BtaINT0136128 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004884 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr11:10398045-10399551:+
Coord C1 exon
chr11:10398045-10398218
Coord A exon
chr11:10398219-10399398
Coord C2 exon
chr11:10399399-10399551
Length
1180 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TCTCTGAACTCTCACCACAGATC
3' ss Score
9.14
Exon sequences
Seq C1 exon
TTCTGGGATCGCTGCAAACTCTTCCTGATGCCCGCCAAGCACCAGCCAGACCATGCCTTCCTGCGGCACGTGCCGCTGCGCCGGATCCACCTCTTCACCCTGGTGCAGATACTCTGCTTGGCTGTGCTCTGGATCCTCAAGTCCACAATGGCCGCCATCATCTTCCCAGTCATG
Seq A exon
GTAAGATGGGCACAGGCTTCTCCCTCCTTGTTCTGCAGGTTCAGCCAGGGAAGGTGTCCACAGGGAGACCCACCCTAGTCTCCTCCACAATGGCCTCTCTTGGGGTCACAAAGGCAGGCACAGATCAAGATTCGGGTTGTGACTCCAGGCCAGATGGAGCTAGGGGGTTGATGGTGGAATGGAGAGGCTTAGAGGGGGCACAGGTTGTGTGTGGTGGGTGGATACTGTAGTGACAATCCACACGCCTGCCTCCACCCAGCTCAGGTCAGGGCGGCTCAGTGAGAATGCAAAAGCCACCCAAACTCCCCTTCTCTGTGGTGTGATGGAGCTGGGCAAATTCAACAAGGAGACTGAGTGCCCCACTGCCAAAATTCAAACCAAGTGCAGAAGTAGATCTATGCTAAGTATATACCTTTCAATAACATTGAATTTGAAAAATGAATGGGGGGATGGGATAGGGAGAGCTAGAATCAGAGATTTAGAACTTCAAATTTTAATGTCATTAACATGTCATTGTTTGGAGAGGCTGGGGAAAGTATGTGAGAATTCTTTGGCTATTCTTGAAATTGTGGGTAAGTTTTAAATTATCCCAAAATTAAAAGTGAAAAGAAGAAAAGCCCACAACATGTATCTGTCCCCGTGGGGAGCAGTGGGCTCTGCCCCTGCCGGGGCCTGGGAAATAGAGGGGGTTACTATGGGCTAATGCTTTGGGGAAGCCCTGGGTGGGCCCCAAAGCCTGCAGGGCTGGATTAGGGGCCAAATTGAGGACACAGAGTAGATCGGAAATATCCTGAGGGCTCTGAGTCAGTGCTTCTTGACCCTGGCTGCTCATAAGAGTCACTTGGGAACTTTATAAAAGTACATGTGGGCCTCACCCACAGATTGATTAAGACAGAACCTCAGAAAAACCCAGGCATTGGTGTTTGTAGTAAGTTTACAAGTAAGCATAAATCTGCATCCAAGGTTGAAAACCACAACTCCAGGGAATGTGAAATGGATCCTCTCCAACAGTGGGGAGTTCAGGGGTGATGCTGCGTGCTGAATCACCCCTGAACTGGAGAAGTGTTGAGAAGGTTCCAAAGATACCAGCAAAAGTCCCTGAACTGACTGAGGGAGGGGAAAAAAAAATGCTGGAGTTTGGGGCCTTGAACCCATGGTTTTCTCTGAACTCTCACCACAG
Seq C2 exon
ATCCTGGGTCTCATCATTGTTCGAAGGCTTCTGGACCTCATCTTTTCCCAGCATGACCTGGCCTGGATTGACAACATCCTCCCAGAGAAGGAGAAAAAGGAGGCAGATAAGAAGAAGAGAAGGAAAGGGGCCCATGAAGACAGTGACGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004884:ENSBTAT00000006425:24
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=0.373
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(6.3=58.6)
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:
TTCTGGGATCGCTGCAAACTC
R:
TCCTCGTCACTGTCTTCATGG
Band lengths:
326-1506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development