GgaINT0050309 @ galGal3
Intron Retention
Gene
ENSGALG00000011224 | SLC4A3
Description
NA
Coordinates
chr7:23595023-23595813:-
Coord C1 exon
chr7:23595557-23595813
Coord A exon
chr7:23595172-23595556
Coord C2 exon
chr7:23595023-23595171
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
CCCTCGCTCAAGCCCTGCCCTCCATGCACCTCCAGAGCTGTGTGAAGTGAAGGCTGAGGAAGAAGAGGAGGAAGCTGAGGATGACCCTTTGAAGAGGACTGGAATATTTTTTGGAGGTCTGGTTCGGGACATAAAGCGCAGGTACCCCAAATACCTCAGTGACATCAGAGACGCCTTGCACAGCCAGTGTCTCGCAGCCGTTCTCTTCATCTACTTTGCTGCTCTCTCTCCTGCCATCACCTTCGGGGGACTCCTAG
Seq A exon
GTAATGGGCCTGCTTTCTGGTCTGCTCTTTGCACGCTGGAACACTGGCTGTGTCTGTGGGATGCTATGCAGGGGTGGGCTTTGGTGTCGCTTACTTAGGGAGAGTGGAGGTGCTGCACTGTGGTCACTGCCTTGTCCTCTCCCTGCTGCTTGGCCTCTCCAGCCTCAGCCCACTGCTCCTTTCCAGGCAGAGCCCAGGGCTGGGGACGGGCACCGGGAGCCATCTCCCCAGAGCTCCCTGGACTCCATCTGCACTCCCTGCCCAGTGCAGGGGATGTCTGACTGGTGGGAAAGACCTGCCTCCTCCGTGTGGAGCTGTGTCTACAGACTGCAGTGATAGTGCCTGTGTCTGGGTTGAAACACTCACATATTGTTCTCTTTCCCAG
Seq C2 exon
GAGAGAAAACTGAGGGTCTCATGGGGGTCTCCGAGCTGATAATCTCCACCTCGGTTTTAGGGATCCTCTTCTCCCTGCTTGGAGCCCAGCCGCTCCTGGTCATTGGCTTCTCAGGGCCTCTGCTGGTGTTTGAAGAAGCTTTTTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011224:ENSGALT00000018302:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.264 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(28.8=65.5)
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
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCCAGAGCTGTGTGAAGT
R:
GAGAAGCCAATGACCAGGAGC
Band lengths:
342-727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]