RnoINT0076438 @ rn6
Intron Retention
Gene
ENSRNOG00000012208 | Itgb7
Description
integrin subunit beta 7 [Source:RGD Symbol;Acc:2929]
Coordinates
chr7:143820900-143821490:-
Coord C1 exon
chr7:143821330-143821490
Coord A exon
chr7:143821206-143821329
Coord C2 exon
chr7:143820900-143821205
Length
124 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GTGCAATGTTTCCTCCACAGGAC
3' ss Score
10.48
Exon sequences
Seq C1 exon
AGGGAGCAGACCACACCCGTGCCATCATACTGGGCTGCGTAGGGGGCATTGTGGCAGTGGGATTAGGGCTGGTCCTGGCTTACCGGCTCTCAGTGGAAGTCTATGACCGCCTTGAGTACAGCCGCTTTGAGAAGGAGAGGCAGCAACTCAACTGGAAGCAG
Seq A exon
GTGAGGCCAGCTCTAAAGCTTCTCATGCCAAGTCCCCCCCCCCAGCACAACCAGGCATTCTAGATTTGGCCTCATGGGGAGAGCCTGAGAGGTGTTCTTACACTGTGCAATGTTTCCTCCACAG
Seq C2 exon
GACAGCAATCCTCTCTACAAAAGTGCGGTCACAACTACCGTCAACCCTCGCTTCCAAGGGGGCAACAAACAGTCGCTGTCCCTCCCTCTGACCCAGGAGGCTGACTGACTTAGGATTCTTGTCTTGGAGGACAGAGGGGGCAGTAGGGCAGGGGCAGTGTCTGTTGCAAAGTTTTTTTTCAGACTGGCCTTCAGAGGGCAGCGTAACCACGGCAACAGCCACCCCACGTGAAGGGCTGGTCCTTCCACCATAAAGTTCTGCCTCAGACTTTCGGCCTGTGGCCTGTACTTCACCCCGGGACAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012208:ENSRNOT00000016642:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.029
Domain overlap (PFAM):
C1:
PF087256=Integrin_b_cyt=PU(53.2=46.3)
A:
NA
C2:
PF087256=Integrin_b_cyt=PD(42.6=55.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCATTGTGGCAGTGGGATTA
R:
CCCCTCTGTCCTCCAAGACAA
Band lengths:
256-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]