BtaINT0136117 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004884 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr11:10376398-10377592:+
Coord C1 exon
chr11:10376398-10376531
Coord A exon
chr11:10376532-10377320
Coord C2 exon
chr11:10377321-10377592
Length
789 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
TGCTTCCCTCTGCCTTCCAGAGG
3' ss Score
8.6
Exon sequences
Seq C1 exon
GGAGTGATGGAGAGTTTCCTGGGCACTGCCATGGCTGGCTCCTTGTTCTGCCTCTTCTCGGGACAGCCTCTCATCATACTCAGCAGCACGGGACCCATCCTCATCTTTGAGAAGCTCCTCTTCGACTTCAGCAA
Seq A exon
GTAGGTGCCCTTCCCGCCTCCCCGCCTCCTGCAGATTGCTCCTCACTTGCAGCAGTTATGCGGGGGTTAGGGTAGGGGGGAGCCCTGAGCCCCATTGCCTCTGGAAGGCAGAGGGAAGCAAAGACCTCCAGCCCAGGGCTCTCACCCCGTCTCCCCCCGTGGTTATAATCCATGGGGTGGGGGGGTTGACGGAGTGAGAAGGTACCAAAACTGTTACCTGTAGGAGGCACTGTGAGGCGGTCCATCCTGACTCCCCTCCGCTACCTGCCTTAAAGCCATTTTAGTGCATATTAGCAAAGCGCATAGGGAGAAATCCAGGCAAGACAAGAAGAGAGCATTCACACCACTAGCAGAGTGAGCAATTATGACTTGAAAGCCAATACAGTGTATAAAATGTTTCAGGCTGGAGGTTGGAAGGCTATACCCTGACTCAGGCAGCTCTGGGTTCAGTTGCTGCATCTACAACCTGAGCCCATTTGTAAGCCCATTTCTGCTCCAGCTTGGTCATTCTGAAATTCCCTGTTTTCATTCACTCTGGCTGTTTGTTACCAAATGTTTCAGAACGGAAGTGTGTGAGCACCTTTTTGCCACCCCATGAGATCCTTGCCCCAGAATTCTCACAGACCAGACAACCCCACCCAGGACCTGCCCACAATCCCAGTCCTCTTGTAGTTCCTAGGGGGGTATCTGTGCCACAGGAGGAGCAGATGAGCCCCCCAGGGTGGGTCTGGGGAGCTGAGCACAGCCAAGAGCCTGGGCTGGAGGTCTTTGCTTCCCTCTGCCTTCCAG
Seq C2 exon
AGGCAATGGCCTGGACTACATGGAGTTCCGCCTCTGGATTGGCCTGCACTCGGCCGTCCAGTGCCTTATCCTGGTGGCCACAGATGCCAGCTTTGTCATCAAGTATATCACCCGCTTCACTGAGGAGGGTTTCTCCACCCTCATCAGCTTCATCTTCATCTATGATGCCATCAAGAAGATGATTGGTACCTTCAAGTACTACCCCATCAACATGAACTTTAAGCCTGACTCCATCACCACCTACAAATGCGAATGCGTCGCCCCTGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004884:ENSBTAT00000006425:14
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=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(8.2=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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCCTTGTTCTGCCTCTTC
R:
CGACGCATTCGCATTTGTAGG
Band lengths:
358-1147
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development