BtaINT0077939 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012897 | ITGA7
Description
integrin, alpha 7 [Source:HGNC Symbol;Acc:HGNC:6143]
Coordinates
chr5:57895844-57898519:+
Coord C1 exon
chr5:57895844-57895969
Coord A exon
chr5:57895970-57897956
Coord C2 exon
chr5:57897957-57898519
Length
1987 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTGGCCTGCTGTTCTTCCAGATG
3' ss Score
10.06
Exon sequences
Seq C1 exon
ATCCCGGTGATGGTGTACCTGGACCCCGCGGCTGTGGCAGCAGAAGGAGTCCCCTGGTGGGTCATCCTGTTGGCTGTACTAGCCGGGCTGCTGGTATTGGCGCTGCTGGTGCTGCTCATGTGGAAG
Seq A exon
GTGAGGCTTGGGGAGGGTGGTGCCACTGGTGGCGGGGCTCTCCTGTCAGGCTGTGGTGTGGTTCTTGTACCCACTGTCCCATTTATTCAGCAAATCTGTGTTGAGCACTTACCCACGTGTGCCAACATCTCTATCAGGCCCTGGATGTTTCGGGGATAAGTCAGATGTAGATCTTGTTCTCAGGGCTTTTGTAGTCTAGCCAGGGAGGGGAGCCTTGTTGTCCAGGACGAGGTAGCGGACTGAGTCAAGAAAGCACAGTGGGAATTCAGGGGAGGGAAAGCTTGAGAGCAGGTGGCCCTGGAAGGGCCTTAGAAGGTGGGGTAGTAGGATCTGGATGTGGGGAATGGAATGTGGGTCTGGGCCTTTCAAAAGGACCATGGGAGGGGAAAGTCATGAAGGCAGGGAAGTGTGGTCTGATTTAACTAGAGCATGGTGGCTAAGGCTGGGAAGAAAGCCAGGCTCAAGAAAGCCAACCAATGTGGAGAACTGCCTCCAGGGAACTGTCTCCAGGACTGAACTCTGAGCCGCCACATACCAGGCTTTACATGGAACCATTCTTGATCAGAGTGTAGCCAGAATCATGTGTGCATCCGGGGCTCCACATAAGAGCACACACATGTATATGTTAGTACTGAGAATCACGTCCATTATCAGCGGCCATCCCCCGAACTACATGCCACATCTGAGCCATATGGAACCACAAATGCCCTGGGGGCCCTCCGGAGAGCTGCCTCCCTCCCCAGGACCAGTCACAGACCAGGCACAGCCTCTGGCAAATGTGTATCATCAGGCCTCTGGGTATCCAGACTGTTGGGAACCTTGCCATTCTTCAGGGAGATTGAGGCCCTTGAGAAACTGGATCCAAGATCTCTCCTTCTCACTCCCATGGAAGGGGGACAAAGCAGAGATAGGGGCCACCATCCTTCCTTAGCCTTCCCATCCTCCACCTCCTCTGCTCCCCTCCTCCCTTATATCCCAGTGTGGCTTCTTCCGTCGGAGCAGCCAGAGCTCATCTTTTTCCACCAACTATCACCGGGCCCGGCTGGCTGTGCAGCCCTCAGCTGTGGAAGCTGGGGGTCCAGGGACTGTGGGGTAATTGTTGGGTGTGAGCATGTGTGTGTCCAGATTTGTATGTGTCAGGGAGTACGTATGTGAGTGTAAGTCGAGTTCCCAGCATTCAGGAATATGCAAAGCAAAGAAAGGAGATTGCATGAGGGTGGTGTGAGTTCCAGGAACTGGGGTGGGAGGTAACTGTTAGGGTGAGGTTATAAGGGTGAGCATAACCCAGCCTGAGGCATGTGAAAGGGTTGGGTGGGCTCCTGGAGTGTGAGCATGTGGGGAGTGCTGGGAGGTGCCCTGCATGCCTTTTTTGGGCATGAGAGTGCAGAGACACAAGTGCAAGGAGATGCCATGCAGTCCAGCATGTTGGAGTCCTAGGAAGTCTTGAGTGTGAGTGTGCAAGGGGCACACTTCCATCTTGGTATATAAGGGCCAGCATGCTCATGACTTAGGGAGGGGCCATAGAGGAGAGGGCCCACCCTAAGGGAGATGCTGCCCAGTAGGCAGGCATTGTGTGTATGAGGCTTGAGAAGAATCATTCTGGAATTCGCAGGAGTCTAGGAAGCCATATTTTCCCTTAGATCTTGTTTGTGTTCTCAGGGATGCTGTTGCATCTCTTAAAAAGCTTAGGGGTGTTGAAATCTTTGGGACAGCGGTCCTGAAGTTCTACCTTCAACCCCTCTTTCAGGCGCCAAGGGAGACGTCCTCGGTCCTGCAGCTCAGGCCCTTCCTGGTCTTTCTCTTGCTGTGCATGAGGACCGGGGGAACCCAGCCATGATGGTTGGCACCTGTGTGGGCTGCTTCTGGCACAGGCTGCTGTTGGTTCTTTCTGTCCCAGGGATGGTGGGACAGCAACTGGGCTGTGCCGGGCCTGTGCTCCAGGGCTGTGCCCCACAGGCTCCTCATGTCTGGCCTGCTGTTCTTCCAG
Seq C2 exon
ATGGGATTCTTCAAGCGAGCGCGGTACCCCGAAGCCACCGTACCCCAGTACCATGCGGTGAAGATCCCGCGGGAAGACCGGCAGCAGTTCAAGGAGGAGAAGACGGGTACCATCCTGAGGAACAACTGGGGCAGCCCCCGGCGGGAGGGCCCAGATGCCCACCCTATCTTGGCTGGGGATGGGCACCCAGAGCTGGGCTCTGATGGGCACACAGTGCCAGGCACAGCTTAGCCTTCTCCACCTGGCCTGGCCCATAGGCCCCTTGCACCCCTTCCCCAGATATGGCTCCTGGGGATGACGAGGGTAGAATGGGTTACTGGTGTCCCATCCAGATTTGGCAGGATCTCTTTCCTCTGGGGCACAGATCTCTGTCCCCCATGAGGACCACCCCCCTGCCAAACTTCCCCTTATGATGCTGTGAGATGAAAGGGGGTAAATCAGGGATGGGTCGTGGGGGAGGGTGAGAAGGGCAGCGGTGTCCTGATTCAAAAGTGGGGAGAAGGGACCCTAGCCCCTCCCTTTCCCACTCAGTCTGTATAATGGGACCCCAAGGACCTGTCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012897:ENSBTAT00000017145:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.594
Domain overlap (PFAM):
C1:
PF0035715=Integrin_alpha=PU(0.1=0.0)
A:
NA
C2:
PF0035715=Integrin_alpha=PD(86.7=16.9)
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:
TGGGTCATCCTGTTGGCTGTA
R:
ATATCTGGGGAAGGGGTGCAA
Band lengths:
352-2339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]