GgaINT0101762 @ galGal4
Intron Retention
Gene
ENSGALG00000011405 | SLC4A7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:HGNC Symbol;Acc:HGNC:11033]
Coordinates
chr2:39023891-39025860:-
Coord C1 exon
chr2:39025760-39025860
Coord A exon
chr2:39023999-39025759
Coord C2 exon
chr2:39023891-39023998
Length
1761 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
AAAGTATGTTTGTTCTTTAGCGT
3' ss Score
6.41
Exon sequences
Seq C1 exon
GAAGCAGAGAGAATGCTTCAGACGGAAGACAACGAAAGTGTACACCTCCAGTATGGAGAAGGAAATGTTTTGAATTTTCCTGTAAAAACTCTAAAATACAG
Seq A exon
GTATAATAAGATGTCCATCTTCTAAGAACTATTTCTATCAAATGCCATAATTTACTTCATATTCAATTGGTCATGTATGAGCTTAATTTTTTCCCCCAAGCTGGTAACTCAGCCTTGATTAGCAAGTTTAAAAGCATATCCCATGGTGCTATGGTGGTGGGTTTTTTTTTTTTTTTTTTTGGTGGAAACATCTTTAATTATAAATTTACGTGACCATCTTGAACAGATCTGATGACTCAATTTCAACCAGCTGTTCTCAAGGTGAAGAAGCTTCCTTGGTCAGTTTTTGTGGAATACTTGTGTGCTACTGTGCATGAAATATTGAGTATTAAGCAACTAATAGCATCAGTTGAGCCATGTGTTTACCAGCCACTTGGATTTTTCAGTAGTAGTCTAAACATGCAGTTCTTTGGTTTATTTAAGTGAATGCTAATTTCTGTGACCTAGAAAAAAAAAATTGTTCTGCAGGCAGTCTTTTTGCTTAAGAAGGTCTTTTTCTGAATGTACGCTGGAGGGCAGCAGGGTTGTCAGCTCTCTTCCAGAAACGGAAGTGCTGCAATTTCACAGCACTGGAAGGTGTTATGCCTCAGTATGTGTCTCTTTTACTAGGGATGTATTCTGGTTAGTTGTCAGGTATTTTACGGGTGTTCAACACACCTGGAAGTTGTGACAAATGAATAGCATGCCAACTTTTTTTTTTTTTGTCTGTCTAATTCTAAAAATTCCTAGATTAAAAATCAGGTGTTGGGTCTACTCTGACTCAGTCATAGAATCACCAAGGTTGGAAAAGACCTCCAAAATCATCTAGTACAACCATCTACCTACCACCAATATTTTTCCACTTAGCCACGTCCTTAAGTATAATGTCTAAATTGGTTTGGGAACAGGCAGGTTTTCAGTTTAGACATATATTCCTGCTCAGTCCTATTGTCTATTCTAAGAGCAGACTCAATCCAACTTCAGCAACTCAAGTGAAGACTATGCAAAGGCAATATTATTATTATTTTTTTTAATTGAGCAATTGATAATTGCTCTCATGGTAGAATTATGAATTCATCAATTGTCTGCACGTGTATTTACTATGTATTTCACTGTATTGCAACTTGTGGGGATTCCCAGTGAAAAATAGGCTTTGAAATGTTTCTGTGGTGCTTTGATGTAGTCTTATACATCTGCAGTAGATCCTGAAGCTTAGGTGTTGTCTGTAGGGATGTTTAAGTCTGCTTTACCTGTAAATGTGTGAAAGACAAAGGTCAAAAATTTTGAAAGCTTAGCACCTGTGATACTGAACTTCAATAGGGGAAAAAAAAGTCAAGGCATTCAGATCTGTGCTACTTTTTAATCTGAACTGAGTTACCAGTTCCAGAATTTTATTAATGTTTACTTTTTGCACTTGGTTATTCACTGGAAATAGCTTAAAATAATTCTGATGTATGAATGCCCTGACTGAACTGTATGATTCATTTTATTATTTATAAATATGCAAAATAATTTTCTGAAGTAAGAGATAATTTAGAAATGAGATACTACTAACAGATTGTGACTACCTGTGTCAAACTGTTGATGATACCATGAGATTAAGGTGGCACTAGTGAATTATTGCACTTTAAAGTTTTTGTTCAGGTACTGTGGTAAGTAATGAATTGAATTGTGGCTGTGTAAATATTGAGAGAAGGCACAACTGATGTGCTTTGAGTGACAGCAAGTATAATGTCTTTGAAGGGCATTAAATACTAACCAGAAAGTATGTTTGTTCTTTAG
Seq C2 exon
CGTTGATCCCTCAGTTGTAAACATATCAGATGAAATGGCCAAAACTGCACAGTGGAAGGCTCTGTCCATGAGTACTGAGAATGCCAAAGTAACCAGAGCTAACCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011405:ENSGALT00000018603:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.206 A=NA C2=0.216
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGAGAGAATGCTTCAGACGG
R:
CTCAGGTTAGCTCTGGTTACTTTGG
Band lengths:
206-1967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]