GgaINT0140050 @ galGal3
Intron Retention
Gene
ENSGALG00000014632 | Q5ZJ82_CHICK
Description
NA
Coordinates
chr25:1649952-1650543:+
Coord C1 exon
chr25:1649952-1650081
Coord A exon
chr25:1650082-1650460
Coord C2 exon
chr25:1650461-1650543
Length
379 bp
Sequences
Splice sites
5' ss Seq
TGGGTGGGT
5' ss Score
3.82
3' ss Seq
CCATTGTTTTTTGTTTTTAGAGC
3' ss Score
9.94
Exon sequences
Seq C1 exon
AAGCGGGATGAGCGCAGTGTGAAGAGCACGGCCATCAGAGTGGTGGATTTTGGCAGTGCCACGTTTGACCACGAGCATCACAGCACAATTGTGTCTACCAGGCACTACCGGGCCCCTGAGGTCATTCTGG
Seq A exon
GTGGGTACTGCGTGGTCTGAGCGTTGCCATAGCTGGGTTAAGAAGCGTTGGCCTCCATATCATTCAGTAGCCTACCTTGGGAGTTCAGTAGTTTACCCTGGGAGATCAGAGTTGCTTCACTCGCATGCTCTGCAGCCCTATTTTCAAGGTGGGGGGCAGACAGCAGCTTGGAACTGTGTGTTTGGCACTGCTGTCAGCTGGGCAGTGCGTGTCCACCGGTGTATCAGGAGAGTGGCTGAAATGGGAATTGGTTTTCTGATGGCTTGTTGGCTCTTGGAAGGCAGAGAGAGAGAGAGAGAGAGAGGAAGGGGAGGGGGGATTTGGAGTCTTGGGTCATGACTGCATCTCTTCTTTACAAACCATTGTTTTTTGTTTTTAG
Seq C2 exon
AGCTTGGCTGGAGCCAGCCCTGTGATGTCTGGAGCATCGGCTGCATCATCTTTGAGTATTATGTGGGTTTCACCCTGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014632:ENSGALT00000040610:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(13.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATGAGCGCAGTGTGAAGAG
R:
GTGAAACCCACATAATACTCAAAGA
Band lengths:
198-577
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]