BtaINT0136113 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004884 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr11:10370674-10371745:+
Coord C1 exon
chr11:10370674-10370761
Coord A exon
chr11:10370762-10371590
Coord C2 exon
chr11:10371591-10371745
Length
829 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
TACACCTCTCTCCCTGCCAGCTC
3' ss Score
8.83
Exon sequences
Seq C1 exon
ATTTCTGTTCATACTGCTGGGACCTTCTGGGAGAGCAAAATCCTACAATGAAATTGGCCGTGCCATTGCAACCCTCATGGTGGATGAC
Seq A exon
GTAAGTGCCACAAGAAGCAGGTACTCCTGAATGTCAAGGCTCCTGCATCAAACATTGCGCCTTCATTCATTCACTTATTCAACAGTCACATTTGAGCATCTCCTGTATGCCAGGCCCTGTACAGGTGTGAGGATTATGACAACGAGGGAATAGTTACTGCCCTTTAGGAGCACCAATCAAGTGGGAGACACAGCCTGACAACCCGAGAGTGAACCACATGCCAACTGCCCAGGCAGTCGGGGGGCCCTTCACACACGATGGAGCTTCACAGTTAAGGATGAGCACAAGCTTAGCAGGCAGGCATTCCAGGCAAAGGGAACCAGGGCCACAGCTCAGAGATGGAGAGCTGGATGGGAGTGGTTTGATATAGGCTCAGTGGAAGAGTTTCAAGAGCAGAAGGTGACACCAAAGAGAGGAGCCAGAGCCTGTAGGCAGAGTTGAGAGTTGACCATCTGTGATGGGGAGACTAGGGGAGTTTAGAAACGAGCACAACCAAATCAGATCTGTAAAGTCAGGAAGAACATGCTGGGACAGTGTGGAATGATGCAGCCTGACCCTCCAAAGATGAAGGGCTGGGACGTAAAGCAGTCGAAATGCCTGAGCTCCTTTGATTGGGCTCCACAGGTTTTCTGATGAGCTTGCTCTGTGGGAAACAGAGCAGGAAGGTAACTCAACCCAGGTCAGATGACTGGAATACAGAGACCTGGTTTTCAGGCCCAGAAGGCACCTTTCTTTGAAAGTATATGCAGTGTGCCCCAAGGAGGTGGATGAGATGGGGACGGCAGCAAGGCAGCAGCCCTCTCTCTTCCTACACCTCTCTCCCTGCCAG
Seq C2 exon
CTCTTCAGCGATGTGGCCTACAAGGCCCGGAATCGAGAGGATCTGATCGCGGGGATCGATGAGTTTCTGGACGAGGTCATCGTGCTTCCCCCGGGAGAATGGGACCCGAATATCCGAATTGAGCCACCCAAGAAGGTGCCTTCTGCTGACAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004884:ENSBTAT00000006425:10
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=0.154
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(10.8=100)
A:
NA
C2:
PF075658=Band_3_cyto=PD(13.4=69.2)
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:
TCTGTTCATACTGCTGGGACCT
R:
ACCTTCTTGGGTGGCTCAATT
Band lengths:
222-1051
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development