DreINT0083301 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13097629-13098778:+
Coord C1 exon
chr8:13097629-13097792
Coord A exon
chr8:13097793-13098597
Coord C2 exon
chr8:13098598-13098778
Length
805 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAT
5' ss Score
7.24
3' ss Seq
TGCTATTGCTGTTATTGCAGGTG
3' ss Score
6.94
Exon sequences
Seq C1 exon
GGGATGGTAAAAATCAGGATTTCCAGAAGATGGAATATGTTACTCAAACAGCCACATCCCCCGGAGGACGCCTCTATTCTCCAGCCAACATTAAAGCCGTTGCTACCGGCCCTAAAAACATCCGCCTGAACTGGAAACCCAGCCAAAATGCCAATGGTTACAAG
Seq A exon
GTAGATCTTGTCAAATAATATCTACTGCATATATAGATCCTTTTTTGACTTATTTATTTATTTATTTATTTATTGTGTACATCTGTAGAATTTATTTATCAAAAAATAAACAACGGTATCCGTAAATGAACAAACTGTAAATGAAGAGTGTGAAATGTGTGAAGCCTTTAAGCAGTTCCTAAGTGTTTACTTTATGACCAATATAACCAGTATCATTACTGTGTCTTTTCTAAATAATAGGACATTTTTTGTTCTGTATAACATCACTGACCACAAACTTTTGAATAACAGTGTATGTGACATGAAATGACAGGTTAGCTTGATATTGGGCTGTTTTTTTTAGCCATTTTTCTTTTTAGAAACACCACAGGAGCGTCTTATGTTCAATATGTTAAACTCACACATAAATGACAAGCTTTTTAATCTATAACTTTTTTTATATGAAAAAAAATGTGTGATTTCATGTGTGATTTCATTCATTCATTCATTCAATCATTCATTCATTCAATCATTTGGTAGCCACTTTTATCTATAGCTACTTACAGTACAGTACATCACATTTAACATACACATTTTCACTGGGCAGTAAACCTACTAACATGGCGTTACACTGGCGGCACAATGCTACAGAACAGCTATGATTCCATAATTGAAGTTTGTGTGATTTTTCTTCAAGGGTTTGCTTATGAATTATAATTATTGCAGTGTTTTATTATAATAGTTTTCAGATAAACATTAGCTTACTTAAATAGGCAGTTGAAAGATGTTTACCATGCCATTTGAGCTGCTATTGCTGTTATTGCAG
Seq C2 exon
GTGAAGTACTGGATTTATGGAGACCCCGAAGATAAAGCTAAATTTATGGATGTGAAGACGCCTCAAGCCGAGCTGACAAATCTCGATCCATACTGTGATTACGAGATGCGTGTTTGTGGCTACAATGCACTTGGAGATGGCAATTACAGTGATATCATCCAATGCCAAACCCTGGAGGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.364 A=NA C2=0.082
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(36.2=52.7)
A:
NA
C2:
PF0004116=fn3=PD(61.2=80.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGATGGTAAAAATCAGGATTTCCA
R:
CCAGGGTTTGGCATTGGATGA
Band lengths:
339-1144
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]