BtaINT0136056 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011226 | SLC4A2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr4:114449311-114449845:+
Coord C1 exon
chr4:114449311-114449564
Coord A exon
chr4:114449565-114449675
Coord C2 exon
chr4:114449676-114449845
Length
111 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
TCCTCCCCCTCGCCCCGCAGGCC
3' ss Score
12.6
Exon sequences
Seq C1 exon
GCTGATCATCTCCAAGAAGGAGCGCATGCTTCAGAAGGGTTCTGGCTTCCACCTGGACCTGCTGCTCATCGTGGCCATGGGCGGCATCTGTGCCCTCTTCGGCTTGCCATGGTTGGCTGCCGCCACTGTCCGCTCCGTCACGCATGCCAACGCGCTCACGGTCATGAGCAAGGCAGTGGCACCCGGGGACAAGCCCAAGATCCAGGAGGTCAAGGAGCAGCGGGTGACAGGGCTGCTGGTGGCCCTGCTCGTGG
Seq A exon
GTATGTTCACCTCTCCCCCCAGCCTTGCCGGAGGGGTCTCATGGCCGTGGCCGCTGCGGGTGGAGGGATGGAGCGCCCCGGGGCCAGCTGTTCCTCCCCCTCGCCCCGCAG
Seq C2 exon
GCCTCTCCTTGGTCATCGGGGATCTGCTCCGGCAGATCCCCCTGGCTGTGCTCTTCGGGATTTTCCTGTACATGGGCGTGACCTCCCTGAATGGGATCCAGTTCTATGAGCGGCTGCACCTGCTGCTCATGCCGCCCAAACACCACCCGGACGTCACCTACGTCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011226:ENSBTAT00000014910:19
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(17.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCATGCTTCAGAAGGGTTCT
R:
GATCCCCGATGACCAAGGAGA
Band lengths:
256-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]