GgaINT1025735 @ galGal4
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr22:2855336-2855788:-
Coord C1 exon
chr22:2855650-2855788
Coord A exon
chr22:2855492-2855649
Coord C2 exon
chr22:2855336-2855491
Length
158 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGA
5' ss Score
6.99
3' ss Seq
CCCTCTTTTGATGCTTTCAGATG
3' ss Score
10.05
Exon sequences
Seq C1 exon
GTGGAGGAAGGCGGGGAAAGGTGGAGCAAACCCCACGTGTCCACGCTGTCTTTGCACAGCCTGTTTGAGCTGCGGACGTGTCTGCAGACAGGAACGGTGCTCCTGGACCTCGATGGTTACTCTTTACCCCAAATCATAG
Seq A exon
GTATGAGTCTGCAGGTAGCAGTGAGTCGCGCCAAGGGAGGTGAAGATGGCATTGAAAGCCATTAAATTGGTCCAATGAGAGCTGATGTCCTTTTAGGTGTCTGGGAAGGGAGATAAGGTTTTGCAGTGGGGTGACTGTCCCTCTTTTGATGCTTTCAG
Seq C2 exon
ATGATGTCATTGAGAAGCAGATAGAGGACGGTCTGCTCAAACCTGAGCTGAGGGAAAAGATCAGCTACGTGCTCCTCAGGAAGCACCGCCACCAGACCAAGAAGCCAATCCATCGGTCCTTGGCCGACATTGGCAAGTCGGTGTCCTCCAACACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.302
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(17.1=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.3=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:
CTTTGCACAGCCTGTTTGAGC
R:
GTGTTGGAGGACACCGACTTG
Band lengths:
244-402
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]