GgaINT0050295 @ galGal3
Intron Retention
Gene
ENSGALG00000011224 | SLC4A3
Description
NA
Coordinates
chr7:23612661-23613579:-
Coord C1 exon
chr7:23613526-23613579
Coord A exon
chr7:23612818-23613525
Coord C2 exon
chr7:23612661-23612817
Length
708 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ATCTGGCGATTTCTGTGCAGGGC
3' ss Score
6.64
Exon sequences
Seq C1 exon
ATGGCAGCTGGCGAGTCCCCTCCCGTAGGAGATGCCTTCATCGACCTGCAGCAG
Seq A exon
GTGAGGTGGGAATCTGGCACCAGCAGTGCCATGTCTATCCCGGGAACTGCCATCAAGGCCGGATGCACTCCCCACGCAGACAGCAAGCTGAGGTCCAGAGAAGGCTGAAGGCTGCTTCCGTGTGCCATTAAGTGGTGGTGGTGGCAAACAGCAGGAGCCTCTGAGAGCACATGGCATCCATAGCCCTGGTGGGATGGGAGCTGTAGGGGCTTCGTGGTGCCAGGGGGCAGCTGGGGGTGTTGTGGGGAGGCACAGCTCTGCTAAAGCCACCTTGCTCTCTCTTTGTGCCCGGCACAGACAGATTTGTCACAGTTGGGCCTCCTCCTGTTTCCATGGAAACTCGGGAGTCCACAACAGCTCAGCACTGGCATTTTGGCTGTGTTGACAGACAATTGTACCAGCTGCAGCTGCTCAGGAGGCAGAAAGGGTAGGTGTCACCTGGTGATTACCCACCAGCAAAAGGCAGAGGAGCACCTGTAGTCTGAAATGGGAGAAAATCAGGCAGGAAGGCCTGAGGAAGGCATGCCAAGGGAAACGGGAGCCCCAGCATTGCAGAGGAGCTGTGCCCAGAAATGAGTAACTGTTCCCCTACCCCGTGGGATGCTGCCTGCTGCTCCTCAGAAGCCCAGCTCCATCTGCAGGGCACGAGAACCTGGAGGATGGTAGGAGTCTGCAGTGTTTGATTGTTATCTGGCGATTTCTGTGCAG
Seq C2 exon
GGCAGAGATCGTGCAGAAAAAGCCTCTCCTGGTGCCGAGGACGATGAGGACTTGGATAAGACTTTATCAATCGAGAGATTTGGGGACCTGATAAGCAAGTCAGCATCAAGCAATCTGGAGAAGCAGAGACGCTGCTACAGTGAGAGAGATTTTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011224:ENSGALT00000018302:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF039858=Paf1=PU(3.4=7.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGCAGCTGGCGAGTCC
R:
AAATCTCTCTCACTGTAGCAGCG
Band lengths:
206-914
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]