GgaINT0101754 @ galGal3
Intron Retention
Gene
ENSGALG00000011405 | SLC4A7
Description
NA
Coordinates
chr2:38447407-38448734:-
Coord C1 exon
chr2:38448573-38448734
Coord A exon
chr2:38447521-38448572
Coord C2 exon
chr2:38447407-38447520
Length
1052 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
ACAGGTTTTTTTGTTTATAGGTG
3' ss Score
8.12
Exon sequences
Seq C1 exon
GAATGTTTAGAATTTCATGGTGTGTTTCATGGATCTGCTTGTGGCCATCATGGACCATATATTCCAGATGTTCTCTTCTGGTCTGTCATATTATTCTTTACAACATTTTTCCTCTCCTCTTTCCTTAAGCAGTTCAAGACCAAGCGCTATTTCCCAACTAAG
Seq A exon
GTAATTCCGATTAGAGATGACTGTTACTTTGTGGTAAATGCATTAATATTGAATACGTTAATATAGCTTAGAGGGGTTGAATTTGTTTAGTTTGCTTCTGAACTTTGTTTTGTGAGTGTAACTTTAACTGTGTTTCCTCTAAGATAGAAAAGGAAATGGTAAGCAATATTTTCTTTAAATTCAGAAAATTAAGATATATCAGTTGCTAAAAATTCAGTACTTGGTATTTTTTCTTGCCATTGTAACAAAATGTTCTGAATATTAGAATATCTGAGCATGTTTGTCTTTCATATTAATGGCTATGGGCAGATATCATCTGGAGCGATTATTTTCCCAGTTCCCTTGCCTAGTAGTACAGAATCATTGTTCACTTTCTCCAACCTGATGATGTCTGAAGTGTGTTGAGTTGTTCCTGAGGGGGATTACTGTTTCTAATAGAAAATAATATGATGATTTTCCTTGGACTGATTTATATAGTATATTTCTACTAGGCAAAATAAAGTGGGTAGATCTCTGGACCTCACCTTGTACCTACAGTGTGTGCTCCTAATGCTTAACAAAGTCACCTTTGATAACCTGAATTTGTTAGAAAATATCCCTCCCCTACAAATTGAACATCAGATGTATTATTATTGATTTCAGAACAATCCAGTGGTTTTACTGAATTAAGCTGCGGGAAAATAGCTGTGATGAACTCTCAGCTGGGCTGAGAGGACAGAAAGATGAGGAAGAAGTTAATGTGAAGCAATCTGCTTCACAATCTAAAGTATTAGATAACTTTAAATAGGATTATCAGGTGAACTGTTGTACAGAATACTCAACTTCATGCTATGCTGGCAGGCAGCTTAAATTTAAAAATAAAAATAAAATGCATGTAATGTTCAGTGATGTAATATAATATAAATAATAATATAAATAGATACATTATAAATAGACTTCACTAAACTATAATATAAATAGACTTCACTGTTCACAGGGAAGAAGATTCTCTTTCTGCTGATGCGAATTATAATGATGAAACAACCAGAGTTAACAGGTTTTTTTGTTTATAG
Seq C2 exon
GTGCGTTCTACGATCAGTGACTTTGCAGTATTTCTGACGATTGTAATCATGGTTTTGATTGACTATCTTGTAGGAGTGCCATCTCCTAAGCTTCATGTTCCAGAGAAATTTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011405:ENSGALT00000018603:16
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=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(10.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(7.2=100)
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:
TGTTTAGAATTTCATGGTGTGTTTCA
R:
TCAAATTTCTCTGGAACATGAAGCT
Band lengths:
272-1324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]