BtaINT0136073 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014975 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:108281669-108282542:+
Coord C1 exon
chr2:108281669-108281863
Coord A exon
chr2:108281864-108282323
Coord C2 exon
chr2:108282324-108282542
Length
460 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGCA
5' ss Score
1.02
3' ss Seq
CAACCTTGTAATCCACCCAGGTG
3' ss Score
6.21
Exon sequences
Seq C1 exon
TTCTGCCGGGCCCAGGACTTAGAGTATCTCACGGGCCGTGTGTGGGTTGGCCTCTGGCTGGTGGTCTTCGTCCTTGCCCTAGTGGCCGCAGAAGGCAGCTTCCTGGTCCGCTACATCTCACCTTTCACCCAGGAGATCTTCGCCTTCCTCATCTCGCTCATTTTCATCTATGAGACCTTCCACAAGCTCTACAAG
Seq A exon
GTGGCAGCCCCCAGAGGTCTTGGGGGTGGGTTTACGTGGGGGCTGGGCAGCGCCCTGGGTAGGGTGTGGAGCACTGGAGGGGGAGGGGACAAGGAGGAAGGGGGCTGTGGGCCCGGGGCGGTGAGGATGCTCTCAGCCAGATCTGAGCTGAAATGCAGGAGTCAAAGCCAGAGGTTTAAAGTCTGGGATTCGCCTGCACCGGTATGGGAAGAAAGGGGAAGAAAGCACCCTGTCAGTGCTTCTGGGCTGGGGGTCCTTGGGTCATTGTGTGTAGGGGAGCGGCATGGATGTGTGTGAGATGGAGCTGGATGTCCTGTGTTACATTGCCTGGTCAGGGGTGGGAGGGAGGGGCCCGGGGAGGGGCCCGCCCTCGCCCTTGCCCTCACAGGTGTGTACTGATGCTGTGAAGTCAGGCTCACCTGCCCAGGTGAGCACTGGGGCAACCTTGTAATCCACCCAG
Seq C2 exon
GTGTTCACGGAGCACCCACTGCTGCCATTCTACCCCCCTGAGGGAGCCCTGGAGGCGGAGCTGGACCTGAATGCGAGTGCCCTGCCCCCCACCGAGGGGCCGCCGGGCCCCAGGAACCAGCCTAACACCGCTCTGCTGTCCCTCATCCTCATGCTGGGGACCTTCCTCATTGCCTTCTTCCTGCGAAAGTTCAGAAACAGCCGCTTCCTGGGCGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014975:ENSBTAT00000019936:15
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=0.123
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(32.0=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(13.5=37.0),PF0095516=HCO3_cotransp=PU(19.2=78.1)
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:
TGGTCTTCGTCCTTGCCCTAG
R:
CAGGAAGCGGCTGTTTCTGAA
Band lengths:
344-804
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]