RnoINT0076305 @ rn6
Intron Retention
Gene
ENSRNOG00000010966 | Itgb1
Description
integrin subunit beta 1 [Source:RGD Symbol;Acc:2927]
Coordinates
chr19:61716727-61718431:+
Coord C1 exon
chr19:61716727-61716959
Coord A exon
chr19:61716960-61718264
Coord C2 exon
chr19:61718265-61718431
Length
1305 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
ATTAACCTTTTCGTTTGTAGACT
3' ss Score
9.22
Exon sequences
Seq C1 exon
AGAATGTGTTCAGTGCAGAGCCTTCAATAAAGGAGAAAAAAAAGACACGTGTGCACAGGAGTGCTCCCATTTCAACCTCACTAAAGTGGAAAGCAGGGAGAAGTTGCCCCAGCCTGTGCAGGTGGACCCTGTGACCCACTGCAAGGAGAAGGACATTGATGACTGCTGGTTCTATTTCACCTACTCAGTGAACAGCAACGGTGAAGCTCACGTGCATGTTGTGGAGACTCCAG
Seq A exon
GTAGAAGTCCAGGATGCGTAGCATTGCTTCTTACAGTGCCTTGTTTCTATTCCGAGGCATTGCCGGGGCTCTGGCTGCAGGAACAGCCTGTATTCTTATCTTACTATTTATATTAGGTTTATATTGGGATATTTTCTTCTCAAAGCTTAAAGTAGAATTTTGCTAATTATATAGCAACTAAAGAAGGAATCAAGTTTTAAGTAAATGCAACCCAAGCTATATTGTTGTGATATTTAAATCTGAGCTCAGTCCAGCTTTAGGTGCTCGAAGAAGGTATCTTAAAGATATTATCAATGTTGAATTTGTTCAACTTCCCAGGAAAGAAGCACGTTTCACCTTTGTTTTCCTAGTAGCCTTTATAGATTCTTTGTCACTCTATCAGGTTTTTGCTATGAACTCATTTTAGACATGTGGTAAGCATCTGTTTAGGGTTATAAGAAATGCTTCAACTTTGTAGCTTTTATTGTTTTTAAAAGAGAGGACAACTTTGTGGAGTTGTTTCTCTTGTCCTACGGGTTCCTGAGAATCAAACACGTGGTTAGCCTTGTTACCAAGTGCCTTTACCCACTGAGCCCTCTTGTGGTCTCTGCATTGTTCTGCAACACTAGACAGCCTCTATCTTTTCATTGCCTTAGCAATTTTTTCAACACGGGCTTTGTTGCTGTTTTTGTGGTGTTATGCAGTGAACCCAGGTGTTGCAATAGATCATGGCTTCCTGGTTTATTTCTACAGTGTTAATGACTTCGAAGGTGTGACTGCAGCCTTGCCACTTGAATGCTAGCCTGTGTCTGGCCAGTCATCTTTACTACTGTCTTTTGTCATTGCTTAGTACTTTATAGTCTTAACAGATTATTTTTAATTATATATAAGCTTTTTATTATTTTTGATGCCATTATGATTTTTAATTTTTTTTAGTCTTCAGAAAAGAAATATATTCCATAGCCCCCAAATAAATGACCTACTGATCATATTTCCTACAGTTTTATAAGCTCCCTCGTTAGAATCTAGTAGTTTTTTGTTTGTTTGTTTGTTTGTTTGAGATCGGGTCTCAACTTGTCTGGCCTGGAACTTACTTTGTAGACCAGGTTGACCTCAAACTCATGAGGTCCATCTTGAGATTAAAGGTATGTGCCACCACACCTGGCCTGGAACTTAGTAGCTTTTAAATAGGTTTTTGGGACAGTGCAGTCTCTTGAGTTTGCAGCACTATTAATTTTGTTAAGACCCCATCTAGCTCTTTGTGGTCATGTGAACTTTGTGTAAACTCAGTCTTTTTATGCTTATGATTAACCTTTTCGTTTGTAG
Seq C2 exon
ACTGTCCTACTGGTCCCGACATCATCCCAATTGTAGCAGGCGTGGTTGCCGGAATTGTTCTTATTGGCCTTGCCTTGCTGCTGATTTGGAAACTTTTAATGATAATTCATGACAGAAGGGAATTTGCTAAATTTGAAAAGGAGAAAATGAATGCCAAGTGGGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010966:ENSRNOT00000014785:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(87.6=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(6.7=10.7),PF087256=Integrin_b_cyt=PU(53.2=44.6)
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:
GGAGTGCTCCCATTTCAACCT
R:
CGTGTCCCACTTGGCATTCAT
Band lengths:
343-1648
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]