DreINT0083317 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13078868-13081738:+
Coord C1 exon
chr8:13078868-13079039
Coord A exon
chr8:13079040-13081474
Coord C2 exon
chr8:13081475-13081738
Length
2435 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
ATTTTATCCTCTTTTCACAGGAC
3' ss Score
10.11
Exon sequences
Seq C1 exon
ATTAGCTGAGCCGTGGTCCAATAGCGACCCTCCATTTTCCTTCCGTAACGTCATCAAGCTCACCAGCAACATCACCTCCTTCAGACAGAAGCTACAGAAAGAGCGTATATCTGGCAACCTTGATGCTCCAGAAGGTGGTTTTGATGCCATCTTACAGACTGCTGTCTGCCAG
Seq A exon
GTACTGACAGTTTTTCTTCAGGGGCAATTGAAAAATAAAACTGAATGGCTTGGCTGACATTTACAATGCTGTAAACAACAACTTACTTCTTAGCGGTGGAGTTAAGGCTTAAAACCAATATTTTGTTTGGTTATATTTTATTTTTTATAGTTATTATATTTTTTATATTATATTTTTTGTCATTTAATATTAATATTAATATTATATCCTTTATTTCGCCAGTAAAAAAGCACATTAAGATTAAACATCTCTTTTACAAGAACGTCCTGACCAAGATTAAGCAGTAGACAGTTCACATAGGTTTAACAAAAATAACAGATAACATTATTCATCCATCAAAACACACAATGACAATTAAAACTAGCCAGAAAATCTACAGGCCAATACTTCAAATTCCAAGTCATTTAAAATCTTCTTAAAAGGATGTAGTGAAACCAACTCTTTAATCTGCAATTTTATTTGCAGGTTATTGCATGCGAGAGATGCTGCATATTAAAAAACATTTTTCCTATTTGAGTATGCAACACTGGTACAGACAATAAGTAAAATTCCTGACACCAAAAGCTATAGCTAGAGTAAGGTTATTTATTTATTTATTAGTATTTTTTACACAAATGTCCATGCTTTAGATCAGGGGTTCCTAAACTTTTCAGCTTGCGACCCCTAAAATAACAATGCCAGTGATTCTAGACCCCCAACATCCTCTGAAAAGGTTATAAACATACAAACCTTGCAAGCGATGGTGGTCACACATGAATAATCCCAAGTCTATTCTTTATTTAATTTTGGAAAACACCACTCAGAGATCATCCTCTATGTTCGATTGTGACCTGTATTTATTTTTAATCTACATGAGTGATGTAAAGGTGTTTAAAAGTTTAACCTGGTGCCTCACTCTGCTGCATCTGACCCTATTGCTCTGTCTTTAATCTAATGTAATGACCCCAGGGGTAGCAATCTAATGGAAAAAAAATAGCTTGTTTTTTATATAACTATTAACTACTATTTTTATTTTCTGTAGGTTATGGGGAAAAATATAGTAATTCTAATAGTTTAATCAAATGAATTTGATTTTAGGAAATCACCAAGCGACACCCCCCCCCATTATCCCACGACCCCCCGAGGTGTCCCCCACAAGTGTACACGGTGTAGGTAATTTAGGCAATAATCTAATAATCATCATAATAAACCATGTTGCATGATCAGGCATCATTAGAATGAATAAAAATGTTTACAGTGATGTCAAATAATAAATTACAAATACTTTAATTGAGTAGTTTTATCAGAAATTTTACTATTGAATAGTTAAAAAATGTATATTTTTACTTTTACAATTTACATAAGTACATTTTTAATACTATATCGATTCTTTTACTATTTGCTATTTTATTTCAACCTGCAGTCACAATATATATTTATTTTATCTTATCTATAGCGATTTCCTAAGCAGAACAATCAGACCCTTCCATCAAATCACTCATAGAAAAGTCACATCAGACAGACTGACCTCAGGACACAGATGCTTTATAAATGCAGTAAATATGTACAGCGTGGAAGCATTAAAAATGTTCAAGAAGATTCAAAATCATTACACATGATGACTGAGAGACTGTTTAGACCGTGTGTCACTAATGAGAAGAGGAATGATGCCTACTGTGTGGCCTTAAACAATAACTAAATGCACTACAGAATGTTACGTTTTCAAATACATCCACAATTTTCATTTATTCCATCAGCGCTGCATGAGTGAAAGATATATTACCTGACCTTGCGTTGTTTTCATGTCACCTCTCGCATGTGTTTGGTTGTGAGACGTAGTTTGGACAAAGTTGTCTGATTTTTTTCTATTTTAAAGTCATGCAGTGTGAACTCTCCAAGGGCTGATCCATCCTACAGTGTAAACAAAGTCATGCAATGTGAAAACATCTGTGACACGACTACTTTGAAAATCATGCAGTCTGAACTCGGCATTAGGTTACACAGATTTGGTTCTGCATGTAAACGCAGCTACTTGCTATTGGCTTACTATAGGTGCACATATTAATGTAATGTGTTCTTATGTTAAATTCATCTTACATTGTACATTTATAGTCCATGAATGGCAAATATTTTAACTAACATTTAGAACATTTTTTAATTTAAACTGCAGATGTAAGCTATGTAATAATTTTCTACATTTGAGTACATTTAGAAAGGCGACTTTTTACTCCTACTTTGAGTAGTATTTAGAACAGATGCCTTTACTTGCACAATTCTTTTTGGCAATTAATGGTACTTTTACATGAGTGTGATTTTTCAGTACCACTGCTGGCCAGCTAGGGAGTTTCACAGTCTCATGTAATGACCAACACTGATTTTTATTCACATTTGGTACACACTTGACGAGTGTTCGTTCAAGGAACTGAGTAGAGTATCATTTTATCCTCTTTTCACAG
Seq C2 exon
GACCAAATTGGCTGGAGGAAAGACAGCACACACTTGCTGGTCTTCTCCACTGAATCAGCTTTCCATTATGAGGCAGATGGTGCCAACGTGCTCGCTGGCATCTTGGACCGCAATGATGAGCAATGCCATCTGAATGTAGATGGAAACTACACGCATGATGTTCGTCAAGATTACCCATCTATACCGACTCTAGTGCGACTTTTGGTGAAACATAACATCATCCCAATTTTCGCTGTTACTAATCACTCATACTCATACTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.5=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]