BtaINT0136134 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004884 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr11:10361192-10362408:+
Coord C1 exon
chr11:10361192-10361352
Coord A exon
chr11:10361353-10362252
Coord C2 exon
chr11:10362253-10362408
Length
900 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
CGTGTTTGTTTCCCACTTAGACG
3' ss Score
7.17
Exon sequences
Seq C1 exon
GTGGATAAAGTTTGAAGAAAAGGTAGAGGAAGGAGGTGAACGCTGGAGCAAGCCCCACGTGTCCACGCTGTCCTTGCACAGCCTCTTTGAGCTCCGCACCTGCCTGCAGACGGGAACCGTGCTGCTGGATTTGGATGGTGGCTCCTTACCACAGATCATAG
Seq A exon
GTGAGGCAAAGACTGCTGTGGCCCCCGCAAACCAGGGCAGCATCCCCCTTCCCCTGCCCCATCTCTTGCCCACCCTTGGTCTATGTGGCATGCCCACCTCTGATGCCTGCCTAATTCTGCGGAGACCAGGTTTTGGGTCTGATACTCCCAAAGCAGCGTCACAGTTACTCCTAGTCTCAGATGCCTACAGAGAGGGCAAGATCAGCCTCTGAAATACCATTCAGCAATGGAACGAAACGGAGAGCGCTTCTGAGCCTAGGTGGAGACACCTGTTGCCATGGCAACCTGTTTCTTATCAGGGTAAATGGATCATCACTCATCTTCAGGAAATTAGCTCTCGTTTGATGGAGTGACAAAGGAAGGGAGTAGCTTGCCTCACTGTCCCTAAAACCCCTTGTGAATTTTGTTTTAGCACATTCAGTTTTACCAGATGTATGCTGCCCCAAATACTTTTCTAAAAAGAATTCACACTGGAACTAAAACCATTTGGCATAGTACCTTGTGCTTCTTAGGGTCTTTCATGGTTACAATTTCATTTACTTTCCACAATATTATTGATAGAAAGAGCAGAGAATCCTATACCCATACCTGCATGCACACATGCACCCACAATGCACTCACATGAACCACATCTGCACACATGCACCCACATGCACACACCATGCACCCCCATGCACACACATGCACCAACTCCCACAGACACACACTTTTACATATACGGAGCCTGAAGGTTCATGACTGGTCCACATTTTCAGTTTGTGGCGAAGGTTGGGACTATTTCTACATTCCATGCCTCCTTTAGTTCACTTTTAATCCCACAAATAACAGGTGAAGCTGAAGACCCCCACACCCCTGGTCATTCTGTCCCCCGTGGACAAGGCGTGTTTGTTTCCCACTTAG
Seq C2 exon
ACGATGTCATTGAGAAGCAAATTGAGGATGGCCTCCTTCGTCCAGAGCTCCGCGAGAGGGTCAGCTACGTCCTCTTGAGGAAACACCGCCACCAAACCACAAAGCCCATCCACCGCTCCTTGGCTGACATTGGAAAGGCGGTCTCCTCCACCAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004884:ENSBTAT00000006425:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.302
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(17.5=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.3=100)
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:
AAGTTTGAAGAAAAGGTAGAGGAAGG
R:
TGCTGGTGGAGGAGACCG
Band lengths:
310-1210
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development