GgaINT0020586 @ galGal4
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:HGNC:18628]
Coordinates
chr12:612140-612813:+
Coord C1 exon
chr12:612140-612251
Coord A exon
chr12:612252-612629
Coord C2 exon
chr12:612630-612813
Length
378 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
3' ss Seq
TTTCTCCATACCCTTGACAGATT
3' ss Score
8.53
Exon sequences
Seq C1 exon
TGCAGCGATGGCATAGATGGGAATGGCAACTGCCAGTGTTTTGAAGGTTTCAAAGGAATAGCCTGCCACATCTGTTCAAACCCAAACAAACATGGCGAGAACTGCGATGAAG
Seq A exon
GTTGGTAATTATGAGAGAGAGATTAGAGGAAAATGTAGGGCAAAGGCAAAGAGCGGGTTTGTGTGTCCAGGGTCCCCTTCATGCAAGACCAGCACTGTGAAAGAAATGATGGAAATGTCATTGCAAGTACCTCATCAAACAGCAGTAGAGAAAACATGGCTAATATGACAGTGGTAATACAGGTCTTGGAAACTGGACAAATGTAGGTGCACATATTTGGATGGATGTCTCTCACCTGGCACCCATCTGTTAAGAACTGGGGTGATCATTTGATGTCACAAGAGATTGTGAAGGAAAGATGGGAATCTACAAAATGCCACTGGTGTGGTGGCTTCAGGACCTTTGACAGTTACTGATCTTTCTCCATACCCTTGACAG
Seq C2 exon
ATTGTGGCTGTGTCCATGGTGTGTGTGACAACAGGCCTGGCAGTGGGGGTGTGTGTCAGTCCTGGTCCTGCAAGGAAGGCTATACTGGGAAGTTCTGTGACAGGACCTCCAAGAATTGTGGCCCAAGTGGGCTGTCCCAGTACTGCCATCAGAATGCTGTCTGCAGCCTCAATGACACAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:23
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:
NO
A:
NA
C2:
PF129472=EGF_3=PU(51.6=25.8)
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:
CAGCGATGGCATAGATGGGAA
R:
CTTGCTGTGTCATTGAGGCTG
Band lengths:
294-672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]