RnoINT0076340 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11777783-11778961:-
Coord C1 exon
chr20:11778795-11778961
Coord A exon
chr20:11778437-11778794
Coord C2 exon
chr20:11777783-11778436
Length
358 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
CATGTTTGATTCCACTTTAGGAC
3' ss Score
8.74
Exon sequences
Seq C1 exon
AGTGTGTGAAAGGCCCCAACGTGGCTGCCATCATAGGGGGCACTGTGGCCGGCGTTGTACTGATTGGTGTCCTCCTCCTGGTCATCTGGAAGGCTCTTACCCACCTGACTGACCTCAATGAATACAGACGCTTTGAGAAGGAGAAACTCAAGTCCCAGTGGAACAAC
Seq A exon
GTGAGTGGCCTTTCTTTGAGAACCCCCAGAGCACACAGGGGCTTCCTCTTCTCTTTGACCTCTCACTGGTAGGGATGGGTACACTGTATCCTAGGGGTGCTTGGGAAACTCACACAGAGTGCCTTCCCCAACTCTGTTACTTCTCACAGTGGGACTTGGGCCATCCTGGAGAGCTGGCACAGGCCTCACCCCAGCTTAGCCTCCAGGGTCCCAGAGTGTTCTGTGCTGCAGGTTTAGCCTTGAGGCTTAGAGCCTAGGAAGGCTTCCTGTCCTGGTTGGCTCCTTAGAGTGACTTCTACTGCTCTGGTGACTTCTTGGAGTCCCTGCACTGACAAGAGCATGTTTGATTCCACTTTAG
Seq C2 exon
GACAACCCCCTCTTCAAGAGCGCCACGACAACGGTCATGAACCCTAAGTTTGCTGAGAGCTAGAGAAGGAGTCAGAGGAGACCCCTCCAGACCATGCCTCCTCCCCTCTGCAAATAGAATGTAGCTTACAGCTAGCCCCAGTGCTGCCAAGGATCCAAAAGCCTACTTTGTTTCTTTCCGCCATTATATCAAGGCTGCCAGGGTTTCCACAGACTCATCTTCCGACCTATACAATCTTGCCACAGAGCCTGCAGATTGTTCCGGAGTCCCAAGAGGTTCCACACACGTTTTCGTGCATAAAGGGAAGACAGGGGTCTCAGTAAAGGTGGCCCCAGCTTATTTATATTTAAACTTGTTAGCGTATAAAACTACTATTATATTGTTAACATCCTGTCCGTTGTATTATATGTGAGTGTAAAACTATATCCCACATATATCAGAATCATGTGTGTAAAAATAATAAAGCTTCCATTCAGGGCTGCAGAGATGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCATCCACATGGTGGCTCACAACCATCTGTAATGGGATCTGATGCCCTTGTCTGGTGTGGCTGAAGATAGCAACAGTGTACTCACATACATAAAATAAATAAAGCCTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=PD(7.7=10.7),PF087256=Integrin_b_cyt=PU(54.3=44.6)
A:
NA
C2:
PF087256=Integrin_b_cyt=PD(41.3=90.5)
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:
GGCTCTTACCCACCTGACTGA
R:
GACTCCGGAACAATCTGCAGG
Band lengths:
344-702
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]