BtaINT0136074 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014975 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:108282324-108283202:+
Coord C1 exon
chr2:108282324-108282542
Coord A exon
chr2:108282543-108283112
Coord C2 exon
chr2:108283113-108283202
Length
570 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
3' ss Seq
CCTGACTGGTCCTTCTCAAGGCT
3' ss Score
4.92
Exon sequences
Seq C1 exon
GTGTTCACGGAGCACCCACTGCTGCCATTCTACCCCCCTGAGGGAGCCCTGGAGGCGGAGCTGGACCTGAATGCGAGTGCCCTGCCCCCCACCGAGGGGCCGCCGGGCCCCAGGAACCAGCCTAACACCGCTCTGCTGTCCCTCATCCTCATGCTGGGGACCTTCCTCATTGCCTTCTTCCTGCGAAAGTTCAGAAACAGCCGCTTCCTGGGCGGCAAG
Seq A exon
GTGCGTGGTTGGCAGGAGTAGGGCCTGTAGAGTCCCCGTGGGCGTCCCTCCATTCCTGCTGGCACCATCGGGCTCCGCTCTGGAGAGGAGAGGCTCCTCCCTTCTCCTGGTCATGGGAGAACACAGCCAAGTCCGTGTAGCCCCCTGCCCTTGTCTGAAGTCCTCAGAGAAGTGTGACCAGGAGACTAATGCCCTCCTGGGTTGGGTGGGCACCTGTGGGGTTTAAAGGGACAGGTCAGGAGACTTCTGGCTCCTGCTCAGGTTTCCCTGGTAGCTCAGCTGGTAAAGAATCCTCCCGCAGTTCAGGAGATCCGAGTTCTATCCCTGGGTTGGGAGGATCCCCTGGAGAAGGGAATGGCAACCCACTCCAGTATTCTTGCCTGGAGAATCCCACGGACAGAGGAGCCTGCTGGGCTATAATCCACGGGGTCGCAAAGAGACATGACGGAGTGAATAATGCTGCTACTACTGCAGGCTCAAGAAGGGTCTGGGTAATAAACCCCCATGTCAGTCTCCTGACTCTCCCCTCATCCCCCTCGGACTCCCTTCCCCTGACTGGTCCTTCTCAAG
Seq C2 exon
GCTCGCCGCATCATCGGGGACTTCGGCATCCCCATCTCCATTCTGGTGATGGTCCTGGTGGATTACTCCATCACAGACACCTACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014975:ENSBTAT00000019936:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.123 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(13.5=37.0),PF0095516=HCO3_cotransp=PU(19.2=78.1)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(9.8=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:
GTTCACGGAGCACCCACTG
R:
TGTGTAGGTGTCTGTGATGGAGT
Band lengths:
304-874
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]