DreINT0083075 @ danRer10
Intron Retention
Gene
ENSDARG00000069946 | itga6b
Description
integrin, alpha 6b [Source:ZFIN;Acc:ZDB-GENE-050320-5]
Coordinates
chr1:30238119-30238534:+
Coord C1 exon
chr1:30238119-30238312
Coord A exon
chr1:30238313-30238445
Coord C2 exon
chr1:30238446-30238534
Length
133 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
GACCTATACTGTATCTTCAGATG
3' ss Score
7.04
Exon sequences
Seq C1 exon
GTGGCAAGACATTGTAGTTGGAGCACCTCAGTACTTCATTAAAGATGGTGATATTGGTGGAGCAATCTATGTTTACCTTAACGAGGAAGGAGCTTGGGACAAGATTACTCCAAAGAGAATTGATGGACCTGCTTATTCCATGTTTGGTTTGGCTGTGGAAAACATGGGAGATGTGAATCTGGATGGATATCAAG
Seq A exon
GTATGTGTTCAGTATGTGTTATGAATACAACTAATGCAAACATATTAAAACATATCTTGCCACATGTTATTAAAGCAGAACCAATTGCACTCATTTAAATTATTTTTTAATGTGACCTATACTGTATCTTCAG
Seq C2 exon
ATGTTGCTGTTAGCGCCCCATATGACAGCAATGGAGCTGGAAACGTGATTATCTTCCACGGTTCACCACAAGGACTGAAAAAATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069946:ENSDART00000102210:7
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=0.033
Domain overlap (PFAM):
C1:
PF135171=VCBS=FE(70.7=100)
A:
NA
C2:
PF135171=VCBS=PD(3.3=10.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGGAGCACCTCAGTACTTCA
R:
CAGTCCTTGTGGTGAACCGTG
Band lengths:
255-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]