BtaINT0136070 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014975 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:108280203-108280831:+
Coord C1 exon
chr2:108280203-108280428
Coord A exon
chr2:108280429-108280612
Coord C2 exon
chr2:108280613-108280831
Length
184 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGA
5' ss Score
4.3
3' ss Seq
CAGCCCCTGTGTTCCCCCAGAAC
3' ss Score
9.1
Exon sequences
Seq C1 exon
CTGTTCCACGAGGCTGCCTATCAGGCAGACGACCGGCAGGACCTCCTGAGCGCCATCAGTGAGTTCCTGGATGGCAGCATCGTGATCCCCCCATCCGAGGTGGAGGGCCGAGACCTGCTGCGCTCCGTGGCTGCCTTCCAGCGCGAGCTTCTCAGAAAGCGCCGGGAGCGTGAGCAGACGAAACCCGAGCTGACCACCCAGGGCGGCTACGTGGCCCCCGGGAAAG
Seq A exon
GTCTGACCCTATGGGGCCCGGGGCCCCCTGCACCCATGTCTCCCTGGCCCCATCTGACTCCTGAGTCCCGCACTCTGGCTTCCAATCCCTGACCCATGTCTCTGCCCTGGGACCTGGGCTGGGAAGGATGCGGCCCAGGGCCTGCTCCCAGCACAAGGTTCCAGCAGCCCCTGTGTTCCCCCAG
Seq C2 exon
AACTGTCAATGGAACTGGGGGGCTCTGAGGCCACCCCTGATGATGACCCCCTGCTGCGGACTGGCTCGGTGTTTGGGGGGCTTGTCCGGGACGTGAAGCGCCGGTACCCGCACTACCCCAGCGACCTGCGGGACGCCCTGCACTCCCAGTGCGTGGCCGCCGTGCTTTTCATCTACTTCGCTGCCCTCAGCCCCGCCATCACCTTCGGGGGGCTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014975:ENSBTAT00000019936:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.211 A=NA C2=0.149
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.3=47.4)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(28.5=77.0)
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:
GTGAGCAGACGAAACCCGAG
R:
TGAGGGCAGCGAAGTAGATGA
Band lengths:
246-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]