GgaINT0000186 @ galGal3
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
NA
Coordinates
chr22_random:29284-29695:-
Coord C1 exon
chr22_random:29608-29695
Coord A exon
chr22_random:29439-29607
Coord C2 exon
chr22_random:29284-29438
Length
169 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
ACAGCTCTCTTGACCCTCAGCTC
3' ss Score
6.05
Exon sequences
Seq C1 exon
ATTCCTCTTTATTCTCCTGGGCCCTGCAGGAAAAGCCAAATCCTACAATGAGATCGGCAGAGCCATCGCGACCCTCATGGTGGATGAT
Seq A exon
GTGAGTAAATGCCAAACCCGGCCCTGTTGGAAGCCCCTCCTGCTCAGGGCTGGGAGAAAAACACTGTTTGCATCCTACTGCTCAAATGAACAAACTTTAAACACCCGTAAATGACGTGAGAGGGACATATGGGCACTGTCCCCACGCTGACAGCTCTCTTGACCCTCAG
Seq C2 exon
CTCTTCAGCGATGTTGCTTACAAAGCCCGAGATAGAGAAGATCTGATTGCTGGCATAGATGAATTTCTGGATGAAGTCATTGTCCTGCCACCTGGCGAGTGGGACCCCAACATTAGAATCGAGCCACCCAAAAAAGTGCCCTCAGCTGAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:11
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=0.154
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(10.8=100)
A:
NA
C2:
PF075658=Band_3_cyto=PD(13.4=69.2)
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:
TTCCTCTTTATTCTCCTGGGCC
R:
CTCTTCTCAGCTGAGGGCACT
Band lengths:
242-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]