DreINT0083361 @ danRer10
Intron Retention
Gene
ENSDARG00000028222 | itgb8
Description
integrin, beta 8 [Source:ZFIN;Acc:ZDB-GENE-071213-3]
Coordinates
chr19:2463176-2465161:+
Coord C1 exon
chr19:2463176-2463322
Coord A exon
chr19:2463323-2464815
Coord C2 exon
chr19:2464816-2465161
Length
1493 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGA
5' ss Score
3.48
3' ss Seq
TATGTGTGTGTGTCCTGCAGGTG
3' ss Score
12.57
Exon sequences
Seq C1 exon
AAGCTGCTGTCGGATGTGGAGGTGCAGATGGAGCTGCAGGACCCCCAGCAGGCTGAGCGTTTCTGGGTGAACGTCAGCGCGATCTGCCCTGGAGGATCCTCCGCTGCCGGAAACAGCAAATGCTCCGGCGTTCAGCCCAAACAAACA
Seq A exon
GTACGAGAGCCTGTAATGCAGATACATCTGTTTCCAGCACAGGCAGCAGAGATGCTGGCTTTGATTCGGGAAACTGCTCGAATTCGAAGAACACTTCAGCCAAGAATATTATTTACTCCTCTTGTGTTTAAAAGAGGAATTCTTAATGAAGTACAAGGGATGTTCATTCATTTATTTTCCTTTATCAACCTATTTATCAGGGGTTGCCACAGCGGAATGACCCACCAACTATTCCAGCATATGGTTTACACAGCGGATGCTCTTCCAGCTGCAACCCAGTACTGGGAAACACCCGTACACTCTTGCATTCACACAGACACTCATATACTACGGCCAATTTTAGTTCATCTAGTTCATATTCCTCATGTGTTTGGACTGTGGGGGGAACCCGAGCACCCGGAGGAAACCCACGCCAACACGGGGAGAACATGCGAGGAGATTTTTTTGAACACATTTCTAAACATAGTAGTTTTAATAACTCATCTCTAATAACTGATTTATTTGATCTTTGCCATGATGACAGAAAATAATATTTCACAATATTCTTCACTTCTATACAGCTTAAAGTTTCATTTAAAGGCTGAACTAGGGTAATTAGGGTAAAGTTAGGGTAATTAGGCAAGTCATTCTTTAACAGTGGTTTGTTCTGTAGACCAGTGGTTCCCAACTTTTTTTTTGCCTAACATCCCCTTTTTCCCCAGAAAATATTGTAAGGCCCCCCTCCACATTTAATCATATAATCGCTCATATAAGTTTGCAGTAATGATGACAAGATTTTTTATTTTCAAACAAACAGTATGTTTATTACTATATCTAGATATGTTTATGCACAAGTAATAGCCTAATGTTTCCTAGAGATGGGTTGCAGCTGGAAGGGCATTTGCTGCATTAAACATGTGCTGGAATAGTTGGTGGTGCATTCCGCTGTGGCGACCCCAGATTAATAAAGGGACTAAGCTGAAAAGAAAATGAATGAATGAATTATAGCCTAAAAGCAAAACATCAGTAGGCCATTTGTAACTCCTGATGGGTCGTTCATGAACGATTCGTTCATTTTGAACGAATCTTCAGTATGATTTGGAAATACGAGTCCTCTTAGGTTGTGATTCGTTGGTTGTGACCCCCCACAAAGCTCGCTTAGGCCCCCTTGTGGGCCACGACCCCCCTGTTGGGAACCGCTGCTGTAGACAATCCAAAACAAATATTGCATAAGGGGGCTAGTAATATTGAGCTTAACAAATTAAAAACTGCTTTTATTCTAGCCGAAATAAAACAAATACGACTTTCTTCAGAAGCAAAAATATTATAGGAAATACAGTGAAAATGTTCTTGATCTGTTAAACATCATTTGGGAAATATTTGAATGATCTTAGGAGGACTGAAAAACTGTTTGTGTATATATACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGTATATATATGTGTGTGTGTCCTGCAG
Seq C2 exon
GTGTTCTTTCAGCTGACAGTAGGCATGCTCTCGTGTCCAGCTGGGTCAGCAGATCAGGATGTGTTGATGCTTGTGCGGCCGGTGGGCTTCAATGAGTCTGTGCGTGTGCGTATTCGTCAGCTCTGCGGTTCCGGCTGCACTGATCCCAAACCCGAACCCTCGTCCTGCACTACAAACGCTAGTGACTCCTGCAGAGAGCACAGAAACACCCCTGTCTGCAGTTCTAGAGGCGTCTGCCGCTGCGGGACGTGTGTGTGCGACTCCAGCAGATTTGGGAACATCTACGGGAAGTTCTGTGAGATGGATGATTTCTCCTGTCCGTATGATGGAGGCCTGGTGTGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028222:ENSDART00000136138:7
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:
PF0036213=Integrin_beta=FE(15.0=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(14.1=38.8),PF079748=EGF_2=WD(100=31.0),PF079748=EGF_2=PU(32.3=8.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGTGGAGGTGCAGATGGAG
R:
AGGGGTGTTTCTGTGCTCTCT
Band lengths:
348-1841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]