BtaINT0136054 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011226 | SLC4A2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr4:114448544-114448962:+
Coord C1 exon
chr4:114448544-114448633
Coord A exon
chr4:114448634-114448795
Coord C2 exon
chr4:114448796-114448962
Length
162 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
CCCGACCCTCTGCCCTGCAGAAG
3' ss Score
8.06
Exon sequences
Seq C1 exon
GTACGGCGCGTGATTGGGGACTTTGGGGTGCCCATCGCCATCCTCGTCATGGTGCTCGTGGATTACAGTATTGAGGACACCTACACCCAG
Seq A exon
GTACGGCGGTGTGCAGTGGTGAGGGGGTGCGGGGCTCCAGGCCCCAGGACCAGGACTGCTGCTAAGCCAGGCAGACGCCAGGCCTCTCCCACAGCACTCGCTCACCATCCCCCCAGCCCTAGTACAACTCAGGGCACTCCCCCCCGACCCTCTGCCCTGCAG
Seq C2 exon
AAGCTGAGCGTGCCCAGTGGCTTCTCAGTGACAGCCCCAGAGAAGCGCGGCTGGGTCATCAACCCCCTGGGGGAGAAGAGCACCTTCCCCGTGTGGATGATGGTTGCCAGCCTGCTGCCCGCCATCTTGGTCTTCATCCTTATCTTCATGGAGACACAGATCACCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011226:ENSBTAT00000014910:17
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:
PF0095516=HCO3_cotransp=FE(5.8=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.1=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:
GTGATTGGGGACTTTGGGGTG
R:
GTGGTGATCTGTGTCTCCATGA
Band lengths:
248-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]