GgaINT0101747 @ galGal3
Intron Retention
Gene
ENSGALG00000011405 | SLC4A7
Description
NA
Coordinates
chr2:38458822-38460552:-
Coord C1 exon
chr2:38460465-38460552
Coord A exon
chr2:38458969-38460464
Coord C2 exon
chr2:38458822-38458968
Length
1496 bp
Sequences
Splice sites
5' ss Seq
GATGTGGGT
5' ss Score
2.02
3' ss Seq
TGGGTGCTTTCTCTTTGTAGGTT
3' ss Score
11.46
Exon sequences
Seq C1 exon
GTTTCTGTTTTTATTGCTGGGACCAGCAGGAAAAGCTCCGCAGTATCATGAAATTGGAAGATCAATAGCAACACTTATGACAGATGAT
Seq A exon
GTGGGTGATGTATTTTAAACATCTGTAGTTAAAGACTCAAATACTGTATTTACCGACTCTTAACAAATGTTTTAGGGAATGGCATGTTAAAGAAAGGGAATCAAACTGGCTAAATGAAGAATAGTAAAAACATTTCTTGTGTAAGTGAATTAGATGGCAGTAAAATGTGCTTTTTCCTCCAGCTTTTCTTGTAGAATTGCTTAATGTATTTCAGAAAAGTTATCCTAGGTTTGATTAACGTATTTTATTTCCTAGTATGAAAATAAACCTATTAAATAGAACTACGTCTGATAAGAGTGCTGTTGTCAAAAATGACAACAAACTGCATGAGTGTTTAAGACAAAATTTAAGATTGCATTCATTTGAGTCATAACATGTATGTTCTATCAAAGCAAGATTGAATAATCAATATGATAATTTTACTAGGAATTTGTAGCCGTATTCTTAGAGCCCTGGTGGACAGTTTTAAAGTGCACAGTGACTCAACTGTGGTCATTCTACTGAGCCAAATTAGGATGTTTTAATTTCCATCTTGTATTGAGCGCCATCTACTGAATTCAGAAATACTAAAGCTAAATATCCTAATAATTCTTCACTCTTGAGAAAATTTAAGTTAGGAAATATAAACCAGACTGGTCATTTTACAGCGGGCAACTAATCCGTAATGTAGTGTTTGTTCAGCCTGCTTTAGTTGCAGACTTTAATTTGTGGGTGGCCTGATTTTCAGGAATATTGTAGATAACTGAAAAAATACTCAGTGGCTAAAAAGACATAGAAAACCTAAACAGGCTTTAATTTATCTAATTTACTATAGGAAATCTTAATGGTTAGGTCTTTGGAGATTAATGGTTCAGGCTTCAGTATGTGCAGATACAATTGAGGATCATCTGCAAATGGTTTTTAATAGCAAACTACTGTTTCTTTTCTCTGTGTAAAATGTAGAGTTTGTGTTGTAGTGGCCTGTGAAACAGTATAACTTAGGTGGTGTTTGGTTGTTTATTTATTTATTTTTGAACAGTAAGAAGATTGACTACTCTTGCCTCTTCAGAGGTTCCTAAGGTTGGATTGAGCTGGAGCAATGAAAAACAAGATTTCTCAAGAAAAAATTGTTTCTGTTTAAAGCTTGTTTATAGTTTTTCTGTTAGTTTTTCTTGTTTGCTTTGTCCTCATTTGGCACGTTATGGCATTGCAGTGACTGTAGGGCAAAATTTTAGGGCAATACGACACTAATTTGATTTACTAAATATTGAAGATAATGATTTTAATAAATTTTAGAAGTTTTTGTTTTTTGAAGATGAAACAGCCTTATTTTATGATCCATAAAGATTTGTGTAAGCATTGTCCTTAATGTAAAGGTATGCAAGTCTTACTACTGAGGACCTTTTAGAAATATCCCATGCTTTTTTTTAAAAACAGTCAAGTGTTCCTTATAATCATTTCCTTATTCAAAAATTGAAAGAAACAAGAAATGATTTTTGGGTGCTTTCTCTTTGTAG
Seq C2 exon
GTTTTCCATGATGTTGCCTATAAAGCTAAAGATAGAAATGATTTATTATCAGGAATTGATGAATTTTTAGACCAAGTGACAGTACTACCTCCAGGAGAATGGGATCCATCTATACGAATTGAACCACCAAAAAGTGTTCCTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011405:ENSGALT00000018603:9
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=0.179
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(10.8=100)
A:
NA
C2:
PF075658=Band_3_cyto=PD(13.4=73.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTTTTTATTGCTGGGACCAG
R:
GGGAAGGAACACTTTTTGGTGG
Band lengths:
230-1726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]