GgaINT0048924 @ galGal4
Intron Retention
Gene
ENSGALG00000011120 | SLC4A10
Description
solute carrier family 4, sodium bicarbonate transporter, member 10 [Source:HGNC Symbol;Acc:HGNC:13811]
Coordinates
chr7:20691909-20693492:-
Coord C1 exon
chr7:20693241-20693492
Coord A exon
chr7:20691978-20693240
Coord C2 exon
chr7:20691909-20691977
Length
1263 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TGCTTGTTTTGTTTGTGCAGTTT
3' ss Score
7.42
Exon sequences
Seq C1 exon
AAAGGGTGTGGATACCATCTCGACTTACTCATGGTGGCAGTCATGCTTGGAGTGTGTTCCATTATGGGATTGCCATGGTTTGTTGCAGCCACTGTCCTCTCTATTTCTCATGTGAACAGCTTAAAACTGGAATCAGAGTGTTCTGCTCCAGGGGAACAGCCAAAATTTCTTGGAATCCGGGAGCAGAGAGTCACAGGGCTCATGATTTTTGTACTTATGGGCTCATCTGTCTTTTTGACAAGTATCCTGAAG
Seq A exon
GTAATTTGGGGAAAATAAGGAAATGCTAAATAATAACGTATTGCACAGGACATTTCACTGTTATTACTATATTACTTAATGACGTTACTATCATGTTTGACAATGATAATCTAAAGTGGAATTCCATTTTGCATAATAAAACAGCTTGGGACAAGTAACATTTTTTGTAGCAGAAGCCTTGTAATAAAAATCTGGTCTTACTGAAGTCAAAATGAATTCTACCATTGGCCTGTAACGTATGAAGATTTATCTTTTTTCGGTACTTTGGGCTCAAGGCAAATATTATCATGAGCCAGCCTGGCTGAGCTATATCATTAAGTAAATGTCTTCAAATAATTTTAAAGCATGTTGTGATTACTAGCTAATTTAAAAAAAATATTTCCCACAGTTGCAGGAGAGTTTTTTGTGGTTAATTACTTGGCAATGAACAGAAAAATTATCTCACACTGCTCACCAGTGTCCTGAAACTGGATATCTAGTCATATACTTATATAATATCTATATACATAATAATATTTTTAAGAATTGTCAGGCCACAGAGAAATCAGTAAGTACTGCCGCTGGCTTCAGTAAGATCAGAATTTAGACTTGCGCATTGTCACAGTGAAGGGAGTAAGCCTTTAGAGCTTGTACAGTGCGGTAACTTCTTACATACATCATAATAACTATAATAACTTCACTTCAGTGAAAGCAAGTTTTATGCATTAAGTATATAAAGTTTTATGCATTAAGTATATAAAACAGATGCTGATTTATGGAAATATTTTGTAACCTACACACTTTATACAGAGTGTCTATATATTTTAAGTTCTCTTTTCCCTGCCATTCCATGAAAGTCATCCACCATTTTTAAATGCTTACAGTGCAGAAATTTTCCATTGGCTGCATGAAATGCTTTGTGTGCATCATGAACAGGCTTTTGAAGATTAGAATTTTACTCCCGAACAGTCCTTTAAGTAAAAGATTTAAGTATGTATCTAACACATACATTTTTCTTGTAGTTCTGTTAATTTTATTAATAGTGAATAAAGTATGTTGGCCTCAGATCTGGCCATGGAAGGAAAATAAAAGTGCAGAGACAGATTCATCTTTTGCTTTTTACCATGGGTATCATTATTAATTTGTAATTGCGGGAATCTGAGTTTACAACCTGTCTGATTAATGCAGGCATATGGCACATTGAATTTCAACTGTCTAGCATTTAATATTTTTAAATTCTACTTAATATGCTCTTCCCTTTCTCTGCTTGTTTTGTTTGTGCAG
Seq C2 exon
TTTATCCCTATGCCAGTACTTTACGGAGTATTCCTTTACATGGGTGCTTCATCTCTAAAGGGAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011120:ENSGALT00000018117:20
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:
PF0095516=HCO3_cotransp=FE(16.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.3=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:
AGGGTGTGGATACCATCTCGA
R:
TGAATTCCCTTTAGAGATGAAGCACC
Band lengths:
318-1581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]