GgaINT0101749 @ galGal3
Intron Retention
Gene
ENSGALG00000011405 | SLC4A7
Description
NA
Coordinates
chr2:38455822-38457588:-
Coord C1 exon
chr2:38457485-38457588
Coord A exon
chr2:38455997-38457484
Coord C2 exon
chr2:38455822-38455996
Length
1488 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
GTTTCATCTCACCTATTTAGGCT
3' ss Score
8.32
Exon sequences
Seq C1 exon
GAGAAAAGGAAGATACCTAAGTTTCCAAATGGATCTACTCCTACAGGAGAGACTCTCAAAGAAGAAGGTCATCATGCTGGACCTGAACTTGAGAGAACTGGAAG
Seq A exon
GTGTGTTCTCTTCCCTAAATACTAATTAATCACAAAGAAATAGAAGTGATAAATCTTCACAGCCATTAATGATGAGATTTGAAGAGAAAAAAAACCAGTATGCATCCATTTTCCTTTTCAAGTGTTGGGTTCTTGCCTGTAAATGGAAGTCTGCTTGAAGCATTTTCAAGCCTGTGGCAATGTTTCTCAACACATTTGTGAAGGATTTTGTATAAGATGCTGCCTACTTTAAGTGAATTTTAAGCATTGATTTTTAATTTAAAATTATCAAGAGCATGCAATTATTGTAAGTATAGTAGGAATGTACAGTTTTCAATATTGGGCTAGGTACTAAAAATTTCCATTAATGCAAACCTGTTTTATTGAACGGGTGTGAAGCCAAACAACCAGGAATATAAAGTGGTGGGAAAAAAATACTGTTTCAGTTAGGTTTCTTTTAAATCTGAAATAAAACAGAAGGAATTTTTGAATTGAGTTGTATTATTATTCTCTATTAGTTCAGAAATACTTCCCAAAAAACTCTCAAACAGTGGAATGCATCTGGATAAGACTTCGCCTTATGTCATATGAGTAATAATACTAACTGAGGAGATCTGGAAAAGATGTAAAAAGTTTTTGTCCTCAAAATGATAAACGATTTGCATCCCTTTGCAAGAAGAACCATTTTGGCTTCATTATACTCATTTCTTTCCTTTTTGATACAGTATATGGAGCTGAATGATTTCTACCCACAGAATTATCTCTAGTTAAAACTATTGTGAATTACAAAAGCCTTAAAAAAAAAAATATATATATATATATATAAAATTCCTACAAAGAACAAAAAATACATTTTTTTGCAGATACAATTTTTACTTAATATTTTAGTTTTGAATTTTTTTTTAAATGAGAAATATCTTTTTGATTTCTTCCTAATAACTTTCTCAGTTCAACTGATTGATAAATATTTGTTTTTGTATTTGTACCATTTAGAAATATCTTCATGCCCCAAATTTTTCACTGTTAAATACATTCAGGTTTATTATCTTTATAGACTTAACTATACTCATGTAGAGAATTTGGATCAAAAACAGAGCTACAGCTACCAATTGGAGTATTGATATTGAAACGTATCAGTGCAGTGGTCTTGCTTGAGGTTTAGCATAAACTTTTGTTTTTTGTTCTGAGTATCATAAACCAGGTTTACCTTTAAACATTACTTAGGTAAAGATATTTGTAAAGATATCTTTTCAGTATCTAGCCCATTATATGCATACCTAGCCAGCTTTTAAAAATGTGGATGATCTGTTTGATTATATTTTGGAAAAATACTGAATCGGAATAGATGAAATTATCATGTATATTTAAACTGTGTTATGATTTAATCTGGATAATGAAATAGCTAATTTGTGCTGGCAGTAGGCACTGGCAGTCTTGTGTAGCCCATAGTTTTGAACTAGCTAGAATCCTTTAGTGTACAGTTTGACGAGTTTCATCTCACCTATTTAG
Seq C2 exon
GCTTTTTGGTGGTTTGATACTTGACATCCAAAGGAAAGCACCTTTTTTCTTGAGTGACTTCAAGGATGCATTAAGCCTGCAGTGCCTGGCCTCGATTCTTTTCCTATACTGTGCCTGTATGTCTCCTGTAATCACTTTTGGAGGGCTCCTGGGAGAAGCTACACAAGGCAGAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011405:ENSGALT00000018603:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.743 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(1.2=17.1)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=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:
GAGAAAAGGAAGATACCTAAGTTTCC
R:
ATTCTGCCTTGTGTAGCTTCTCC
Band lengths:
278-1766
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]