GgaINT1025729 @ galGal4
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr22:2841317-2841854:-
Coord C1 exon
chr22:2841664-2841854
Coord A exon
chr22:2841479-2841663
Coord C2 exon
chr22:2841317-2841478
Length
185 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
CTCCCATCCCTCCCTCTCAAATT
3' ss Score
1.79
Exon sequences
Seq C1 exon
CCTTCATCCCACCGCAGTTCTGGGACCGCTGCAAGCTCTTCCTCATGCCAGCCAAGCACCAGCCCGACTACGTCTTCCTGCGGCACGTTCCGCTGCGCCGCATCCACCTCTTCACGTTGGTGCAGATCATCTGCCTGGCCGTGCTCTGGATCCTCAAATCCACCGTGGCTGCCATCATCTTCCCCGTCATG
Seq A exon
GTAAGGCTCAGCACTGCTGTGTTCCTCAGGTGGCTTTTGCTCGTGTTTTATTGCAAAAAAAAACCCACTGACTTCCCATTGCACATCGCCCTTATTGCAGCCTTGCTATAAGGCTTGGGGTTGAAGCAAAGCTCGGCAAGTGGTGACCCCCAGGTCCTCCTCACTCTCCCATCCCTCCCTCTCAA
Seq C2 exon
ATTTTAGCCCTGATTCTGGTGCGGCGGCTGCTGGACTTTGTCTTCTCCCAGCATGACCTGGCCTGGATCGACAACATCATCCCCGAGAAGGAGAAGAAGAAGGAAGATGACAAGAAGAAGAAGAAAAAGGGCAACAAAGGGGACAGCAGCAGTGATGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:24
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=0.407
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=WD(100=64.1)
A:
NA
C2:
NO
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:
CTCTTCCTCATGCCAGCCAAG
R:
TCTCGGGGATGATGTTGTCGA
Band lengths:
244-429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]