GgaINT1000801 @ galGal4
Intron Retention
Description
NA
Coordinates
JH375182.1:356250-357138:+
Coord C1 exon
JH375182.1:356250-356420
Coord A exon
JH375182.1:356421-356967
Coord C2 exon
JH375182.1:356968-357138
Length
547 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TGCTGTGCCTTTCTCACCAGTGG
3' ss Score
8.84
Exon sequences
Seq C1 exon
TTGATGGTGAGTGGAGCTCCTGGCTTCCATGGGGCCCATGCAGCGAGAGCTGTGGGAAAGGCACCCAGACGCGGCTGCGGCTCTGCAGCAGCCCCTCTCCCTCACATGGCGGGTCCCACTGCCGCGGGCCTGATGTGCAGAGGCAGGTCTGCAGCAAGAGGCGCTGCCCAG
Seq A exon
GTAAGATATGTGTCAGATAGGAAGAAATGAAATGGCAGTTTCCAAATTCTGCTTAGTTATATCTAATGCTTGTCAGTTCTAAAACTATAATCACTGAAAAAATTCCATTCAAGCCTTCTCTTTTCAGAGGTCCCTCCCAGTCTTCAACATTCCTTTGTAGACCTAACGTGTGGGATTTCTTCTTCAGTCCTTGTGTCCCCTCCATTTCGCAGCATCCTGAATCCTTGGCTGTTACATTACGGTCTGCCCAGTGTGGTGATTTCAGGGGCTACTTTATGCATGAATACCTAAAGCTAAGGGAGTGGCTGAGCACAAGGACTCAGTGATCCCTGACCATGAATGTGGTAGGATCACAGCTTACCTGCAGATCGTGCTGCTCTCCAGCTTTCACTACTGAAAATCTATATGTAGAAACCCCTGCATATCTGAGACATTCCACAGGGAGGGTCAGTAATGTGCAGCAATCAATGTTTGCCTGATGTAACTGACTCACTTTATCTCCAGCATCAGAGGCTGTAACTGTTCTGTGCTGTGCCTTTCTCACCAG
Seq C2 exon
TGGACGGGAAGTGGGCCCCATGGGGCAGCTGGAGCGCCTGCACTGTGTCCTGTGGGGGAGGCAGCAGTCAGAGGACACGCCAATGCTCAGACCCAGCCCCACAGTTTGGAGGTCACAGATGTGAAGGAAACAACATACAAGTTGATTTTTGCAACAGCGATCCTTGTCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005141:ENSGALT00000008254:89
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.9)
A:
NA
C2:
PF0009014=TSP_1=WD(100=87.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGATGGTGAGTGGAGCTCCT
R:
TGGGACAAGGATCGCTGTTG
Band lengths:
342-889
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]