BtaINT0136165 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017950 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chr5:28508692-28509950:-
Coord C1 exon
chr5:28509839-28509950
Coord A exon
chr5:28508850-28509838
Coord C2 exon
chr5:28508692-28508849
Length
989 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGGTGCTTTTAAATTTTCAGGTG
3' ss Score
8.99
Exon sequences
Seq C1 exon
TTCGATTTTTCTCCAAATAGGTCAAACTGTGTCTCCTCAGTCCATTCCAACCACAAGTCTTGAAGTAAAGAATGGAGTGAATTGTGAACACAGTCCAGTGGATTTAAGCAAG
Seq A exon
GTGAGCAGAGATGTGGAAGTTGGCTCACAGGCCTAAGCATATCTCTTGTGGAGCCCAGAGTCCTGTTGCTGGAAGCTGGGTAAGCTTTGGCATTTCAATATCCTTTCTCCAGGACCAGAGCCCCTTCTGCAGAAAAGGAGGCCCATCTGCTCATGTCTTCCTCCTTCTCCATCCCAGAGAGGGCTGACTCATCAGTTCCCCCCCACCCCCCGACCCTATTCGACCTGCTGAAACTCACTAGCCACTGATAAACTGCCCTGATGCACACCTCCTGCTGTTTCAAAATGATTTTCTGATACCTGCTCTCTAGGAGCATCTTCTTACCTCCAAGGTTTTATTTTTCAATTATTCTTATTTATTTACCTCCAAGCGTTTTGTGAAAACAATATTTTTGCTACTATCTCACAACTACTTTGTGGTTAAACTCTTCTTGGTGACTGTGACTTTGGTGTCTGAGGCCTCTCCCACAGGATCCGGGTCCCCCTGCAGCTCTTGGCTCAATCCTTGATCTCCCGGCTGCCGGCCTTTCCTTGCTCTGGTCTCTCCCTGACACTGTCTTTCCAAAACACAGATAGTATTATGTCACTTCTCAGCTCATGAGGCTCCCCGAAACCTCAGACAAAGCATTCAGGTATTTTAAAATGGAAACAATTTGACCTGGAGTTTCAAAAAAATTTTCTTTGAGGTTGCATGGCATAATGGAATTCAAATCAGCACCCTAGATTTAAATTCTCTCTCTTAGAAACTCTGTTGTCATGGGCAAGTCAACTTCATCTCTCTGGGTCTTGGTGACTTCATTTTTTTAAATAAAAAATGAGTCTGATTGGCCAATCTTATCCACCATACAGAGTTATTTTAAGGATTAAGTGAAGTAGTATGAGAAAAATATGTTAAATCATAAAATGATGCATGAATGTAATGTTGTGAGGAGGGTGATGGATATGTGAGGTGATGGCTCCCACACTGTCGGGGTGCTTTTAAATTTTCAG
Seq C2 exon
GTGGACCTTCATTTTATGAAGAAGATTCCCACTGGGGCAGAGGCCTCGAATGTCCTGGTTGGAGAGGTGGACTCTCTGGACCGCCCCATTGTCGCCTTTGTGAGGCTGTCTCCAGCTGTCCTTCTCTCAGGCCTGACAGAAGTGCCCATCCCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017950:ENSBTAT00000023868:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.237 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(10.1=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(14.1=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:
TTCGATTTTTCTCCAAATAGGTCAA
R:
CTTGTTGGGATGGGCACTTCT
Band lengths:
270-1259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]