DreINT0083286 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13086403-13087530:+
Coord C1 exon
chr8:13086403-13086498
Coord A exon
chr8:13086499-13087400
Coord C2 exon
chr8:13087401-13087530
Length
902 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TCCAACTGTCTGTCCTGCAGCAA
3' ss Score
9.38
Exon sequences
Seq C1 exon
GGCATCTGTAATGACCGTGGTGTGTGTAAATGTGGCCGCTGTGAGTGTGAACACTCAGGACTTCCACTGAGTCCTACCTGCGAAGCCAACTTTCAG
Seq A exon
GTACAACTGTCTGTTTTGCTTTACATTTTAAAGTCGTCCTGTCACGCCCCTTTTTACTAGACATGTACTTTTTAAGCCCTCATAATCTTTAATCAATCCCCATAACCTTCCCTCCACTCTCAAAACGTCTTTACTTCTGGTCACATGAATGCCTTTAGGGCAGGGCTATCAGGGTGTGTCTTATTTCTGTCCTGCTTTTGTTCAACCCTTCTTCATTTTGTTAGCAACGGCCATCTTCCAACAATCCAGTTGGTTCCCGAAGGATGAAATTATCCACCACCCTACACTTCTTTGTCCTTATTTCAGGTCCATTTTAATTGAATGTGCATCAATTTCAATGCTTTTAATTCTAGGGGTCATTTCTGTATTTATAAATGAGCATTAAAAATAGTTTCTGTTGAATTCTTGCACTTGCCTAAGCCACACAGCTACTATGTTAATATCAGGGAGTATTTTAACTTATTGGATCAATGCACGGCGGTTGTCAGATGATGAGTCGAGTGAATATTACACTACTTTTTCTTTCACATCAAATACATGAAATGGTTGAGGGGGAAAACAGAGATTCACCTACGGTAATGTGAGGCATGCTTGTGAATGTAAACAGTTGGAGAAGAAATCACGTGTGTATCAGTATATTAGATCTGTGAAATAACCTCTCTTGGACATGAAAACAACACACTACTAACACAACTCAATCATGCCCCAACTCATTGGCAGGATTTATTTACGTCTACAATATCATGACGTGTACATTGCCATATTAAAGCAAAACAATTGAGTTAGCATGTGTTTACTGAAACAGAAAATCTTACGCAGATTTTTCATCTTACTCTTAAGGAAGTTGAAAGCATAATGCAACCCGTTTAAAAAAGTCCTCATTCCAACTGTCTGTCCTGCAG
Seq C2 exon
CAACAAGTGGGTATGTGTGAAGCCAAGAGGAGCTGCGTCCAGTGCCAGGCCTGGAGCACCGGTGAAAGGAAAGGACGGAAATGCGATGAGTGTCCCTTCAAAATTGTCAGGGTGGATGAGCTTGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:15
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:
NO
A:
NA
C2:
PF079657=Integrin_B_tail=PU(43.7=86.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCATCTGTAATGACCGTGGT
R:
TTCAAGCTCATCCACCCTGAC
Band lengths:
222-1124
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]