BtaINT0077928 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012897 | ITGA7
Description
integrin, alpha 7 [Source:HGNC Symbol;Acc:HGNC:6143]
Coordinates
chr5:57887255-57888646:+
Coord C1 exon
chr5:57887255-57887370
Coord A exon
chr5:57887371-57888453
Coord C2 exon
chr5:57888454-57888646
Length
1083 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGG
5' ss Score
5.25
3' ss Seq
ACTGGGATCTGATCCTGCAGGGA
3' ss Score
7.51
Exon sequences
Seq C1 exon
ATCCACTTCCTGAAGCAAGGCTGTGGTGAAGACAAGATCTGCCAGAGCAATCTGCAGCTGGTCCAAGCCCGGTTCTGCGCCCGCGTCAGTGACACGGAGTTTCAGCCTCTGCCCAT
Seq A exon
GTGAGGGGGAGTGAGGGAGCAGGTGGGGTGGGAAGGCAAAAGTTCAAAGTATGAGAGGAAGTCCCCTGGGGAGGGCTCGGAGGGGCCTGAACCTGCAGAGGGGAGGGTGGAAGGTGGGGAGGGCCTGTAGACAGCTCGGAAGTTTGCAGGATGAGGAGGGTGACGGGCCCATAGCAGCTCACCTGGCAGGGAAGAATAATCCTTCATCATATTTTTGAAATTATATAGTTCACATACACTTCACTGTTCAGTCTTCACAACCCATGAGGTAGGAATTACTATCAGTTCCACTTGGAAGCCTAGAGAGGTTTAGTTACCTGCCCAAGGTCAGCAAGCGGTGGACCAGGGACCAGAAGGGTGGTTCCCTGATTCCCAGTCTTTCTTTTTTTTTAATGTATTTTTAAATTTTTATTTTTATTTTATATACTGAAGTGCTAACCACTCAGTGCTTTTTTTCTTTAAATTTTACTATTTATTTTTGGCTGTGCTGGGTTGTCATTGCTGCACACAGACTGTTTCTAGTTGGGGTGAGCCCGGGGCTGCTCTCTAGTTGTGGTGTGCAGGTTTCTCATCATGGTGGCTTCTCTTGTTGCAGATCATGGGCTCTAGGGCATGCAGGCTTCAGTAGTTGAGGCTTCCGGGCTCTAGAGCACAGGCTCAATAGTTGTGGCCCACTGGCTTAGGTGCTTTGCAGCATGTGGGATCTTCCCAGATCAGGGATTGAACCCATGTCTCCTGCATTGGTGGGTGGATTCCTTACCACTGAGCCACCAGGGAAGCCCCCTAAATTTTTATTTATTTGGCTCTGCTGGATCTCAGTTGCAGCAAGTGGGATCTAGTTCTCTGACCAGGGATTAAACTCAGGCCCCCTGCATTAGGAGCTTGGAGTCTTAGCCACTGGACCACGAGGGAAGTCCCTGACTCCAGTCTTGACTCTTTCTTGAGTGTGTGGAGATTAGGGAGGCCCAGGTGGAGGGAGAGGTTCAGAGGGTGGAGGCGAATCCCATGCATTGGGGGAGGGGGCAGGAGGGAGAGGCTGGGCAGGTGTTCAGGTCTTAGAGCAACTGGGATCTGATCCTGCAG
Seq C2 exon
GGATGCAGATGGGACGACAGCCTTGTTTGCTCTGAGTGGGCAGCCAGTCATCGGCCTGGAGCTGAAGGTCACCAATCTACCCTCGGATCCAGCCCAGCCCCAGGCTGATGGGGATGATGCTCATGAAGCCCAGCTCCTGGTCACCCTCCCTGCTGCTCTGCACTACTCCGGAGTCCGGGGCCTGGACCCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012897:ENSBTAT00000017145:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=0.277
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(8.4=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(14.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCCTGAAGCAAGGCTGTG
R:
GGACTCCGGAGTAGTGCAGAG
Band lengths:
288-1371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]