GgaINT0101748 @ galGal4
Intron Retention
Gene
ENSGALG00000011405 | SLC4A7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:HGNC Symbol;Acc:HGNC:11033]
Coordinates
chr2:39040921-39042404:-
Coord C1 exon
chr2:39042258-39042404
Coord A exon
chr2:39041025-39042257
Coord C2 exon
chr2:39040921-39041024
Length
1233 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
GTTGGGTTTTGTTGTTGTAGGAG
3' ss Score
6.49
Exon sequences
Seq C1 exon
GTTTTCCATGATGTTGCCTATAAAGCTAAAGATAGAAATGATTTATTATCAGGAATTGATGAATTTTTAGACCAAGTGACAGTACTACCTCCAGGAGAATGGGATCCATCTATACGAATTGAACCACCAAAAAGTGTTCCTTCCCAG
Seq A exon
GTAAATAAATAAATAAAATGGAAAAAAAATCTAGCAGGGAGCCCCCATGCATTTTCAAATGCAAGTTAATTGTTCATTGAGTATTAACTTCAGTAAAGTATCAAGAAGGCTGACAACAATTTGTAAGAAAAAAGTAGATCATGAAAAAAGTATTGGATCAGTTTCCTGCTTTGTTTTTAAGAAAATTGTATTTAATCTATTTCCTTTTGAAATAGTGAAATGAGATTCTGAGGTTAAAGAAGTGTTGTAACATTGTGCCTGTGTTCATAGGATACATTTTATTATTAACCTAACAATGATCAGTAAGAATGTTGTAATACTTACACAAACTTTGTGTGTGCACCACTCATTGAAAATTAATGTTAATGTATATCGGCTAACAAATAACGTTTACTGAATGCTTATGCTACAGATAAAGGTAGGTCAAGAGTGATCCCTTGTTCCACAAGGCTTAGAATTGAGAGCAATGGAGAGGTGCTACCTTAGGGAGCTGTGGCTTCTTCCCTTCTTTATTCTCTACAACTGCTGCAGAGATCATAAGTAGAGCAGAAGACTGACGCTCTTGATCCAGAAGGCTGATGCTGGTGTTGAACTGCAATCTGAGGAGTCAGTGGAATGGAGAAGGAGCAGCAGTACAGTTTATTTCATGAGTAGTGCGAGCCTACCACTTGATGTGTTTCCAAAAAAACCCACAAAAACACCCCAAAACAAACAAAGGGTGGGGTATTTTTTAAATTGTTTTTTTTGAATGCAGGATTGGCTAAGAAATATATGAGGAGCTTGTTGAACGGAGGAATGACTTCTCATTTATACTTCACTAAATACTGTATTTGTTATAAACCGAGGTCAGTTTCTGATACTAGCTGGAGGCTACTGCTCTGGAAATGACTGAGGGAAAAACAACAACTTTGATTTCTAGACCACATTGCTGAGCCTTTACTGTGTTTTAAAAAGGCCAACATTGTTTCATCATATCTCAGGGGAGGTAATTGTTGTAGAAAGGGAAGATTTATACCATTGTGCAAGCCACTAATAAGATCTTTTTGGAAGTGTTGTACAGTTCTGGTCATCTGTATTTAATAAATAGTGGGTTTGGCAAATGAAGAACTGATGATCAGCTGGGAATGTGAAAAGGTTTGGAAGATGTGGAGTTTCTCAACACTCTATTTAAACTGTTTTTAGTTCAAAAGCAATCATCTTAAAATGTGTTTGTGTTGGGTTTTGTTGTTGTAG
Seq C2 exon
GAGAAAAGGAAGATACCTAAGTTTCCAAATGGATCTACTCCTACAGGAGAGACTCTCAAAGAAGAAGGTCATCATGCTGGACCTGAACTTGAGAGAACTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011405:ENSGALT00000018603:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.163 A=NA C2=0.766
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.4=73.5)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(1.2=17.1)
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:
TTTCCATGATGTTGCCTATAAAGCT
R:
CCAGTTCTCTCAAGTTCAGGTCC
Band lengths:
246-1479
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]