DreINT0083309 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13110809-13113924:+
Coord C1 exon
chr8:13110809-13110958
Coord A exon
chr8:13110959-13113735
Coord C2 exon
chr8:13113736-13113924
Length
2777 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAA
5' ss Score
2.91
3' ss Seq
GTATTGTGTTTGTCTGTTAGGTG
3' ss Score
9.31
Exon sequences
Seq C1 exon
AATCGCGCTTCACCCCGGGTGTTCCCGCGACTCCCAGCAGACTGGTGTTTTCAGCTCTGGGCCACACGGCTCTCAAAGTGAGCTGGCAGGAGCCACACTGCGAGTCTGATGTACTGGGATACTGCGTCCTTTACCAGCTCATCAATGGAG
Seq A exon
GTGAAACATCTTTTCTCATTCACACATGTTAGACTTGGTCAATGTTAAAATAAAACTGTTTTCGACACTATGGGTAAAAGTCTGTGTTAAATAAAACATTATGTTTATGCTTGCTAGCGCACTTTGTTATTCTTTAGGTAAACAAGTCAATCCACTAAAAAAAAAAAAGTGTTGGTAATCTTCAATCAAATTCTGCCCATTTTCTTACGTGTTTGGAGTGCCGGTCCTTGTGTTGTCATCAGTTTGATGCCTTTAGCTATTACCGTTAGCTTGCTATGAGGGAATGACATGCAATATCTCTACTCAATATTCAGTTTCAGATGGAAGTATATCAACATACTGAAATAAAATTTCCGGTTCACATGGACTTTTAACTGATTATGATGACCACATTCTAACTGTATTGCATTCTGTAACTTGCGGGCCCCTATGCACCTTGCGTAGTCCAAGTATAAGGTAGATCGGTACTAGTTCTCAGTTTCTTTGGATTTTTTTTAGATATGGTAAAATGTTTTAATCTATAGTGAGAACATTTCTTCAAAACTTAAAATAGAAATTTTGTTATTTAGAGCTTTAAAGAGCCCATATTATACATGAACTAGGGTCATATCTTGGTTGTAAGGGTCTCCAACAACAGTCTAATATGCATGCAAGGTCAAAAAACACTTTCATGGTCTTATAATCTGCATTTATTTTTACCTAATTATCCCAGCGACTCCCGTATGAATCATCCAGTGATTCATTTGTTCCCAAACCCCTCCTTAGCGCGAAGCTAATCTGCGCTGATTGGACCGATGACAGTCTGTCGCGATTGGTCGACTGCCTTCAGTCAGAGAGTGAAATGCCCAATAGCTAATCAGCAATATAAAAAGTAATCACAGTTCATACACGCTCGATAGTGTAGGCGTGGATTTTAGCTGCCACACACACACCTCCGGACGACAACGCTTCCGCCCGCACCCGCCAGGTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATACGCGCGCGTGCGCACTAACACACATACACACAAGCACCAAGCAGACACATCTTTCTCATTCGCATAGCAAGATCCGTGATATTGCTAGACAGCCCGCTCCCGTCCCAAATTAAACCCGTTACCGACCGCTCCCGCGATTTATTCGGAAATTTATTACCGCGCCGCAGAAATCTGGCGCGGGGACAGCCGCGGGTATGTAGACCTCTACCACGGAGCTCCATAAACAAAGCAGCACGCGTCGCGTTTTTAACGTGACTTTGCACGCGATAAGAGAATATAGCCAGTTAACCTGATACAGTACACTCGGTTACAAGTAACAAATCACAACTAAATACATTTGCAAGCCAGAGTCAACGAGGCAACAACTTTAATCGCAAGTACTTACACTTGAGAAATGGAAACCCATCCTGACGTCCATCAGTAAGTTACTCTTTACTGATCCTTCCTTTAACAAACTCAGATGAAGTATTCTTTGTAGCATGTAGTTTCCAGAAGTTTCCAGTAGTTTCCAACTGCTTGGCTATAATGCTGATGTTTCGTCTTTGGGTAGAGACTCGATATAATATCCATCTGCAGTGTGACTTCAATCGACCGGCATGTTTGTGTGCGTGTGTTTGTGGGTGTGTGTGTGTGTGTGTCTGGGTTTCTGCGTCAGAGGGCGGGGCCTCAGGTTTGAAATCTCCCGGGTTTGCGCGTACACGTGAATAACTTGGTTTCCTTCGTACGTCATGGCGAAACACCTAATGACTCGGTATCAAGGCGACTCGTTTGAAGCACTATGAGTCGACTCTTTTATAGATGAATCAACCGTTTTAAACACTGTATTCTTACAGATTTAAGCCTTAGCTGGATACTTCACTTCACTTAGAGCTGTGTTACACACTACATGGAGGGGAATTTTCAAAAACCCATAATATGGGCTCTTTAAAGTGTGTCCTAACTTCAAGCGACGCCACAACATGCGATAAAAATTATCTTTTCCGTGTTAAAAGATGTTTTTGTCCTAACCATCCACATGAAGGCGACACGCCAAATTTCTGTTAGTCGCAAGAGAACAACATCATGTACTACAGTGACAAAGATCACCTCAGGTAGAGATTATGTGCTTTAATCAGTGTTAAATGCTCCTAATGTGAGTTTAAATATCATTTTACATGACATTTATTGCCATAATGCTGAACGCAGCAGCAGATAGTTTACCTCAGATCTTAAAAATAAAACAACCTGCAGACAGCTTGAAAGTTAAATTCAGAAATGTGAGTGTAAATTAACAACGTCAGTCACTTAGTACTCTATTAATAACGTTAAAGAGGTTAAATATGTATTATTAGATTAAAAGCCTTTATGCTATTTCAGTGGGAGATGCTGTTACCAGTATTTGAATGTTTCTGTCGTGTCTCATCACTTTTGGTGCAGAAAGCCAAATTGTTTGTTGCTGGAGTTGTGTGTTGTTAGACACCGTGTTAGACCTTTTTTCTTTCCGAAAATGAAGATCAGAATAAAAAAATGTTTGTTTTTTGTGTGATTTGAAAATCAGGGTTATTTCTCAACTTTTTCAATATTAAAAAAATTATATATATTAATAAATAATAATAATATTTTAAAAATAAGATTGTAAATCATAAATTTACACAGTATTGAGAATACAATAATTCTTTAGTTGTTGTTTATTGATTTTTATTTCATTGTATTGTATTGTGTTTGTCTGTTAG
Seq C2 exon
GTGACGTAAAACGTATCGAGGTGAACAATCCTGCTCAGAACTCAGTGCTGGTTCAGGATCTCCTGCCTAACCAGTCCTACATCTTCAAAGTCAAAGCACAGAGTCGAGAGGGCTGGGGTCCTGAGAGAGAGGGCGTCATTACCATTGAGTCCAACGTCGACCCCAAGAGTCCACTGAGCCCAGTGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.312
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=80.4)
A:
NA
C2:
PF0004116=fn3=PD(50.0=65.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]