GgaINT0000201 @ galGal3
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
NA
Coordinates
chr22_random:17335-17786:-
Coord C1 exon
chr22_random:17625-17786
Coord A exon
chr22_random:17365-17624
Coord C2 exon
chr22_random:17335-17364
Length
260 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGC
5' ss Score
5.35
3' ss Seq
CACCTCCGTGTCCTCCCCAGGAA
3' ss Score
10.76
Exon sequences
Seq C1 exon
ATTTTAGCCCTGATTCTGGTGCGGCGGCTGCTGGACTTTGTCTTCTCCCAGCATGACCTGGCCTGGATCGACAACATCATCCCCGAGAAGGAGAAGAAGAAGGAAGATGACAAGAAGAAGAAGAAAAAGGGCAACAAAGGGGACAGCAGCAGTGATGAGGAG
Seq A exon
GTGTGCAGCTGAGGGGGTGGGGAAAGGTTGGGACAGCACAGGCACCGTGGGGAGGGGAAGGGTCCCACTGAAACCCCCAGGGCTGCAGCTGGGGGAGAAGAAGGTCTTTGGGTTTAAAAGGGCAGATGAGTGCAGTTTGGCCCCATCTCGTTCCAAAAGCAGCCTGGCACAATGCTGGGCTCAGCTGGGGCGGAGGGCAGTGGGTTTCTAGGGGGTCTCCTTCCTCAACTGGGAGTGTTTCACCTCCGTGTCCTCCCCAG
Seq C2 exon
GAAAGAGGTCCTCCGCCCGGAGCTTTGCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TTTTAGCCCTGATTCTGGTGCG
R:
CGGGCGGAGGACCTCTTTC
Band lengths:
180-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]