GgaINT0049830 @ galGal3
Intron Retention
Gene
ENSGALG00000012495 | Q9DEH4_CHICK
Description
NA
Coordinates
chr7:36801786-36802600:-
Coord C1 exon
chr7:36802491-36802600
Coord A exon
chr7:36802379-36802490
Coord C2 exon
chr7:36801786-36802378
Length
112 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
CTCTTTATTCCAATGAGCAGAAG
3' ss Score
1.89
Exon sequences
Seq C1 exon
TGGGTTATAAACATGCTAAGACCATAGAGCTGCCACAGCAAAGGTCAGCATCTGTTGCCACTCAGCAAACCACTGTGTCATCGGTTCCTTCCCACCCATCCACTGCTGGG
Seq A exon
GTAAGTAGCTCTGGGCCACTGCAGTGCCCCTCCCCAGACTGGAACCAGACGAGAACCTAACAGCACTGATATGAACAACCCTTAATTTCCCCCTCTTTATTCCAATGAGCAG
Seq C2 exon
AAGACATACCGGGCTATGTATGACTACACAGCAGCTGACGCTGATGAGGTTTCCTTCAAAGATGGTGACACCATTGTCAATGTGCAAGCCATTGATGAAGGCTGGATGTATGGGACCGTGCAGAGAACTGGCAAGACAGGCATGCTGCCAGCCAACTACGTGGAGGCTGTGTGAGCCAGAGAACAGCCTTCCCCAGGCACAGCTGCCTCCCTCCCGCTGCCGGCAACAGAGCTTTCTAACACCCAAGCACTGCCCTCTCTTCCATGGTGAGTGGTAGTGCTTTACAAACCAACATGGGCGGAAAAAAAAAGAAAATACATAACAAAATACTCTTGCAACTTCTTCCCTTCAAAATATTTCTGAAAACTACCTGCAAACACCACCAGGTGCTGCTCATGAGAGCTGCTTTGCTTCTGGTGTCCAAAACCTTTCTGAAATTGCCTAAGAAGTCTTTGTTTAAAACATTTAAGTATACAATACCATCAAAATGTTTTAAACAATACCAAAAATCACAACACAGTTCAGTATCACTGAGCTTTTGTACCTGTACTGGAGACTATGACTACCGACCTTTCTTTATTCATTCTCCCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012495:ENSGALT00000020410:142
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.757 A=NA C2=0.018
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146041=SH3_9=WD(100=87.9)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CCACTCAGCAAACCACTGTGT
R:
GAAGGCTGTTCTCTGGCTCAC
Band lengths:
244-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]