BtaINT0136052 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011226 | SLC4A2
Description
solute carrier family 4 (anion exchanger), member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr4:114447449-114448423:+
Coord C1 exon
chr4:114447449-114447643
Coord A exon
chr4:114447644-114448168
Coord C2 exon
chr4:114448169-114448423
Length
525 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
GTCCTTTGTTCTCTCCCCAGATC
3' ss Score
12.23
Exon sequences
Seq C1 exon
TTCTGCAGCAGCAACAACCTGGAGTACCTGGTGGGCCGTGTGTGGATCGGCCTCTGGCTGGTGCTGCTGGCCCTGCTCATGGTGGCCCTGGAGGGCAGCTTCTTGGTGCGCTTCGTCTCCCGTTTCACCCAGGAGATCTTTGCCTTCCTCATCTCGCTCATCTTCATCTATGAGACCTTCTACAAGCTGGTGAAG
Seq A exon
GTGGGTAGGGCCCCCATGGGACCTGGCCCACGAGGGAGCTGGGGGCCTCCTTGCCCCTGGGTTCTCCATGCGTGAGGCCTGTTGCCAACACATACACACTGGGACTTCAGATCGGTCTCAAAGACTCACATAGTTTTAATAACAAAGGTGACGGGTGCTTTTGATAAGGTGGCAGAGGATCCAGAAAGTCAGAGGGAAAGGCCCCCAAGTTGACAGACATACTCTCACATCTGTGTCTGGGTCAGGATCAGATGTGTCCCCAGTGTTTGCCACGCTCCCCTGGATGCTCCTCCAGGCCTCTCTGGAGCCTCATTCCAAGCTGCCTTCCCCAATTAGACCAGCCCCGCTCTCTTAACCCCCAGTGGTCTTGCGCTCCCATCTGTTCACCTCAGTCATTTTCTTAATCAAGACAAGCTCCTTGAGGGTAGGCTGACCACCCTGGGCCTGCCTGTCCCAACTCAGCAGACAGCTCAGTCCCAGACCTCTGGTCAGTTAAGCGTATGGAGTCCTTTGTTCTCTCCCCAG
Seq C2 exon
ATCTTCCAGGAGCACCCCCTCCACGGCTGTTCCGTCTCCAACAGCTCCGAGGCAGGCAGTGGCGAAAATGCCACGTGGCCCGGGGCAGGAGCCACACTGGGGCCAAGGAACGAGAGCTCAGCCAGGCCGCCTGGGCAGGGCAGGCCCCGGGGCCAGCCCAACACCGCCCTGCTGTCGCTGGTTCTCATGGCCGGCACCTTCTTCATCGCCTTCTTCCTGCGCAAATTCAAGAACAGCCGGTTCTTCCCCGGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011226:ENSBTAT00000014910:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.224
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(12.9=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(16.9=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:
CTGGAGGGCAGCTTCTTGGT
R:
CCGGCTGTTCTTGAATTTGCG
Band lengths:
348-873
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]