DreINT0156763 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10760132-10761239:+
Coord C1 exon
chr4:10760132-10760238
Coord A exon
chr4:10760239-10761122
Coord C2 exon
chr4:10761123-10761239
Length
884 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
GACTGTTCTGTCTTTTTCAGCAA
3' ss Score
10.92
Exon sequences
Seq C1 exon
ATGTGCAGTGTAAATGTAAAACTGGCTACATTGGTGATGGATTCTCCTGTACTGGAAACTTGATGCAGGTTCTCTCTGCAACACCGACCCTGTCTAACTTCCTGTCT
Seq A exon
GTAAGTTGAATTTTAGTTAATTGTCAAAGTTATGTTGTAATGGATGGAATTCTTGTGTGTTTAAAGTTGAAATGTGTTCGGTTTTTTTTTTGTTGTCGTTAAAGTTTTAACATGTTTAGGTACCAATTCTCACCTTTAAACTCTGTGTGAAGTCTAAATTTACTACTAGCACACATTGTAATTCTTCTAAAAATTAATCTGTTCATATTAATCCACTGAAAAAATTAGCCAATCAATTAAAGTCTGACCATTTCTGTATTTGGATTGGCGGTCTTCTCTGTTGACATCAGTTTAATGGCTTCAGCCACTATATTTTTAACCACGCCCCTCTTACAGCTAGTTTGCTATAAGGGAATGATGCAAAAAAAAGCCCCGCCCCCTACTCAATATTCCATTTACAATTGGAAGAACATCAACATACTGAAAAAAAAATCTCAGCAACTTCCGGTCCACACTGACTTAACTAGTAGCTTACTACCTGCCTATTATTAATATATTGGTTGTTTATTAGTACTTATATATTCTGCATGATCTTATTTTACATCACAGGTGTCAAACTTAGTTCCTGGAGGACTGCAGCTCTGCACAGTTTAGTTCCAACCCTAATTAAACACACCTGATAAGCTAATTGAGTCCTTCAGTTGTGTTTGAAACCTACAGGTAAGTGTGTTGAAGCAGGGTTGAAACTACACTGTGTGGAACTACATCTCCTCAGGAACTGGATTTGACATCTGTGTTCTACATCCATAATCCTACCTAATATCTACTACCCTGATAACTATTGATAAGCAACAAATTAGTAGTTTATTGAGGTAAAAGTCATACTTGATAGTTTATTAATAGCAAGAATTGTACCGTGTGACCGACTGTTCTGTCTTTTTCAG
Seq C2 exon
CAAATCCTGAATTTTTCAACATCTGCATCAGGAAAAGCATTCGTGAATCGCCTTCGGAACATCACTATCCAGTCCACTCTGTTTGTACCTGATAACGATGGTCTCTATAGCAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:63
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(57.1=44.4),PF0246917=Fasciclin=PU(4.7=16.7)
A:
NA
C2:
PF0246917=Fasciclin=FE(29.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCAGTGTAAATGTAAAACTGGC
R:
TGGTTGCTATAGAGACCATCGT
Band lengths:
222-1106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]