GgaINT0077109 @ galGal3
Intron Retention
Gene
ENSGALG00000011604 | SLC4A4
Description
NA
Coordinates
chr4:51856853-51858496:+
Coord C1 exon
chr4:51856853-51857031
Coord A exon
chr4:51857032-51858423
Coord C2 exon
chr4:51858424-51858496
Length
1392 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
ACCTAGTGCTTTTCTTCCAGGGA
3' ss Score
7.88
Exon sequences
Seq C1 exon
AAAGGTGCTGGATATCACCTGGATTTGTTCTGGGTGGCCATTCTGATGATTGTCTGCTCCTTTATGGGTCTGCCCTGGTATGTTGCTGCTACTGTGATCTCCATTGCTCATATTGACAGCTTGAAGATGGAGACTGAGACTTCAGCCCCCGGAGAACAGCCCAAGTTTTTGGGAGTGAG
Seq A exon
GTATGTCAAACCAAATAGGTCTTTATTACCTTGTTTGCCTGCAGAGATCAGTTTGTACTATAAATGGTCGTGCTTTGAATAGAACACGTGTAGATGTTCAAGGGGGAATAGCTCTTAGGTTTGCAGTAAATCTTCAGATCAGCTGTGCTTCCTTCCAGCTTTTTTTCCCCATCTTCAGAGGATATATCCAGTTAAAAGTTTGTCTGGCATAGTCCTTCTGCAGATACTCTTTCTTGAAAAGGAAGAAAACCATTCTACCACGTGTGTCTGTGTGCAGGGTGAGGGCAAGCGAAGGGAGGAAGAAAAGGGAACTTAATTTCAGAATTGAGATAATTTTTATCTGCTTTGGGCACACGCATTGAAGCCACCTCTAACTACACAAGGCTTTACATTGTACGGTCTGGTGCCATCGGGGCACTGTGGAGTTCTCATGAAGAATCTTTTACATCCTTCTTCGTATTTCCCAACCTGACTATGAGATTCAGCAGTGCAGTTCTTCATTTTCTAAAGTTTATTCAAGCAGATCAGATAAAGTTTTCCAGTGTTTGAGAAAGAAGATGTATTTACTTCACATTTCTTTATCCATGGAAACTAGGCAGGCGTTTGCTAGCAAACGTAGTGGTAAAAGACCTAAACTTGTTGTGGCTAAAGCATTCGATTCTATTAAATCAAACCACTTGTTCTGTCTTTGGTAATTAAGTGGCCTGAAGTGCTTTCAACAGGAGCAGCAGCACTCCTGGAAATCAGTTAGGCAAATAATAGAAACTTAATGGCCTAACTTTAAGTACTCAGAAATAGTATTTGCAAAAGCATTTTCATATGCAGGGAGCAGTTGTGGGTGCCTCTTAAGTCAATGTCCAGCACCCCATGAAGTCCTGGACCAGGGGATTGTGAACTCCCTTTGTACCTGGTGTGCAGAGCAGTGTACAGTACGGTGAGAAACAGCATTTATCTGTCGGAATACTGTGACCAAGCTTTAAAATATGTTGCTAATTTAAGAGTGGAGAGCTAATGATTTATTACCTATTTGCATGTTGTGAAAGCTGCCGTGCAGAGAATCTGGTTTGCTGGTTAACAGTTTCTAATGTTTAACATTTAAACGCACTCCTCATTACTTGGTAGCAGTACTCTGCTGATTCACAAACAATGGAGCTAGGGGAACAAGCAAACATACAAAAACTGATCTGGTGTTTGAAAATAGATCTGTATGAAGCTTGGTCGTGATAAAGATGTCTGCCTGAAGGTGTTGGCTTGTTATTGTCAGTCAGCTTTGGAAATGTGGCTGCAAAAAATGAGTTGCAAGACTTTACATAGGTTTTGAATGCTCTGAGAAGGGAATAAAATTGGAATTAAAGCTGAAACTATACTGCTAACCTAGTGCTTTTCTTCCAG
Seq C2 exon
GGAGCAGAGAGTCACTGGAGTCATTGTTTTCATTCTGACTGGTGTGTCTGTCTTTATGGCTCCTATCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011604:ENSGALT00000018945:20
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(11.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.6=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:
GGTGCTGGATATCACCTGGAT
R:
CAAGATAGGAGCCATAAAGACAGACA
Band lengths:
246-1638
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]