BtaINT0078254 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018993 | ITGB7
Description
Bos taurus integrin, beta 7 (ITGB7), mRNA. [Source:RefSeq mRNA;Acc:NM_001105365]
Coordinates
chr5:26972063-26972755:+
Coord C1 exon
chr5:26972063-26972271
Coord A exon
chr5:26972272-26972594
Coord C2 exon
chr5:26972595-26972755
Length
323 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CCATTGTTTCTTCCCCATAGAGG
3' ss Score
10.28
Exon sequences
Seq C1 exon
GGACTGTGCAGAGTGCAAAGCCTTTGGGACTGGTCCCCTGGCCAGGAACTGCAGCACAGCGTGTGCCCACGCCAACATGACTCTGGTTTTGACCCCTACCCTGGATGACAGCTGGTGTAAAGAGAGAACCCAGGACAACCAGCTCTTCTTCTTTCTGGCAGAGGATGAAGCTGGAGGCAGAGTTGTGCTCACAGTGAGACCTCCAGAGG
Seq A exon
GTAAGTGGGCAGGGATACTGTGGACATGCCACATGAAGTCCTGCAAGTTTAATGGGTAGGGGGCCAGAACTCTGGAGGTGAAAACGCCAGGCAATCAGGCTGGGGACTGAAGCAGAGCTGTGAAGCAAGCAGAGTGCAGATGCTGGATCAAGTGGACCTGGCTGAGGCCCTGAGTGCTGGGATAACCCTGATCCTGTGGAAGTTCCTTTTGTTTTCAATGACAGGCAAGACTAGGGAGGCTGATGGGGCTGGACACGTTGTGGGTGACGGGTGATCAATTCCTAGGCCCTGGCCCCCAGAAGTCCATTGTTTCTTCCCCATAG
Seq C2 exon
AGGGAGCAGACCACACCCGAATCATTGTGCTGGGCTGTGTAGGGGGCATCGTGGCGGTGGGACTGGGATTGGTCCTCGCTTATCGGCTCTCGGTGGAAATCTATGACCGCCGAGAATTCCATCGTTTTGAAAAGGAGCGGCAGCATCTCAACTGGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018993:ENSBTAT00000025279:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(88.6=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(5.1=7.4),PF087256=Integrin_b_cyt=PU(53.2=46.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGTGCAAAGCCTTTGGGA
R:
CTGCCGCTCCTTTTCAAAACG
Band lengths:
344-667
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]