGGGGAGGTGCAGATGCGCTTCGTTTTGATACCCTGGAGGACTGCCTCGCTGTGGCTTATCATTTCTCCAGGATGCACAGGAAGTCTCGGTTGAAGGAGGACTGCTTCTATGACCAGCTGGATGAGGGAAGCTCCCCAGGCAACAGGAGGTCCCACCAGATGATAGAGGAGCTCATGATCATGTTCAATAGCTTTGTGGCTGCGTTCCTCACCAAGAAGGAAGTCACCAAAAATGTCACTCCTGTCCGGTGTCAGGGTGAGCCAAACCCTCAGCAGCTTTTACTCATGAAAAACAAGTATAGCCATATCATTCCTCTGTCCCTCCACCTCTCACACTGCCTGGGAGATGAGCCTTCTAACCAACAACCCCCCCAAAAAGTAGAGTTCTGCCTCCTAGGCCCCATCTGGGAGCACCTGCAGTCCGCCGCACATCTCTCTGACCTCCATAAGATTCTAGACCTTGTTGTTACTGATGACATCCACCCAAAACTAGCTCCTGTGGCCCTGGAGTTCAGGAAGCTGCTTGGCCGCTCCTATTTCTGTCGCTCCAACTCCACTGCCCAGTCCAAAGTGGGCCATTACTCCCTGAAGGTTGACTCGTACACCTGGGCTTCCTCTCCCATCCGCCGATACATGGACATTGTGGTCCAGCGGCACCTCCATTCTGTGCTCCGCAAGAAGCCCATCACCTGTTCTTCAGATGACATTGACTTCCTTTGTCATGACTTCAACAAGAAGAACTCCAAGGCAACGATGTACGAGAAGAGAGCCCGCTGCATGCAGATGGCCACCCAGCTGAAGGGCCAGGTCATGCAGAAGATCGCCTTCGTAGTAGATATCGAAGGAACAGACAGGTACTTTAAAGCTCTGTTCCCACTGAATAGAGAGAGCCTTCCTGATCCCCATGTAATCAACTACAGGGCTCTTCAGCTGATAGAGCAGCCCACGTTCCTGCAGAACCAGAGCAGTGTTAGGCTGACATGGAAGAGGAGGATGTATTCAGTGAAGACAATGAAGGAGCACAGCCTGACGCCCCGCCATCTCCACGACCACAGTGTCACCCTCTATCAGTCCAAGACGTGGCAAGATGTGCTCATGGCCATCAGACAGGAGAAATTTGACATCGTGCCCTCTCTCCTTCAGAAGAGCAAAGAGCTCTACAGGCGGCGCGTGGGCTGGGTGAGGAAGAGTGATTGCTCACACTATGTGGAAATCATGGTGGAGCTGAGCGCTGGTGACACACTGCAGTTCCAGCTCACCACTGATGTCTTCCGGGGCTTCCTGGTGCCCTTTGTGCAGCTGTGGTGTGTCACGCCAGGTTTCGATGTCTGCCTACAGCACACGGAAAAGCCGATTGACTGCTTCTCTGCATACGCCACACTGCCATCCAAAGACAAGTACAAGCATGCTGGGGAGTACAGCAAGGTGTGGACGCCAATGAGCGCCATGGAGTCTGCGTCGTGTGCAGTGGCTGAAAATGACTCCATCATCCTCCACGATGTCAAAATATCCTGGGCAAATCAAAGGACAAGCAAAGGGCAGCTGCAAGGAACTTTCCGCCTTAAAAAAAGCTTTCTGGAGGAGTGTGCCATTGAGGTGGACTTCAACCACTGCTACTTGTGCATTCGCCTGGGTGGGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:7
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=0.053
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(12.3=100)
A:
NA
C2:
PF130871=AAA_12=PD(25.5=4.8),PF0077314=RNB=WD(100=33.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGATAAGACAGGAGCTGAGG
R:
ATGCTGCCTGTTTGATCTGGG
Band lengths:
346-1649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]