DreINT0083285 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13085576-13086498:+
Coord C1 exon
chr8:13085576-13085679
Coord A exon
chr8:13085680-13086402
Coord C2 exon
chr8:13086403-13086498
Length
723 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAAT
5' ss Score
4.46
3' ss Seq
TTTGCTCTTCTCTTTTGCAGGGC
3' ss Score
12.26
Exon sequences
Seq C1 exon
AGCGTGGAAGCTGCAGCATGGGCAGATGTGTTTGTTCTCCGGGATGGAGTGGAGAGGCCTGTGAATGTCCCACCAGCAATGACTCATGCCGGGATAGCAAAGGG
Seq A exon
GTAAATTGAAAAAATATATATATATAAACACTCTGTTTTTATTAAACCTTTAGTTTAGCTAAAGCATGTCTGTCACAGGGCAGTGGTTCTCTACTGGCTTGGCCATTGAAAATTTGACCCAAAAATGAACACCAGCACCACCCCACTATACTTAAAGGGATAGTTTACCCTAAAATAAAATGTACTTCCATTTACTCTCCTTCATGTGGTTTTAAACCTCTATGAATTGCTTTCTTCTCTAGAAAACAAAAGAAGATGTTTTGAAAAATGCTGATTGATGGTACCCATTGACTTCTATAGTAGAAGAAGAAGTTTGTGTTTAACGGAATAAAAAAATTAAAGGGTTTTGAACACCCAGAGGTTGAAAAAATGTGATTGTAGAGATTTCATTTTGGGGTGAACGTGGATTTTTATTGATGCACATGAATTGCCACTTAAAGCCACTCATTTCGCAACCCACTCAAAAGTCTTCTGTGACCTCCTTTTGGGTTGTGATCCTCTAGTTGAGAAACAGTAGTCTGAGAGAACTGATTTAGCTCTTGACAAATGTGTTAGTACAATATGTTCAATGATGTTCAGGGTTTAGAGTAGGCAGTTATTTTTTCTAAATGTATGCATACTAAATGTTTTTGTGCAAAACATAAAAATATAACCAAACACATTGTAAAAACGTGTAAAACTGGTCTGTAGAGTACATAATAAATTTGCTCTTCTCTTTTGCAG
Seq C2 exon
GGCATCTGTAATGACCGTGGTGTGTGTAAATGTGGCCGCTGTGAGTGTGAACACTCAGGACTTCCACTGAGTCCTACCTGCGAAGCCAACTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:14
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:
PF079748=EGF_2=PD(64.5=57.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGGAAGCTGCAGCATGG
R:
CTGAAAGTTGGCTTCGCAGGT
Band lengths:
198-921
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]