BtaINT0136066 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011226 | SLC4A2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr4:114445669-114446079:+
Coord C1 exon
chr4:114445669-114445834
Coord A exon
chr4:114445835-114445964
Coord C2 exon
chr4:114445965-114446079
Length
130 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCAGCCTCCTGCCTCCCCAGCGT
3' ss Score
7.19
Exon sequences
Seq C1 exon
CCACCCCAGTGACGAGAAGGACTTCTCCTTCCCCCGTAACATCTCGGCCGGCTCCCTGGGCTCCCTGCTGGGGCATCACCATGGCCAGGGCGCCGAGAGCGACCCCCATGTCACCGAGCCCCTCATTGGAGGCGTCCCTGAGACCCGGCTGGAGGTGGAGCGAGAG
Seq A exon
GTGAGGGGGAGAAGGCAGCCCCGCCGGGGTGAGGTCCAGCCACCCCAGAGGCTGCATGACACGAGCGAGCGGGGTGGGGGCGGGCAGGGGCAGGGCTGCCCAGCTGAGCCCCAGCCTCCTGCCTCCCCAG
Seq C2 exon
CGTGAGCCGCCCCCTCCGGCTCCTCCGGCCGGCATCACTCGCTCCAAGTCCAAACACGAGCTGAAGCTGCTGGAGAAGATCCCTGAGAACGCCGAGGCCACAGTGGTCCTCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011226:ENSBTAT00000014910:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.462
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(20.4=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(14.1=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:
CCCCAGTGACGAGAAGGACTT
R:
AGGGATCTTCTCCAGCAGCTT
Band lengths:
247-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]