GgaINT0112661 @ galGal4
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:HGNC:18629]
Coordinates
chr1:54937109-54939187:-
Coord C1 exon
chr1:54939038-54939187
Coord A exon
chr1:54937214-54939037
Coord C2 exon
chr1:54937109-54937213
Length
1824 bp
Sequences
Splice sites
5' ss Seq
AGCGTATGT
5' ss Score
6.12
3' ss Seq
TTTGTGCATTTCTTTTGCAGCCT
3' ss Score
9.94
Exon sequences
Seq C1 exon
CTTGCCCAGGGGGTCCAGAGACACCATGCAATAGCCATGGCTACTGTGACGATGGCTACACTGGGACAGGAGAGTGCCACTGCTATAGTGGCTTCAACGGGACTTCATGTGAGCTGTGCTTGCCAGGCAGATATGGCTCCAGCTGCAAGC
Seq A exon
GTATGTCTATGTTTCATTTCCATATTACTGTTCACCTCAAGCCTGAACCATTTTGTCTATCATGTGGTTTTGAGTAAACAAAACAAAAAGCTTCCTCCTTTCAACACCAGCATTTCTCTTGAGCATCTCCTCGTGCGGAGGGATGATGCGAGGTCTCAAAAGGGAGGAAAAGGCAGTGGGGACAGAGGTGTTCTTAGTTTTCTGTGCATGGCTCCTATTTTTACATGGTATATAAGTGACATGGAATGGAGTCAGAGCCTCAGTCATCAAGGAGTTTTAACTACAGCACTGCTTTGCCTCTCATTCTCATACAAGACAGGTCAGTATTTTAGTTAGCAAAATGGCTCCTGAAGGATCACAGGAGGCCAAGGCCATGCACTGCTTTTGCAAAAGAGAAGAAAAAGGACACTGAGTTGAAATCAGTTTGTGAAGAGGGATGGCAGCCAAGAAACTGCTCATGTATCCACTTGGCTGTGGTTTTAGATGTAACTTAGGTGAAAGCAGGATCAACATCATCCTTTACACTTAAATGTTCTCCCAACATAAAGCCTTCAGATTATAAATTTCAGTGTTAACTCTTCCATTCTAACTGCATACACCTGCAGCACTCAGAAGACAGATAAGGTTGGAGGTTAGAAGCTGGATATCTTTAGGATTAAACTAACACACCTTACTCAGGAATACTCACATCACCAGCTTATCCACCTTACAGCACATTGTAGCACAAACTCTATGAGAACTGCTTTTCTGAAACTCAGACTGTGGTACCTAACAGGAAAAAAAATGTCTCACAGCCACTTCTTTTCAATCCATACTTATGTTGACTAAGGATCAGGTAGCCAAACTAAATGGAAGAAAGCTAGAAGAGTGAAATTCCTTTACAGCAGAAACAGGTTTTCACAGAATCAAAGTCTGACCAAATCTCACATCATTACCCTCTTTAAACAAGAATATTCAAGAAAGAGGAATGAGGCAAGAAAGGATGGTTTTTCTTTACATTATGAAAACAGAGATCTATCAATAATTTTTTATGAGGGACTCAGTATATAAGTTATTATAGCACCAAAAGAGTGGAGAAAAACATCACCTATAGATTAAAGGAACCTCTAGGGCACAAGGAGTAACATGCCATAAATAAAAGGAAGCCATAAGCAAAAAATACATAAAACCTAAAAAATACATTATGTGTTACTTATCCATATTTTCCAGCAAAGCTTACTTACCTCATATTTGACTTCCTTAATCAGACAGACCTTCTCCTGCACAGCAACCAAACTCCCTCTTCCCCCAGGCCACAGTCCCCTCAGCTGGGGGCTTCCCTACAACTTCAAGCTGTTGCTTATTAGGACAGGATCAGGCTGAGTCTTCACCTCAGCCATTAGCTCCTTCCTGCTATAGTTCTTTGGGAGGCTTTCTACTCCTATCACTATGCAGGTCAGTATTCATATTCAAAGGCACATTGAACTAATGCTAGTTCTACAGCCATAAGACCACAGGATAATTCATGTTGCAAGGGATGTCAAGAGGTCTCAAGTCCAACCCATGTCCAAAGCAGGGTCAGCTCTAAGCTCGGACCATGCAGTTCAGAGCACAATTGACAGGGCTTGAAAGCCTCTGAGAATGGAGGCTGTCCAACCACCCTGGGCAGGCAGGTCCTCAGCATGACCCAACTCATGGTGAAAAACTGTGAGTTCAAACTTAGCTAAGTAATTTCTAGGTAATAATGTACCTAAACTGAGAGTCTAAGGACGGCTTCTCTAGGGAAATATCCTCTGCTTTCCCAGCGGCAGCTCTGTAAATGTTCTTTGTGCATTTCTTTTGCAG
Seq C2 exon
CCTGTGAATGCAAGAACAACGGGCAGTGTGAGGAAGGATATTCAGGAACAGGACGATGTTTCTGTGAGACAGGATGGACTGGCCGGCTGTGTGAAAACAAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:56
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:
PF0005319=Laminin_EGF=WD(100=84.3)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGCCCAGGGGGTCCAG
R:
TAGCTTGTTTTCACACAGCCG
Band lengths:
254-2078
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]