RnoINT0076372 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104534534-104535300:+
Coord C1 exon
chr10:104534534-104534698
Coord A exon
chr10:104534699-104535223
Coord C2 exon
chr10:104535224-104535300
Length
525 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
ACGCCACAATCTTGTTCCAGCAA
3' ss Score
5.61
Exon sequences
Seq C1 exon
GGCACATACAATGTGCATCTTCGGGCAGTGGAGGACATAGATGGGACACACGTGTGCCAGATGGCCAAAGAAGACCAAAGAGGTAACATCCACCTGAAACCCTCCTTCTCCGATGGCCTCCGGATGGACGCGAGCGTCATCTGTGACGTGTGCGCCTGCGAGCTG
Seq A exon
GTAAGAGTCAGCCCTGCTGTGGGTGAGGGAGCGAGGAGCTGATCCCCCTCACTAGGACCCTGGGTAAAAGACATGGAACCTCCTCCGGTGGACACACATCCCTGGAGGGCTGTCCCAAGTCACAGAGAGCAGCAGAAATACGCAGTGGCAAAGCTGGGCATAGAAGAAACACTTGTAACCAAGCGTCTAGGGAGACTGGAAGAAGAGAACCTTGAGGCCAATTTGGGCTAAAATTCCCAGTCAGGCAATGGAGGTGCAGAGGCAGGCAGATCTCTGAGTTCAAGGCCAGCCCGGTCTGCAGAACAGCCAGGGCAACACAGATAGACCTTGTCTTGGAAGAAATAAAAACAAAACAAACAAAAACAGGGAGAGAGAGAGAGAGATTGAGAGAGAGAGAGAAAGAGAGAAAAGTTAGTTCCAGACCAGCCTCAGCTGCAAAATGAGACCTTGTCCCCTAGCCACCAAATGTGCCCAGTGGCTCTGTCCCTTCCTTCTATGCATGTACACGCCACAATCTTGTTCCAG
Seq C2 exon
CAAAAGGAAGTTCAGTCAGCTCGCTGTCACTACAGAGGAGACTTCATGTGTGGACACTGTGTGTGCAACGAGGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:11
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=PD(11.9=90.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATACAATGTGCATCTTCGGGC
R:
CAGCCCTCGTTGCACACAC
Band lengths:
238-763
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]