GgaINT0020571 @ galGal4
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:HGNC:18628]
Coordinates
chr12:596392-597195:+
Coord C1 exon
chr12:596392-596508
Coord A exon
chr12:596509-596998
Coord C2 exon
chr12:596999-597195
Length
490 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
CACCTCTCGTCTCTTTTCAGCTC
3' ss Score
10.5
Exon sequences
Seq C1 exon
AGATCCCCCTTTGCAAAAGCATGAGGTGCGAGGCCAACAGTGAATGCGTGGTCAAGGACGGGACTGCAATGTGTAACTGCAAGCTGGGCTACAGAAAAAGCGGAAGCGTCTGTGTAG
Seq A exon
GTGAGAGACATAATAGGTCCTCTGCTTGAAAAAACACCGCTGCTCTGGCATCTCTGGGTGAACATGATTGCCATGAATACAATGTCTCCTGCAGAATTGTAATAGCCTGGTTTTTAGGAATCCCTGTAAGAGCAATAGCTCTCTCTTCACTGGCTTTTTGCAGTTCTTGCTGACCAAACTCTGCTTTTAGATATCCCCTGACACGATGAAAATTTGGGAGTAAATCCAGGCATCTCCTTTCTGTCACTCATATTTGTTTACCGGTATGTAGTATGAAGTATGTGTCATCCACATTCCTCAAAGTAGAAAAAAAAAAAAAACCCAAACTGCTACCTGAAGCTATTTTATTTTCATGGGAAACTGCAGAATCTTAATCACATAAATTCCTTATCTTCCATTCCCTCCAGCTTCTGGCATTCCGTTGTGCTTCATTAGGTTCTATACTGAAAACAGAAATGCAGATACTCTCACACCTCTCGTCTCTTTTCAG
Seq C2 exon
CTCAGGATCCCTGCACTTCTTCTCCATGCTCCCCGTTTGCTGTATGTAAGTTTCTTGGACCAAGAAAGTATGAGTGTACGTGCAAAGAAGGATATCAAGGAGATGGGAGGGTTTGCCAGCCCATAAATCCCTGTGTTGATAACAATGGAGGCTGCCCAGAAAACTCAACGAATTGTATTTACAAAGGTCCAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:8
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:
PF129462=EGF_MSP1_1=WD(100=90.0)
A:
NA
C2:
PF129472=EGF_3=WD(100=53.0),PF146701=FXa_inhibition=PU(52.5=31.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCCTTTGCAAAAGCATGA
R:
CTGTCCTGGACCTTTGTAAATACA
Band lengths:
311-801
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]