GgaINT0031307 @ galGal3
Intron Retention
Description
NA
Coordinates
chr9:21882994-21884116:-
Coord C1 exon
chr9:21883988-21884116
Coord A exon
chr9:21883123-21883987
Coord C2 exon
chr9:21882994-21883122
Length
865 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
CTGCTCTCTCCTCTCCTCAGCCT
3' ss Score
8.93
Exon sequences
Seq C1 exon
CGTGTCAGGGGGACAGGTTTGGGCAGGGCTGTGCTCACACCTGCAACTGTCACAACGGAGCACTCTGCGACCACATAACGGGGACATGTGCCTGCACCCCAGGCTGGGGAGGAGCCACCTGCCAAGAAG
Seq A exon
GTATGGACAGGGAGAAAAGTCCATAAACCTCCATTTATGACACCAGGACACACACTTTTTCTGTACTCTACTGCCCATAGGTTTGATTGATTACGTCATTATGGTGTCTTCTTCCAGACACAGATTAGATCCAAAACAAGTGAAAGGCACTGGGAGCTTCAGCCTTGAGCCCAACTCCAATGAGGCTTAAGGATGGAGGCTGGCAAAGAAAATTTCCTGGTTTGATCAATGATGAGGACATTGCCAAACATACCCTTTTTCTTTAATGTTTGGAGGTAGAAAAAGTGTGTGAGGGTGGGAAAGCCATCCCCCAGTCACTGCTTTGACAGAGGGAGAATTTGCTCCTGTTAACATCCTAAAAATCCATCTGGCAAATGCCACAGAAATAGGCTCTGCCCATAGGTTCCAGTTGTGATAGGCATTAGTAAACCTGTTTTAACTTAAAATTAGGTGAACTGTAAACTGTTATCTGACAGCTGCGGGTAGCAAGATCAGTTGCCCATTGGAAAAGTAATTGTGATATAATGCACTGTACAGAGAGATGCTGGAAGCTGTGAAATCAGTAGCTCTACTCCTTGGTGTTGAGGAAGCTGGTGGAATCAAGGCTTGTTTTCCATAGGTGTGAACTGAAAGTCTTAAGGGTATTTGGTGAGTTGTTGTTAGCTCACTTCATCAGGTGTGCTTTCTCCTGTTTTGTTCCTGGAGCAGTGTTACACCAGTGTAATTACTTGCAAGTTATGGTCCCCATTTGTACCTCCTACAGTACCAACAAAGCCACTGGGGCAATGGAAGGTGAAGATTTGTGTCCAACCCATGTCTTCCTGCCCTCCTAACCCATGGCTTTGCTGCTCTCTCCTCTCCTCAG
Seq C2 exon
CCTGTCCCCCAGGCTGGCATGGTGCTGGCTGCCTTCAGCGCTGCATTTGCCCTGGCCAGACTGCATGTGACCCCGTGACGGGCAAGTGCCAGTGTTCCAAGGGCGGAACAGGGACATCCTGTGAGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009458:ENSGALT00000015394:25
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:
PF0005319=Laminin_EGF=PU(65.9=65.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(31.8=31.8),PF0005319=Laminin_EGF=PU(63.0=65.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGGGGACAGGTTTGGG
R:
CAAGCTCACAGGATGTCCC
Band lengths:
254-1119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]