GgaINT1025697 @ galGal4
Intron Retention
Gene
ENSGALG00000011224 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr7:21507257-21508012:-
Coord C1 exon
chr7:21507791-21508012
Coord A exon
chr7:21507406-21507790
Coord C2 exon
chr7:21507257-21507405
Length
385 bp
Sequences
Splice sites
5' ss Seq
TAGGTAATG
5' ss Score
7.57
3' ss Seq
CATATTGTTCTCTTTCCCAGGAG
3' ss Score
9.51
Exon sequences
Seq C1 exon
AGCTGTGTGAAGTGAAGGCTGAGGAAGAAGAGGAGGAAGCTGAGGATGACCCTTTGAAGAGGACTGGAATATTTTTTGGAGGTCTGGTTCGGGACATAAAGCGCAGGTACCCCAAATACCTCAGTGACATCAGAGACGCCTTGCACAGCCAGTGTCTCGCAGCCGTTCTCTTCATCTACTTTGCTGCTCTCTCTCCTGCCATCACCTTCGGGGGACTCCTAG
Seq A exon
GTAATGGGCCTGCTTTCTGGTCTGCTCTTTGCACGCTGGAACACTGGCTGTGTCTGTGGGATGCTATGCAGGGGTGGGCTTTGGTGTCGCTTACTTAGGGAGAGTGGAGGTGCTGCACTGTGGTCACTGCCTTGTCCTCTCCCTGCTGCTTGGCCTCTCCAGCCTCAGCCCACTGCTCCTTTCCAGGCAGAGCCCAGGGCTGGGGACGGGCACCGGGAGCCATCTCCCCAGAGCTCCCTGGACTCCATCTGCACTCCCTGCCCAGTGCAGGGGATGTCTGACTGGTGGGAAAGACCTGCCTCCTCCGTGTGGAGCTGTGTCTACAGACTGCAGTGATAGTGCCTGTGTCTGGGTTGAAACACTCACATATTGTTCTCTTTCCCAG
Seq C2 exon
GAGAGAAAACTGAGGGTCTCATGGGGGTCTCCGAGCTGATAATCTCCACCTCGGTTTTAGGGATCCTCTTCTCCCTGCTTGGAGCCCAGCCGCTCCTGGTCATTGGCTTCTCAGGGCCTCTGCTGGTGTTTGAAGAAGCTTTTTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011224:ENSGALT00000018302:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.173 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(28.8=76.0)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(24.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGTGTGAAGTGAAGGCTG
R:
TCTTCAAACACCAGCAGAGGC
Band lengths:
358-743
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]