BtaINT0077834 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019498 | ITGA3
Description
Integrin alpha-3 Integrin alpha-3 heavy chain Integrin alpha-3 light chain [Source:UniProtKB/Swiss-Prot;Acc:F1MMS9]
Coordinates
chr19:37198628-37201364:-
Coord C1 exon
chr19:37201239-37201364
Coord A exon
chr19:37200013-37201238
Coord C2 exon
chr19:37198628-37200012
Length
1226 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
CTCTTCTCCTCCTCCTCCAGTGT
3' ss Score
10.02
Exon sequences
Seq C1 exon
TTTTCCGTGGACATTGACTCTGACTTGGTGGAGGAGCTGCCGGCTGAGATTGAGCTGTGGCTGGTGCTTGTGGCTGTGAGTGCCGGGCTGCTGCTGCTGGGGCTGATCATCCTCTTGCTGTGGAAG
Seq A exon
GTTAGAACACCCAGCCCGCCACTGGGACTCCCACTCTGGGACCGCCTGCCAGCAGACCCTCACCAACTCTCCCTTCATCTCATTCCTCACTTCCATCTCACCCCACCCATCACCCAAGTCCTCCCCACTCTCTCTCCAGCTCCCAGTCCTGGGTTAATGGGGGGACTTGCAAGCCGGAAAGGGGAACCAGGAGCTCCGGCTCCTGCCACATCACCAAGCTGGGGCTGGGAACCAGGCATCCAGGCTCCCCAGCCCTAAGCCCGAGTTCATGAGTGCTGCTGGCAAGAACCCCCCAGCTCCCCCTGATGGCCCCTCCCCACCTCCTCCCCTCCGCAGTGCGGCTTCTTCAAGCGAGCCCGCACTCGCGCCCTGTATGAAGCTAAGAGGCAGAAGGCGGAGATGAAGAGCCAGCCGTCAGAGACGGAGAGGCTGACGGAAGACTACTGAGGGGGGCAGCCCCCACCCCGGCCCAGCTGGGTAACGCGGCCTCCGGGCCCCTTTCCCCAAGCCCCCAGCTGGCTGGGGCCTCTGACTCTCTCCTTTCTGTTCCTCTTCCTTTATGGGCCCTCTCTGCACTTCACTCTGTCCCCAGCACCACCTCCAAAGACTAGATCACTCTGTCAGTCTCCCCTCCCCATCCTGGGAGAGCCTGGGGTGTCTGCTCTCACCAGCCTCCCCACTGAGTCCTTCAGGGACTTGGGACCTCAAGAGGGAGCCGTAAACCCTCCCTGTGCCCCTTATGCTTTCTGGGGATTGGAAAGGGTCAAGGCTAGGCCCCATGTTTGTAGGCCACAAGACAGACTTCAGAGTGATTCCATACTTCCATCCCCACCTCCAGAGAAGGAGGGGACTAGTAGAGCCCTTCTTCCTGGGAACCAGCACTTTTCCTCTTGGGACCCTCTTGGGCTGACAAACGGACCCCTCCCGACCTTGTGGTCACTGTAGATCCCCACCCCCCCTAGCCATTCCATCTGCAGTCTAGGCGACTGCCCCTCTGACTCCATCTGCCTCTCCCTCTCCTCTCTGCCTTCCTCAGCTCCTCCTTCCTCTGGGGTCTGGGGTGGGGAACCTTGTCCTCTTTGTCTCAGGGCAGGGAGATGGCATTGTGTTTGGGTAGGGGTCCTGGCTCTGAGGACCTCTTGGTGAGGAAGGAAGGGACTGGGCATATCTTCCCGCTGGTGTAAATGCTGGCTTCTGAGGGCCTCCCTCTTCTCCTCCTCCTCCAG
Seq C2 exon
TGTGACTTCTTTAAGCGGACCCACTATTACCGGATCATGCCCAAGTACCACGCGGTGAGGATCCGGGAGGAGGAGCGCTACCCACCTCCAGGGAGCACCCTGCCCACCAAGAAGCACTGGGTGACCAGCTGGCAGACTCGGGGCCAGTACTACTGACATCCTCCCTGATCACACCCTGCTCCCCCAGCGTCCCCTTCTACTATTTATCATAAGTTATGCCCCGCCAGACCACAGGGGACGCTGCCTTTGGCTGGCACCAGCAGGCTCGGGCACACACACCTTTCAAGTGCACGCACGTGCTATGTGGCCATGGCCTCCTCCCTGAGGGAAGGCTGGGGCCGTGGCCCGTGCATTGCTGAGCACTGCAGCCCTGTGCCCTGGACACACATGAGCGCGTGGGGGTCCAACTGCTGTGGACTGTGCTTGCGCACCCAAATAGTGCACGGCCATGCGTGTCCCAGCCTCTAAGTGCCAAAACCAAGCCAGAGGCCTTCTGCCAGAGCCAGGAGGAAGAGGCCCCCAATGCGGGGACCCTTCCTGTATTCACACTGGACCCATCATGAGCCATAGGCACTGGATTGACCCTGACCTCGAGATGAAAACTACCTACAAGGAGCAGCCCACAGACCCCCAGTGCAACTCTCAGCACCCCTGGCAGAGAGTGGGGAGCCTGCCTGAGGTCGCTCAAGGAGGTGTTCATAGGACCTGGCGTGCTCAGACCAAGAGCGGAATGAACTAGAAAAAAGGTCCCCAGGGGGGCTTTCTTTCACGAATTGCTGGGAAAACCTCTGAACTCAGCCATGGCCATTCCGCGCACTAGTAGGAAATGCAGCCTGAGGAAACAGAGATGGACATGCTGCTAGGCAGCCAGGACATGCTGTGCTGGGACCACTCTGGGAGCATAATGGAATTCTCAACAGAGTGGGGACCGGTCCTGGGCCAAGGAGATGATGGACGGATACAGAGCAGATACCACTTCTCACCCACATCACCATCCTGACCTTGAAGGCCTGGAGGGATCTCCACGCGATCACAGAGGGAGCGACACCTGAATGTACAACAGGAAGGAAGCCCCATCATGCCCCGTCGGCCAGACCCCACTCTGCCCTCACTGACCATGGGTTGGAGACCTAGAAGTGGAGCTCTTGGCTCTCTTTGGCTTTTGGAGCCAGTTTAGCTTTGCCTTCTCACCTGTGGCCCATTCTAGAAGTTGAGCTATTTCCAGAAAAACCTCTCCTGACCCCGGGCTGTTGGCAGGTCCCCTCCTCACCCCCTCCCCCCTTTCATGGTACTGTAGCAGGGGAGCTCCCTCCCCCTCCTTGTGCCTTCTTTGTATATAGGCTTCTCACAGCAACCAGTAAACAGCCCCCTGTTTGTACACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019498:ENSBTAT00000054196:6
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:
PF066977=DUF1191=FE(48.8=100),PF151761=LRR19-TM=PU(50.0=83.3)
A:
NA
C2:
PF151761=LRR19-TM=PD(52.6=78.8)
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:
CTGGTGCTTGTGGCTGTGAG
R:
GCACTTGAAAGGTGTGTGTGC
Band lengths:
356-1582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]