BtaINT0136087 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014975 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:108278296-108278964:+
Coord C1 exon
chr2:108278296-108278479
Coord A exon
chr2:108278480-108278864
Coord C2 exon
chr2:108278865-108278964
Length
385 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
TTCCAGTTCTGCGTCCTCAGAAG
3' ss Score
5.09
Exon sequences
Seq C1 exon
CCATCCCAATGATGACAAGGACAGTGGCTTCTTTCCCCGAAATGCGTCCAGCTCCAGTGTGAACTCGGTCCTAGGAAATCACCACCCAACCCCCAGCCACGGCCCTGACGGTGCAGTGCCCACCATGGCCGATGACCTGGGGGAGCCAGCCCCACTCTGGCCTCACGACCCTGAGGCCAAGGAG
Seq A exon
GTCAGTTGCTTTGCTCTGACCTGGGCTGGGAAACAGCAAGGGTTTCATTGAGTGGATCAGGATGGTTGGATGCTTGGTGCCAAGCTAGGCATGGAGAAACAGGAGGTTTAAGTGGGATCATGGGGCAGGGCCAGGGGAGCCACTTAAATAAAGCTGCGGTGGTGGTGGGACTTGGAGGAGGGGTCCAGATCCTGGGCTGGTCTCCTCCTGATGTGGGGCACATCACCAGGAGCCCCCACCTTGGCTGGGTTGGGGGTGGTGCAGGGAGAAAGCAAGATCCAGATCCAGGGGTTGGAGGCAGAGCCCAGGCCTGGAGCGAGGGATGGGAGGGCCTGCCACGGCCTCCGGTCTGGGTCCCAGCCCTATTCCAGTTCTGCGTCCTCAG
Seq C2 exon
AAGCCCCTGCACATGCCCGGGGGAGATGGTCACCGGGGGAAAAGCCTGAAGCTGCTGGAGAAGATCCCTGAAGATGCTGAGGCTACTGTTGTGCTCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014975:ENSBTAT00000019936:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.871 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(22.6=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAATGATGACAAGGACAGTG
R:
CGAGCACAACAGTAGCCTCAG
Band lengths:
278-663
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]