BtaINT0136055 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011226 | SLC4A2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr4:114448796-114449564:+
Coord C1 exon
chr4:114448796-114448962
Coord A exon
chr4:114448963-114449310
Coord C2 exon
chr4:114449311-114449564
Length
348 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
GCATGCCTGTCCCTGTTCAGGCT
3' ss Score
8.11
Exon sequences
Seq C1 exon
AAGCTGAGCGTGCCCAGTGGCTTCTCAGTGACAGCCCCAGAGAAGCGCGGCTGGGTCATCAACCCCCTGGGGGAGAAGAGCACCTTCCCCGTGTGGATGATGGTTGCCAGCCTGCTGCCCGCCATCTTGGTCTTCATCCTTATCTTCATGGAGACACAGATCACCAC
Seq A exon
GTGAGTGGTCCTGGCAGAGGGGTCGCTGTGCAGACAGGGACGACCTGCTGCATGAATGGGCTGGAACCCCCAGCAGGCTGGCTGCTGAAGTTTGTAAACAACAGAAAATCCCACTGAAATATGCCTGCATGGGCACAGGACATGCTAGGTGCTGTCCAGGGGGTGGGTGGTGGCCAATGGGACAGGACTCAACTCCGTGATGGAACCCTCGTCCTGAAGAGGATGGGCAGGGACCTCCAGGTTCCAGAAACAGGAGGAGGTGACTGCCTGGGTGCTCTGGAAAGACCCAGTTGTCTGCCGAGCTGGGCTGGGGGGCCCAGGGCTCAGGGCATGCCTGTCCCTGTTCAG
Seq C2 exon
GCTGATCATCTCCAAGAAGGAGCGCATGCTTCAGAAGGGTTCTGGCTTCCACCTGGACCTGCTGCTCATCGTGGCCATGGGCGGCATCTGTGCCCTCTTCGGCTTGCCATGGTTGGCTGCCGCCACTGTCCGCTCCGTCACGCATGCCAACGCGCTCACGGTCATGAGCAAGGCAGTGGCACCCGGGGACAAGCCCAAGATCCAGGAGGTCAAGGAGCAGCGGGTGACAGGGCTGCTGGTGGCCCTGCTCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011226:ENSBTAT00000014910:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(11.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(17.1=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:
TCAGTGACAGCCCCAGAGAAG
R:
GACCTCCTGGATCTTGGGCTT
Band lengths:
354-702
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]