RnoINT0076313 @ rn6
Intron Retention
Gene
ENSRNOG00000010966 | Itgb1
Description
integrin subunit beta 1 [Source:RGD Symbol;Acc:2927]
Coordinates
chr19:61709702-61710148:+
Coord C1 exon
chr19:61709702-61709797
Coord A exon
chr19:61709798-61710058
Coord C2 exon
chr19:61710059-61710148
Length
261 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TTTTATATTTTTAATTTTAGGAA
3' ss Score
10.87
Exon sequences
Seq C1 exon
GATTATCCTTCAATTGCTCACCTTGTTCAGAAACTAAGTGAAAATAATATTCAGACGATTTTTGCAGTCACTGAAGAGTTCCAGCCTGTTTACAAG
Seq A exon
GTAAAAAAGAATGAAAGTTCTATATCTCTCCTATTGTTTAGTAGCTGAATTATGTATTTGGAGTGTGAGAAAATACCCCAAGGCATTTATGTTCAGTAGCTGATGGAACTTGACAAACGTTATTTATTTATTGCGTTTATTAGGATTGTTATTGTAAGTTTGACTTGAAAAGATACTGAGGAAATGAATAAAAGACCTGAGGTGCAATGGATTTTAATTGGTTGAAAAAATAATATTTATATTTTATATTTTTAATTTTAG
Seq C2 exon
GAATTGAAGAATTTGATTCCTAAGTCAGCAGTGGGCACACTGTCTGGAAACTCTAGTAATGTGATACAGCTGATTATCGATGCCTACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010966:ENSRNOT00000014785:8
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(7.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(6.7=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:
TCCTTCAATTGCTCACCTTGTTCA
R:
TTGTAGGCATCGATAATCAGCTGT
Band lengths:
180-441
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]