DreINT0083346 @ danRer10
Intron Retention
Gene
ENSDARG00000002494 | itgb6
Description
integrin, beta 6 [Source:ZFIN;Acc:ZDB-GENE-100812-2]
Coordinates
chr11:11011728-11012248:+
Coord C1 exon
chr11:11011728-11011823
Coord A exon
chr11:11011824-11012158
Coord C2 exon
chr11:11012159-11012248
Length
335 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CTTCTGCGTTTTTTTGGCAGAAT
3' ss Score
8.54
Exon sequences
Seq C1 exon
GAGTATCCAACTTTAGGCCAGCTTGTCGACAAACTGGTTGAAAACAATATTCTCCTCATATTCGCTGTGACTAAAGATCAGAAGGAGAACTACGAG
Seq A exon
GTAAGAAAAATGTGATTATTTTTTTCCCCCTTTCATGTTTATTCATTTTAAGCCACCGTGAGGCAAACAAAAAGCAATGTGGTTTTTTTTTCTCTGTGTGTGATAGAATAAGAAATATCAGTGTGTGAATCACTTGTGTATTCAGCTCTCCATATAACATGTTCAAACACAGCCTTGATCACATCACCCAGACCGACCTCTCCTGACACAAATATTTCATGTTTTCTGAGCTCTCCTTCTCTTGCTCTTTATCACTCGCGTTCATCTCAGATTCTGTGGCTGTTCTCCAGTTTAGAGTTGATGTTTAACCACTTTCTTCTGCGTTTTTTTGGCAG
Seq C2 exon
AATTATGCGAGTCTGATTCCTGGTGCTACTGTGGGGGTTTTGGCATCCGATTCCAGGAACATTCTGGAGCTCATCATGACCTCATATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002494:ENSDART00000065933:7
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:
PF0036213=Integrin_beta=FE(7.3=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(6.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]