BtaEX0018555 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018993 | ITGB7
Description
Bos taurus integrin, beta 7 (ITGB7), mRNA. [Source:RefSeq mRNA;Acc:NM_001105365]
Coordinates
chr5:26972063-26973297:+
Coord C1 exon
chr5:26972063-26972271
Coord A exon
chr5:26972595-26972755
Coord C2 exon
chr5:26973031-26973297
Length
161 bp
Sequences
Splice sites
3' ss Seq
CCATTGTTTCTTCCCCATAGAGG
3' ss Score
10.28
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
Exon sequences
Seq C1 exon
GGACTGTGCAGAGTGCAAAGCCTTTGGGACTGGTCCCCTGGCCAGGAACTGCAGCACAGCGTGTGCCCACGCCAACATGACTCTGGTTTTGACCCCTACCCTGGATGACAGCTGGTGTAAAGAGAGAACCCAGGACAACCAGCTCTTCTTCTTTCTGGCAGAGGATGAAGCTGGAGGCAGAGTTGTGCTCACAGTGAGACCTCCAGAGG
Seq A exon
AGGGAGCAGACCACACCCGAATCATTGTGCTGGGCTGTGTAGGGGGCATCGTGGCGGTGGGACTGGGATTGGTCCTCGCTTATCGGCTCTCGGTGGAAATCTATGACCGCCGAGAATTCCATCGTTTTGAAAAGGAGCGGCAGCATCTCAACTGGAAGCAG
Seq C2 exon
GACCACAATCCTCTCTACCAAAGCGCCATCACGACCACTGTCAACCCCCGCTTTCAAGAGGCAGACAGCCCCGTTCTCTGAAGTGGGGAGAGAAAATCACTGCAGGGCTCTTCTCTGGGACCAAAGGAGTTGAGGCGTGGGGTGGATCGGGCTACAGCCGGGCAGGGGGCACTGAAAGGGCTGCCTGCTGCTGCGACCTTGCTTCCCTACCTCACGAGGAGTGGGGGCTCTCCCAGCCAGGTCTACAATAAAGTCTTACCTGAGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018993-'19-27,'19-26,21-27
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(88.6=100)
A:
PF079657=Integrin_B_tail=PD(5.1=7.4),PF087256=Integrin_b_cyt=PU(53.2=46.3)
C2:
PF087256=Integrin_b_cyt=PD(42.6=74.1)
Main Skipping 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:
CACGCCAACATGACTCTGGTT
R:
AGAGAAGAGCCCTGCAGTGAT
Band lengths:
258-419
Functional annotations
There are 1 annotated functions for this event
PMID: 12606711
Partially encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning, surface plasmon resonance. ELM ID: ELMI001554; ELM sequence: QDSNPLYK; Overlap: PARTIAL_RIGHT
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development