BtaINT0136072 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014975 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:108281351-108281863:+
Coord C1 exon
chr2:108281351-108281499
Coord A exon
chr2:108281500-108281668
Coord C2 exon
chr2:108281669-108281863
Length
169 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
CTCTCTCTGCTGATCTCTAGTTC
3' ss Score
7
Exon sequences
Seq C1 exon
GGGAGAAGACGGAGGGGCTGATGGGTGTGTCTGAGCTGATCGTGTCCACGGCTGTGCTTGGCGTCCTCTTTTCTCTGCTGGGGGCCCAGCCGCTGCTCGTGGTCGGCTTCTCTGGGCCACTGCTCGTCTTCGAAGAAGCCTTCTTCAAG
Seq A exon
GTGACTGTCACTCAGTCCCTCCCCAGGGGCCACCTGCTCTACCTCGCACCCCTGGCCCAGGTGATGGGCCTCCGGGGTGGCTCCCTCCACTCCCTCGGGGTTCACCTGTCCCGCCTGTCCCGTGGGGCCCTGACAGCCCGGGTAAGTGCCTCTCTCTGCTGATCTCTAG
Seq C2 exon
TTCTGCCGGGCCCAGGACTTAGAGTATCTCACGGGCCGTGTGTGGGTTGGCCTCTGGCTGGTGGTCTTCGTCCTTGCCCTAGTGGCCGCAGAAGGCAGCTTCCTGGTCCGCTACATCTCACCTTTCACCCAGGAGATCTTCGCCTTCCTCATCTCGCTCATTTTCATCTATGAGACCTTCCACAAGCTCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014975:ENSBTAT00000019936:14
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(24.5=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(32.0=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:
GGTGTGTCTGAGCTGATCGTG
R:
AAGGTGAGATGTAGCGGACCA
Band lengths:
250-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]