DreINT0156705 @ danRer10
Intron Retention
Gene
ENSDARG00000076484 | stab1
Description
stabilin 1 [Source:ZFIN;Acc:ZDB-GENE-050208-554]
Coordinates
chr22:10285647-10287442:-
Coord C1 exon
chr22:10287317-10287442
Coord A exon
chr22:10285721-10287316
Coord C2 exon
chr22:10285647-10285720
Length
1596 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAT
5' ss Score
6.8
3' ss Seq
AAACTGTGTTTTCACTATAGAAA
3' ss Score
7.1
Exon sequences
Seq C1 exon
AAATTAACCCATGTGCCGAAGACAATGGTGGATGTTCTGTAAACGCAAACTGTACTAAAACAGCACCCGGTGAAAGGACCTGCACATGTACAACCAACTACATTGGTGATGGGGTCATATGTGTCG
Seq A exon
GTAAATGCATGATTTATTTTTCAGAATATCTATTTACGTAGATAGGTTAATAAATCTAATTTAAAAAATTTAGTTTGTGTTCACATTTCCGACCTCTAAATAGCAATATCACCACCAAAATTACATTTTTATAGCATCATCTTGAAACATCCCATTCTTTTTCGTTAATTTAGGAATGCATGGCATTTAGGGATGCATGATATTTTTTATGACAAATAAATTATCGGGCTGCATGGCTCAATTATTGTATATTCAATATATCTACAACGTATTATTAGTTATAAGTTTATTTTACAGGGGCAATGCTGTATAACATTCAGAGTTGGGTGTAACGCGTTCCACAGTAGCGTGTATTCTAATTACATTTTATCGAACGGTGACCCGAGTTCGATTCCCGCCTCGCGGTGCTATGCCGATCCTTCCCCTCTCTCTGCTCCCCGTCCTTTCCTGTCATACTTTCTACTGTCCTGTCCATTAAAGGTTCAGTACACACTGGAGAACTTTTTTTTTTATATTAACAGATTTGTGTGTGTTGAGCATCATTTAAGACAATGTTAGCACCTATCAGCTTTAATTGTGGGGAAAACTGGATAATTTTGAGCTTTTGTCAGCTAATTTCAGCTTCCGGGTTTAAAATGATTTTTGGGGCGGGATCAAAATCGGCGACGTAGCGCAGAACTGCAAGTGCAATGATGCACGTCGGTTTCTCATTATTATTCATAGCGGAGTTTTCTTATCCTATGAGAAGAGCCGGCTGCTTAATTATTCATGAGACTTGCCAGAGTCAAGCCCGAGCTGTGAGACAAGCCACAGTATTTAGCCGTTCATGAAGGCTCATATGCTTTTGATTTCATGATCCACAGGGTTTGTTGCATGTTTTCCCCCGCGATCTTGTCAGGGCCGATCATACAGCAAAGCTGTGTGTGTGTTGCTAGCATTTTTGTCGGGAGTACAGCACGAGAATTAGAGAATGGCGGACGCTGTCTTTTATCAGGAGTTCGTTCACATTCAGACACATCACTGTGCTGCTGTGTTTGCCTAAATCCTCCAGATTACCAGCAGGGCTAATGGTTAAAATAGACAGGTCAGGAGACCTGCTGCACTGAGTCTGCTGGATACGGGGATTGAGGGAGAAGTCCTCATTTATAGTGTTTACATGAACACATCTTTATAATGATATAAATTGTGGTTATGTGTATATGAAATTACGAATAACAAATGTAGCAGGGCATTAAATCACTGTTCATTTCTTTGCATTTTAACTTTGTAAACTATACACTAATGCGTCTCCTCACGGTTTGTCTCATTTTGTGAGCTAACTGACAACAACAGTTGTTCGCTCACGTTCTGCTCTGCTGGCCACGCCCACTCCTGCCAGATGCTTGCAGAGCTCCACGCCCATTAATCATGCATCTTTTGAAAAAATTCTGTAGTAGACTTTAACCGAAAGTGGGGGGTGTCATGGCCCTTTAAAGGTGAAAACCCCAAAATAATAATATATATATATTAAACTAGCAGACTGAAACTAACACCTAAAATGATTTCATTTTAATTTCATGAGACCTCTAAAGTTACAAAACTGTGTTTTCACTATAG
Seq C2 exon
AAATGGACGCCTGCTTAGTGAACAATGGAGGATGTGATGAGAATGCCATATGCATGAAGACTGGACCAAACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076484:ENSDART00000092050:42
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:
PF126622=cEGF=PD(10.0=4.7),PF129472=EGF_3=WD(100=86.0)
A:
NA
C2:
PF129472=EGF_3=PU(54.1=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTAACCCATGTGCCGAAGACA
R:
CTGTTTGGTCCAGTCTTCATGC
Band lengths:
198-1794
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]