GgaINT1025720 @ galGal4
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr22:2848394-2849276:-
Coord C1 exon
chr22:2849102-2849276
Coord A exon
chr22:2848528-2849101
Coord C2 exon
chr22:2848394-2848527
Length
574 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGAG
5' ss Score
2.57
3' ss Seq
TGGGTTTAATCTATTCCCAGGGT
3' ss Score
6.02
Exon sequences
Seq C1 exon
GTTTTGTGGTGGCCTCTATTTGGATATCAAGAGGAAGCTGCCCTGGTTCCCAAGTGACTTCTATGAAGGCTTTCATATCCAGTCCATCTCTGCCATCTTGTTCATCTACCTGGGCTGCATCACCAACGCCATCACATTCGGGGGTTTGCTTGGCGATGCGACAGACAACTACCAG
Seq A exon
GTGGAGTCCGAGGGCAGGGGTCACTTTGGCTTAGCAAAGGCAAACAGGGGTGAGATGGGATGCAGTGGGTTCTCCTCCCATGTGCCATGCCAGTCTTCGATGCTAAGGGGTGGAAATTCATTCCCAAGTCATAGAAAAGAATCATAGAATTGCTCAGGTTGGAAAAGACCTTAAAGATCATCAAGTCCAACCACAACCTAACCATACCACCCCAATTCTAACAGCCCTGCACTAAATCATGTCCCTGAGCACCACATCCAGATGGTTTTAAACACATCCAGGGATGGTGGCACAACCACCTCCCTGGGCAGCCCATTCCAGTGCTTAACAACCCTTTCTGTAAAGAAGTTCTTCCTGATATCCAATCTAAAGCTCCCCTGGGGAGGCTGTCCTCAAATACTTGGAAGTTGGGAAAACCCATATCAGTAACAATACCAAGAGCAAGGGAACGTGATCCCAAGCCACCCTATACGAGTCCAAACAGGAGTCCTCAATTCCCATCCCTATCTGGGGTATCCCTGAGGATGTAACCTGGCACAGTACCACCATGACCCTGGGTTTAATCTATTCCCAG
Seq C2 exon
GGTGTCATGGAGAGCTTCCTTGGCACAGCAATGGCAGGTTCCATGTTTTGCCTCTTTGCTGGGCAGCCGCTCATCATCCTCAGCAGCACCGGCCCCATCCTCATCTTTGAGAAGCTGCTCTTTGACTTCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:15
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(12.9=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(13.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTGGTGGCCTCTATTTGGA
R:
TGCTGAAGTCAAAGAGCAGCT
Band lengths:
305-879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]