GgaINT0101746 @ galGal4
Intron Retention
Gene
ENSGALG00000011405 | SLC4A7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:HGNC Symbol;Acc:HGNC:11033]
Coordinates
chr2:39043901-39045613:-
Coord C1 exon
chr2:39045456-39045613
Coord A exon
chr2:39043989-39045455
Coord C2 exon
chr2:39043901-39043988
Length
1467 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAT
5' ss Score
7.76
3' ss Seq
CTTGGTGTCTTTCTCCACAGGTT
3' ss Score
12.49
Exon sequences
Seq C1 exon
GTTGACATGAACTTCATGAGGAAAATTCCTTCCGGAGCAGAAGCATCAAATGTGTTAGTGGGAGAAGTAGATTTTTTAGAAAGACCTATTATTGCTTTTGTGAGGCTCTCTCCTGCTGTGCTTCTCTCAGGCCTCACAGAGGTTCCGGTACCTACACG
Seq A exon
GTAAATAAATGCTGGAAAGTCTGGCTTTATTTTTTGTATAAGTAAACCTGTAGTGTAAGTCAATAATGTTTCACATCTCAAGTAGAATACGTACAAAATCTCAGACTGTCAGCTTTGAAATCTAGACTTACGTTTGATGTTGTAACAGGTTGTTTGGCCATACCTCAGCCCTAGAGGAGATCACTTCATTTTTCTGTACGCATCGATGCATTGTTGTATACAACAGTATGTTTGACAAAAGTCTGTAAATATGTGGGTTTTATTTAGTTATTTATTTTTAAAATTTCCAAAGTGTGTGTTTGTCTTCATTTTTTCAGCATATATACTGTAGCAACCGGCAAAAGTAATCTTGACAGTGCTTTCTTCAACATTGCAGAATTTCTATATGGTAGTTACCTAAGAGCTCACAAGATTTCTTGAGAAATTCAAACAGGTTATTGTGCTAATGGAGCTAAAATTTTCCTGTCTTAAATTCTTCAGAATGCTACAGACTGGCATATATGGAATAGCATATTTTATTCTGAAGATACAATCTCAGTTTTGGTTATTGTAGTCAATAAACATAGCATTGAGCTTTTTGTGCCTTAAAATGAAAGTGCCTTTTTTTTTTTTTTTTTTGACATGGGAACATTGTTTTCGTGGAATATAGTAAAAACGTTTACTGAAGTTTACTCTTAGTTTTATATCCTTCTGAACTTCTAAGTACTAGCACTGTTTAAAAAAAAAAAAATTTTGCTAGTGATGTTCTGACTATTGTGAGTGGAAATGGAGCTTATCTAGTAACATGTGCAGTATCTCACCCCCCAGACTGGGCTTCCCTCCTAAAATGTCACTTTCACCTTTTTAGATAAAAGTAGTCCAAAATGTAGAATCCCTTCCCTTCCGCTGTCACAGGACCCAGCATATGACTATGAGTATTTCTGATGTGTTGCTTGCAATACATCCGTGAAGCCATTTTGTGGTGCACCTTGTCAGAAATTGAGGGGTTTGACTCCCATATAGGGGTGATCATCACGAAACTGAGAACAGGTACTAAAGCTCTGAAGCCCTGTATGTGGGCTCTTTGCCAGTGAGAATGGCAGAAGAAATACTCATTGCACTGTAGCCTGTGGATTTTTACTCTTTTTTTGTGTGTGTGTATACATACGTATATTCAGCTTCATACAATAAATATGTATATTCAGCCTCTTACAATGAATAAATATATTTTATTATATGTGTATTTATTTATTGTAAGAAGTTGAAAAATTATGTTTAATTAAGATTTCAAAGTAATTTTTTGTTCTAGATGTGAGTTCCAGTATTGACTTTGAAGTATTTTCTTAGTTTTGTGGCAGTCTGTGAGATCTGAAGTGGTAAAGAGGACATTTCTATTTCACCAGCAGATTTTCTTGAAACATTAGTTTCAAAGAAGCCTCTGAATATATTCATGTGAGTCATCTCAGTTCTTGGTGTCTTTCTCCACAG
Seq C2 exon
GTTTCTGTTTTTATTGCTGGGACCAGCAGGAAAAGCTCCGCAGTATCATGAAATTGGAAGATCAATAGCAACACTTATGACAGATGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011405:ENSGALT00000018603:8
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=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(19.4=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(10.8=100)
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:
AATTCCTTCCGGAGCAGAAGC
R:
TCATCTGTCATAAGTGTTGCTATTGA
Band lengths:
222-1689
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]