GgaINT0020588 @ galGal4
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:HGNC:18628]
Coordinates
chr12:613065-614213:+
Coord C1 exon
chr12:613065-613158
Coord A exon
chr12:613159-614054
Coord C2 exon
chr12:614055-614213
Length
896 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TTCTCTCCCTTCTCCTGCAGGCC
3' ss Score
12.97
Exon sequences
Seq C1 exon
GTGTATCTGCATGGATGGATATGAAGGTGATGGGTTTTCCTGCCAGCCCATTGATCTGTGCAGCCAGCCAGAACGAGGAGGCTGTTCCCCGAAT
Seq A exon
GTAAGTGGGGTTGGACTATCGAAGTGTGCAGAAAGAGCACTGAACAGTCAGAACAGGGACCCAGGACTCAGATTTGTTGGGCGCTGGTCTTGTGCCTATCTTTCCTTATCTGTAAGGTGGGCGTAGTAACAGCTACCTCAAGACAGTCACTGTAAGAAGGTCAGTCATTTGGTTGATGGCCAAATGAAACGGCCCAGGGAGGAGTTGGCTGGTTACCCACATGTTTTGGCAACCACAGAGATAAGCTGCACCGGTTTTTGTTTTGCATTCCCTTTCTCCTTGTGCTCTCTTAATATGTGTTCAGTCTGTAGCTTGGCTGTGAGTTCCAACTTGTATTTCTAGTAACCTCCAAAACTCCCTAATCATCCTTAGTAAAGAGCTGCGGTTCTGTGCAGAGTGCAGAATTGTGGTTCTGCACAATGGAAACAACCACCAAATGGTCAGATCTCATTGTGATTTCGATCCCTCAGTAAGAGGAATGCATAGAAGGAAATAGGATGGCACTGGGTACACAGTAAATCTTTGCAGATAGAGAGCTGAAGCCATTGTTGCCTCCATGTCCATGCAGAAAACTGTGCTCCTCCTCTTCAGGGAATATTTTTTCTGTGATAGAAGAGCCTCATGGGATGGCAGGGAATGCCCCAGGAGCTCTGAGCCACCTTAAACACAAGTGTCCACCTTTCTGAAAACATGGAATGTTTCCAGGATCACTATGATGGTATCCTGTAGGCCATTTCTGGATCAGATGGTTCCAGCCCCCATCCCCAGTGCTGCAATCAGAGCTGATCATTCAGAAACTCTCCTCAGTCTGATGAAAGAGATTTGTCTCTGCATTTGCACAGCACTCCTTCCTCTCCTCTGCTGAGTGTAATGCTTTTCTCTCCCTTCTCCTGCAG
Seq C2 exon
GCCCTGTGCACCAGTACTGGCCCTGGCAATGCCACCTGCCAGTGCAACGTGGGCTGGACTGGAGATGGGAAGGCCTGTGTGGCTATAGACAACTGCATGCAGGAGAGCAGAGGGAACTGTCACATCCATGCCGACTGCATTTATATCGGCCCTGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:25
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:
PF129472=EGF_3=PD(45.2=43.8),PF129472=EGF_3=PU(28.9=34.4)
A:
NA
C2:
PF129472=EGF_3=PD(65.8=47.2),PF129472=EGF_3=PU(55.3=39.6)
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:
CTGCATGGATGGATATGAAGGTGA
R:
TGACCAGGGCCGATATAAATGC
Band lengths:
246-1142
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]