BtaINT0136182 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017950 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chr5:28470126-28472229:-
Coord C1 exon
chr5:28472138-28472229
Coord A exon
chr5:28470226-28472137
Coord C2 exon
chr5:28470126-28470225
Length
1912 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
GTCCTAAGCATTGATTTCAGATG
3' ss Score
2.89
Exon sequences
Seq C1 exon
GAAGCTGAGAAAATGTTAGAAATCGGGGGAGACAAGTTCCCCTTAGAGAGCAGGAAGTTACTAAGTAGTCCTGGAAATCACAACAGTTTCAG
Seq A exon
GTAAAGCTCCCAAAACACGGAGGAGTTGACTTCTTTTGGTGGTTCTGTAAACATTCTGGCTTTGTGGTGGGGATTGGGGCATGAATGCAGCTGCTGGTATAAAAAGCTGAACATTCAACCTCTCAGTTGCAACCTATGAAAACACACTTCCTTTTGGTTTCCTGAGGGCCTGCCATGCGTCAGGCACTGTGCCAGTTATGGGAGTCATGGGAGGACCCTGCTTCCAAAGTTCGTGCTCTCCTCAAACCAGTGCTCTTTCTGCCTGTCTCTGCCACCTTCCAAGGGTGAATAGGATACAGGCTATGCTTGTCATCCTAGTGGGTGTGAAGTTCCCGTGCTTAGGCAAATCTTTGGGGGATGGGCAGGGACATCCCCTTCCAGCTTGGCTCATGGCAGCTGCAGTCCCAGAAGCCAAGGGGAAACTGAACTGGGATTCCTCCAATTCCTTACTTCTGCCAGAGATCTTAGCCTTTTGGTCTGTTCCACCTATTTGTGGTCTGCTCACCACAAATCACAGGATGCTAAATCGGTCCGTTTGTGCATTCATTCCTGGCATTTTGTTTCCACTTTGAGAGAGGAATACACAAGCTGAAAGAAGCCCAGAGGTGGAGAGGGAATAGAAAAGGGAGAGAGGGGATCTGGGCCATCTAGATGCTGGATGATTTACTGCCGACTTTTTGAATTGATTGTGGTTTATACTGAGGGAGAAAAGAGGAAAAGCTTTTCTTTGGCCTTTTATTCATTTATTTATGACAACTGAAAGTAATGTATATTTAAGGTATGCAACATTATATGTAATATGTAAATATATATATATATATATACAGTAAAAGAATCACTTTAATCAAATTGACAGCATATTCATCACTTCCTATACTTACCATTTCTTTTTTGTGGGTGGAGAGAACATCTGAGATCTACTTTCTTAGCAAATTTCAAGTATACAATACATTCTTATTACTAACTATAGTCCCCATGCTCTATATTGTCTTCAGAACTTACTCATCTTTTAATGGGAAGTTTGTACCCTTTGATCAATATCTCCCCTTGTCCCCCCACCCCTCAGCCTCTGGTAACCAGCATTCTACTCTGTTACTATGAGTATTTAACTTAAAAAAAAACGACATGACCACAAAGAAATGGAATCGTTGGTCCTTAATAAACTTTCTGTAAGTTGCCATTCAAGGAGCCAGAGACTTAGCGTTCTCTGTGGTGAAGTGGGAGCCATGCTCCTTTTCTAGCAGGTGCTTTCTCCTCTCTTGGCCTTTTAGAAGGAAACGGTCTGGCATGAGGAAAACTTCAGAGTATTGGGGGGATGGGGGTTTCTAGGAGACCAAGGACAGGATTCAAGGTCTGGATTTTCCACTTATGCATGTTTGACCTTGGACGGTCTCTTAACCTCTCTTAACCTGACAAGCTTTGTTTTCTACATGTTCAGAGTGAGGATGTTAATCCTCTCTGATGCTGTAATCGTTAAGATACCACATTGTAATAGACCTTTGTAAACTACAAATGGAAAAGATCTGGCCATGTAAATGAGAAAAGGAACAAAGAGCGCTTAGCCCCATGCCTGGCATGCAGCGAGCACTCAGTCAGTTGTAGCTCCTGGTGCTGCCACTATGGGCATCACAGTGCTGTCACCAGCATCGCCAGAGGGGCCCTTCAGAGGTGAGCAGAAGTGTGCAGGCAGGGCTGGCCCCTTGCCAGCACCCCAGCCCAGCCCTCAGCTCTGACTCACGGGCCACCTTGCCTGTCGAATTCCAACCATCTGGTTCCTAGTGCTGTGAGAGCTATGAGACGAGCCCCCTCAGACTTCATCTTTTCCCTTCCGCTGGGTGGCGGGCATCACAGACTGAGGTATATGTCTTATTTATATATGTCTGACACTGACTGTCCTAAGCATTGATTTCAG
Seq C2 exon
ATGTGATCCCTCTGAGATTAATATATCTGATGAAATGCCTAAAACCACGGTCTGGAAAGCTCTCAGTATGAATTCCGGAAACACAAAGGAAAAGAGGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017950:ENSBTAT00000023868:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.424
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AAGCTGAGAAAATGTTAGAAATCGGG
R:
TACCTCTTTTCCTTTGTGTTTCCGG
Band lengths:
190-2102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]