BtaINT0136082 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014975 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:108274665-108275378:+
Coord C1 exon
chr2:108274665-108274780
Coord A exon
chr2:108274781-108275178
Coord C2 exon
chr2:108275179-108275378
Length
398 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
CTGCCGTGTTGCCTCCTCAGCTC
3' ss Score
8.19
Exon sequences
Seq C1 exon
TTCTCCATCGGAAGTGACGAGGATGACAGTCCCAGCCTCTCCGGGAGGGCTGCCTTCACCAAGCCCCTGCCCTCGGTGGGCCCGAGCTCGGACAAGAGCCCCCAGCACTCTGTCAG
Seq A exon
GTACCGGCCCCTGGCCCAGCCCAGCGCAGGTCCCAGGCTCCTTCCTGAACCCCAGAGAAGAAGCTGGGAGGAGACGAGAGAAGCGGGCAGAGGAGGCAGGCAGGGCGTACCCCTTCTCTGCACGAAGGACCAGGAGGGTTGGCAGGGACAGTCTTCCAGGAGAGAGAGGGTGTCTGGGTGGAGAGGAGAATGGGACAAAGAGGACCTGGGGACCTGTGTGATAGGCTTAGGAAGGTGGAGATAAGCTTTTTCTCTGCCCAGGAGAAGCCTGTGTTTAGTCCCCAGGGGGGCCAGTCCAGCCCTGTCCCAAGCTGGGGGAGGGCAGGGGAACCCCCTCACCTGGCCCATCTCCATCGAGCTTCCCTGCCAAGTTCAAGGCTGCCGTGTTGCCTCCTCAG
Seq C2 exon
CTCTCCTAGTCCCCGGGCCCGCGTCTCCCGAATCACCGGAGAGAAGGGCCGACCATGGAGCCCGTCGGCCAGCTATGACCTGAGGGAGCGGCTGTGCCCAGGCAGTGCCCTGGGCGGCCCGGGCAGCCCAGAGCAGCAGGTGCCCACTGACGAGGCAGAGGCCCAGATGCTGGGCTCTGCGGACCTGGACGATATGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014975:ENSBTAT00000019936:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCATCGGAAGTGACGAGGA
R:
TTCATATCGTCCAGGTCCGCA
Band lengths:
312-710
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]