BtaINT0136119 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004884 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr11:10381962-10383072:+
Coord C1 exon
chr11:10381962-10382020
Coord A exon
chr11:10382021-10382871
Coord C2 exon
chr11:10382872-10383072
Length
851 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CTCCTGTCTTGGTCTCCAAGTAC
3' ss Score
3.65
Exon sequences
Seq C1 exon
CGAATACAACCCTGTTCAATGCTTCAGCCACGCTGCCACCAAATACCAACACTTCTCTG
Seq A exon
GTAAGTCCTTTCCTCTTATTTCAGACATTTAAGGGCTTTTGTCTGTCGGAGAACTGTGGGTATCACATTGCAAAGGCTTGTGAACATAGGGTGGCCTGATTCATTGGGGACCTTCGTTATATCAAACTACCACACGTCTCTTAATACAAGCATAGATAATGGCTAGTGGCAAGCATCTGTGTCGTTCATTATGTGGGTTCCTGAATATTTGCACATTAACTTTTCAAAATATAAATTTTTAAATAAATTACTCTCCTTTTATTATACTTAGAGACATGTATATGAATGTATGTACACGTACATACTTAGGAACACATATATATGAATATGTATAGGAATGTATATTATATACACATATGTAATTGTTTTGTGTGCCCTGGATTTTAAGCATCTGGGACACCAAAGGTCAAGTGACTGAAGTGACTAACCTCGCAGAGGTCTGACAAGGGTGGGGTGTGAGCCCCAGTATGTGAAAGGGCGTTCGAAGAGGAAGGAAAGGGAGGATACATGTGAGACACTCCAGGAGGGTGGTGTGGACAGGACCCACGGTTGACTGACTGGGATGGGAGCCAGACCTGCATTTTTCCTCCTAACACAGCAGTACCTCCTAGAACACAATGAAGAAGCATGTGTCAGCTTCTGACCTTCCCAGGGAGCTTCCTGCTTGTCGTTCCTTGAAATAGCCTGTCCCCAGAAGCATAACTGTTGCTGGGCACCATCATGGGGCAGGAGAGCTGGGCCCCCCGCCAGCATGGGAGGGCTGTGTGGGCTGCCTGGAAGCTGCAGGTGGGGGGACACAGCTGACCTACCAGGAAGGGCCTGACTCTTTCTCTCCTGTCTTGGTCTCCAAG
Seq C2 exon
TACAACCCCCTTAACCTCACAGCGCTGGACTGGTCCCTGCTGAGCAAAAAGGAGTGTTTGAACTATGGTGGGCGCCTACTTGGGGACTCCTGCCAGTTCATCCCAGACCTGGCCCTCATGTCCTTCATCCTTTTCTTCGGGACGTACTCCATGACCCTGACCCTGAAGAAGTTCAAATTCAGCCGCTATTTCCCCACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004884:ENSBTAT00000006425:16
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(3.5=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(12.3=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:
CAACCCTGTTCAATGCTTCAGC
R:
CTTCGTGGGGAAATAGCGGC
Band lengths:
254-1105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development