BtaINT0136181 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017950 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chr5:28472138-28473851:-
Coord C1 exon
chr5:28473714-28473851
Coord A exon
chr5:28472230-28473713
Coord C2 exon
chr5:28472138-28472229
Length
1484 bp
Sequences
Splice sites
5' ss Seq
GAGGTCATA
5' ss Score
0.94
3' ss Seq
AATGTCTCTTTTTCTTGCAGGAA
3' ss Score
12.3
Exon sequences
Seq C1 exon
GTTTTGGCCTTGGTCTTTGTCAGGAAAGTCATGGATCTCTGTTTCTCTAAGCGGGAGCTGAGCTGGTTGGATGATCTAATGCCTGAGAGCAAAAAGAAGAAGTTGGATGATGCCAAGAAGAAGGCCAAGGAGGAAGAG
Seq A exon
GTCATAGTTCTTGCACCAACTGCACACTTTGGGGCAGCCTCAAATTACAGAACATAGGAAGGGCCACATGAAAAGTCAGCATGTCTGGAATCCCAAGGGTTATATTTAGGATTGGGGAAGATTACTCTGAAGACATTCTCAGCTGATGTCTATCCTTCATCTTCAAATTTGATAACCAGTTGTTTTTTCCTCTGTTTGTCTACAGCCTACTTACCAGGTTTACACTTAGAATATGAATGTGAATGTGCTTTTATTATCAGATTGAATAGTTTATGTTTTCCCAAAGGTCTAATTTGATAATTATTCAAAATCTATTATTTTCTGAGAGTGTTTGTTACATACTTAATTGCAGATGGTGTTGTGGTTCATAGAGATAATTTGTATAGGACTTTCTGTCCTTTCTCATTTTCCTGAGCACTTGGCATCTGCCATCCACACAATGGACCTTTAGTCAGTGGCTTATAATATGTGCAAAGAATGGATGTATAGCAAAATGAAAATACCAGTCCAAGAATGAGCCTGAAAGAGTTTCCACATCCAGTTAGTGCCTGAAATAGGCACTCTGAAATTCATTTTAGAGAAATTTTTTCCTAAAATCTTGAATTTTGAAAATCTTGTGTAATTTTTTCGAGCTATAACTGACACATAATATGGTGTAAGTTTAAGGTATACAGTACAATGATCCTATATAAGGATAAGCCAAAAATTCAATCCCTGGGTCAGGAAGATCCTCTGGAGAAGGAAGTGGTAACCCACTCCAGTATTTTTACATGGGAAACCCAATGGACAGAGGAGCCCAGTGGGCTACGGACTATGGGGTTGCAAAGAGTCAGACACAAGTTAGTGACTGAACAACAACAACAAGCCTAAAGTAGGATAGTCCAAAAGTCCGCAGGCTAACCAACACATAGGGTATGTTATTATGGGGGTTTCACACTGGTTGCAGAGGAAAGGAAGACTAGAGTGAGTAATGTCCTCCACATCACCAACATTCCTATAGGGCTTGCCAGTGTGGGAATTAGGAGTGATCTCAGAGATAAAATCTCCAGACTGGAGTCTGGTGGCATCACAGAATGCTAAGGGGTAGGGCTGTGATAGGTGAAGGTGGTCAATGAGATGAGTAAGTTATGGGGTTATAGTATCCAGCCTCGTGACTACAGTTAACAATATTGTTGTTCAGTCGCTAAATCGTTTGCAATGCCATCGACTGTAGCCTGTCGGGCTCCTCTTTCCAGTAATTCGGTAGTTGTATCTAAAGGTCTACTCATATTCAGGTTCTTTTTTTTTAAGTACTGTTCAATAGGTACAGATATTGGATTGCTCTCATTTTATGGTGAGTCAAAACTATGAAAGAACATAGCTACACTCTCTTATAATAAATGTGAGAGAAAATTAGGTAGAAATTATAGGGATTGAAAAATGGGCTGGTGTAGACTACTGGTTTCACTTGATCCAAGATAAAATAATGTCTCTTTTTCTTGCAG
Seq C2 exon
GAAGCTGAGAAAATGTTAGAAATCGGGGGAGACAAGTTCCCCTTAGAGAGCAGGAAGTTACTAAGTAGTCCTGGAAATCACAACAGTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017950:ENSBTAT00000023868:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.239 A=NA C2=0.065
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTGGCCTTGGTCTTTGTCA
R:
CTGAAACTGTTGTGATTTCCAGGAC
Band lengths:
230-1714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]