BtaINT0136085 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014975 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:108277289-108278013:+
Coord C1 exon
chr2:108277289-108277469
Coord A exon
chr2:108277470-108277877
Coord C2 exon
chr2:108277878-108278013
Length
408 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGG
5' ss Score
5.88
3' ss Seq
TTCCCTGTCTGTTCTCCCAGGGG
3' ss Score
10.46
Exon sequences
Seq C1 exon
GTGTTTGTGGAGCTGAACGAGCTGATGCTGGATCGCAGCCAGGAGCCCCACTGGCGGGAGACGGCCCGCTGGATCAAGTTTGAGGAGGATGTGGAGGAAGAGACAGAGCGCTGGGGGAAGCCCCACGTGGCCTCGCTCTCCTTCCGAAGCCTGCTGGAACTCAGGAGGACCATAGCCCATG
Seq A exon
GTAGGGGCGCTGCAGAGCTCGGCCGGCGCCAGGCTGCCCAGCTCCTGGGACGATGCCCTGGGGCCAGGCGAGGCCTGGCTGCCCCTCGGGAATGTGGGGTCCGCACAGCCGTATTCTGAGGGCCGGGGCTGTGCCTGGGGACCTGGTTCTATACCTGGTGCACAGTAGGTGTCTGTCCAGGCAGAAAGCCAACAGATGACCCCTTTCTGGGCAAGGAGGGGCCGTGCCCTCACCCCGTGCTCTCTTTTCCCATCCCATGTGGAACTGTGTATCTGCCTGGGCACATGGGATGCTATGCTCACCCAGCATACTTGCCTGCCCTTGGGGGAGCAAGGCCACTGAGGGGGGGGGCGGTGTGTGTGTCTATATCTAATGGGAATGAGATCCCTTCCCTGTCTGTTCTCCCAG
Seq C2 exon
GGGCTGCCCTTCTCGACCTGGAGCAGACCACTCTGCCAGGCATCGCACACCTCGTGGTAGAGACTATGATTGTGTCTGACCAGATCCGGCCGGAGGACAGAGCCAGTGTCCTTCGCACTCTGCTGCTGAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014975:ENSBTAT00000019936:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.130
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(11.5=50.8)
A:
NA
C2:
PF075658=Band_3_cyto=FE(16.7=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:
GTGTTTGTGGAGCTGAACGAG
R:
TGTGTTTCAGCAGCAGAGTGC
Band lengths:
316-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]