RnoINT0076312 @ rn6
Intron Retention
Gene
ENSRNOG00000010966 | Itgb1
Description
integrin subunit beta 1 [Source:RGD Symbol;Acc:2927]
Coordinates
chr19:61708644-61709797:+
Coord C1 exon
chr19:61708644-61708799
Coord A exon
chr19:61708800-61709701
Coord C2 exon
chr19:61709702-61709797
Length
902 bp
Sequences
Splice sites
5' ss Seq
TATGTACGT
5' ss Score
3.41
3' ss Seq
TCTATTACTTGATTCCTTAGGAT
3' ss Score
8.66
Exon sequences
Seq C1 exon
TCGCTGATTGGCTGGAGGAATGTAACACGACTGCTGGTGTTTTCCACGGATGCTGGGTTTCACTTTGCTGGAGATGGGAAACTTGGTGGTATTGTTTTACCCAATGATGGCCAGTGTCACCTGGAAAATAATGTGTATACAATGAGCCATTACTAT
Seq A exon
GTACGTACCTAGACCTGCCTCGTGAGTGAGTCTTGGTGATTTTAGTGTGTAAGCCTGAGTGTGCATGCGGGAGGGCAGGGTTTGCAGATTTCTTGTTTTGGTTAAGTGTGGCCCTGATGGTCGCCAGGAGAGCTGCATTGCTGCTTGTAAAGCTGTGGCAGTGTGCTGCTCTGTCTGTCTGGGTGGCAGGAATGCTGAGCTCTATCTGGCTCCTCACTCACGTACATCATTTGTCAGTCTCGCTGGTCATATGTCTAAATGTGCAATCTTTAACTAGGCCTGCCCTCTCTATTTTATGACTGAAAGGAAATCACTCATGTTCTAGAAGAAATTCAGTATTTGGTGAGTCTTAGTCTTAAATGCTAGATAACAGGAGCCTTTAGTTCTGGTTCCTTAGTTTCACAGTCCTCACATTTAAAATGCATAGATTGTCTTGCGTTTAAAATCTCTTAAAATGGGACTGGAGAGGTGCTCAGTGGGTAAGAGCACTTGGCAGCTCTTCCAGAGGACTTGGGTTCAATTCCCAGCAGCCACATGGCTGCTCACACCTTTCTGTAATCCTATCTAGCTCCAGGGCTTCTGATAGTCTCATACGGATATACATGCAGCCAAAATGTCAGTGAACATAAAAATACATTACATAAAAATGCCTTAAAATACAGAAGTTCTTAAACATATAAAAGAAGAACATGACCCAGCTCAGCAATTATTTGCATTTGATGTTCTGTCTTGAGAGCAGCCTTGTGTGAGTGATCTGGTTATGAATGCTTATCAACTCAAACAGTGTAATCTTAGCAATTGAGAATAAGCCTGGACTACAGAGACTCAAACAAAATAAACAAAGCCTCATCATTGAATATATGGTGTATTTATATACGAAATTCTATTACTTGATTCCTTAG
Seq C2 exon
GATTATCCTTCAATTGCTCACCTTGTTCAGAAACTAAGTGAAAATAATATTCAGACGATTTTTGCAGTCACTGAAGAGTTCCAGCCTGTTTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010966:ENSRNOT00000014785:7
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(11.8=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(7.2=100)
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:
TCGCTGATTGGCTGGAGGAAT
R:
AACAGGCTGGAACTCTTCAGTG
Band lengths:
246-1148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]