BtaINT0136053 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011226 | SLC4A2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr4:114448169-114448633:+
Coord C1 exon
chr4:114448169-114448423
Coord A exon
chr4:114448424-114448543
Coord C2 exon
chr4:114448544-114448633
Length
120 bp
Sequences
Splice sites
5' ss Seq
CGGGTGTGT
5' ss Score
5.31
3' ss Seq
AGCGCGGTGCTTGCCCACAGGTA
3' ss Score
8.88
Exon sequences
Seq C1 exon
ATCTTCCAGGAGCACCCCCTCCACGGCTGTTCCGTCTCCAACAGCTCCGAGGCAGGCAGTGGCGAAAATGCCACGTGGCCCGGGGCAGGAGCCACACTGGGGCCAAGGAACGAGAGCTCAGCCAGGCCGCCTGGGCAGGGCAGGCCCCGGGGCCAGCCCAACACCGCCCTGCTGTCGCTGGTTCTCATGGCCGGCACCTTCTTCATCGCCTTCTTCCTGCGCAAATTCAAGAACAGCCGGTTCTTCCCCGGCCGG
Seq A exon
GTGTGTGGGCTGGCAGGCCCGAGGGAGGCGTAGAGCCCCCGGGTGGGGGAAGGAAGGGGGCAACTTGCAGTCCGGCCTGGACGGCGGCGTGGGGCCTCTGAGCGCGGTGCTTGCCCACAG
Seq C2 exon
GTACGGCGCGTGATTGGGGACTTTGGGGTGCCCATCGCCATCCTCGTCATGGTGCTCGTGGATTACAGTATTGAGGACACCTACACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011226:ENSBTAT00000014910:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(16.9=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(5.8=100)
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:
CTGTTCCGTCTCCAACAGCTC
R:
CCCCAAAGTCCCCAATCACG
Band lengths:
257-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]