GgaINT0048916 @ galGal4
Intron Retention
Gene
ENSGALG00000011120 | SLC4A10
Description
solute carrier family 4, sodium bicarbonate transporter, member 10 [Source:HGNC Symbol;Acc:HGNC:13811]
Coordinates
chr7:20712465-20714095:-
Coord C1 exon
chr7:20713995-20714095
Coord A exon
chr7:20712640-20713994
Coord C2 exon
chr7:20712465-20712639
Length
1355 bp
Sequences
Splice sites
5' ss Seq
AAAGTTAGT
5' ss Score
4.24
3' ss Seq
ATTTTCTCTTTTATTTTTAGATT
3' ss Score
11.33
Exon sequences
Seq C1 exon
GAGAAGCGTAAGATCCCAGGAGTACCAAATGGGACTGCAGCTCATGGGGAACCAGAACATCCTGGAGGACACTCTGGACCAGAATTGCAACGCACTGGAAA
Seq A exon
GTTAGTGAAAACATATTCAGAATCATATGTGTCCCAGATGTTGCCCTTTCAAAAGAACAATAATGGTCTGGTTCTCTTGTAAATGACCAGTTTGCACGTCATCTTTTTCAGGCCTTATTCCTGATTAGCATACCACAAAGCTGAAAAAGACAGTACTTCTGAATCTCTTCAGAAAGGAAGAGAGCAAAAAAAAAAAAAAAAAAAAGAGTATTCACATTATATTTACAGAAAGCGCCTTTATCTATTATTTATACAGGTGACATCACTGTTGAACTCAGTTAACATTATTTTCTATTTCTGTACGAAGAAAAAGTTAGAAATAGGCTTGTCACATATTACAAATTCTTACAAATATTTTGTTATTGAGGTTACTGTGTTGTGAAGCTCTAGCAATTTTTTTTTTTTGCCTCAGTAAGCCATGATATGCCCTGGTACCTGAGGCTGTGGTTACTGTGGTGGCTGCAGCATACACGCATCTGAAGGAAGAATTTGTGACAAATAAAACAATAAAAACAATACATACATTCTTAATATATTGTGAAGTAAGCCCATCAGCAGTTAGTACAGTATCATCATACTGATAGCTGTGTGCTAGGCAATTCTGTTACTTTCCTGCCTCTTGGTAATTAACTATCATTCCTACCTGCAGTGTTGCTGCTCGTAGTGCAGCAGAGGTGGGTAATGGCCAGCCAGTCTATAAATAATACTTTTGCTGGTGAACCTAGTGTTGGCTGCTTGAAGGATCATTTCAGTGTTTAGGAGGAGTTAGCACTGTCTCCTCCTCTACCTTAGAGCTGTCCAATACATCAGATGCATGTGAGAAAAAGAGCACTGTGGGACATTGGCTTTAACTTAATTATGTATTGAAAAGGAACTCCTGATTCTAATTTTTTTATTATATTTAGCATAATGTAAATGACAAGATATGAGTTCTTGTCCAGGAAAAGTTCTAGCCTAGATTTCATCCTCTTATCATGTATGTATTTAGGAAGAGTTTTGCAAAGAATATGATGTACTTCATGTGTGGAAATGTAGGCAAACATGCAGTATAATAGCTCTCTGATTAAACAAATACAAAGAATTATTTCACAAAAGTACTGGGGTTTTATACATGGGAGCTAACAACTGTTCAGAAGTTTTGGGTCTGGGTGATGAAACATTTAAATTCTTTGGTTTTCAATTTCCTGATTAAAGCCATCAGGATAGAGTTCCCAGGATCTTCCTTCTGGGGAAGGATGAATTATATGGATATGTTTCATTTGATTAAGGAAGGGTAGCTTCTCTGCAGCTGCTAAGGAATACTATGGAAGAAAGTTCAGTAAGTCTTTTTCACAAATTTTCTCTTTTATTTTTAG
Seq C2 exon
ATTTTTTGGTGGATTGATTTTAGATATAAAAAGAAAGGCTCCATTCTTCTGGAGTGACTTCAGGGATGCTCTCAGTCTACAGTGTCTGGCATCATTTTTGTTTCTCTACTGTGCTTGCATGTCTCCTGTCATCACGTTTGGTGGTCTACTGGGAGAAGCAACTGAAGGTCGTATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011120:ENSGALT00000018117:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.735 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(1.2=17.6)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=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:
AGAAGCGTAAGATCCCAGGAGT
R:
CGACCTTCAGTTGCTTCTCCC
Band lengths:
271-1626
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]