RnoINT0138502 @ rn6
Intron Retention
Gene
ENSRNOG00000003134 | Slc4a4
Description
solute carrier family 4 member 4 [Source:RGD Symbol;Acc:68936]
Coordinates
chr14:20503228-20504546:-
Coord C1 exon
chr14:20504368-20504546
Coord A exon
chr14:20503301-20504367
Coord C2 exon
chr14:20503228-20503300
Length
1067 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
GTCTTTGGATTTTGTTTCAGAGA
3' ss Score
8.82
Exon sequences
Seq C1 exon
AAGGGAGCTGGCTATCACCTGGACCTGTTTTGGGTCGCCATCCTCATGGTGGTGTGCTCCTTCATGGCTCTTCCCTGGTATGTGGCTGCTACTGTCATCTCCATCGCTCACATCGACAGTCTGAAGATGGAGACAGAGACTTCTGCGCCTGGAGAACAACCAAAGTTTCTGGGAGTGAG
Seq A exon
GTGGGTTGTCTCAGGAAAATGATAAGAAAAAAACCTCACGGGTCTACATCTTTGTGTCAATCCTAAGGAGGTGGGTCCAATCTGGGGATGAGATAAATGGTGACGGTTAATTTATCCTTAAATTATCTTCTCCAGGAAGGACATTTTAATAAGGAAGATAACTAATAACTTTTAGTTCATTTCTTAAAGTCTGTCAAATTTCTTGATCAGAGCAATAGTAAACAATGCAACAGGAAAAAACTAAGCTAGCGGTTAATTTTCTTCAATCTAGAGTTGAGTGCTCTCCCACAGTCATTTGTGAAAGCTTCGAGTCTTCCATGATTTCTGTTATTTAACGGGCAGGAATTTTTGTTTTCCAACCCATTCCTGTTCCCATAAGAACTTGAGAACCTTCAAATATTGGAGTGGTTCTGAAGGTCAGTGGTAGAGGACCCTTGTCCTCTTACTGAGTGTTTTGTTTTGTTTCTTGCCTTTGTCTTTTGTCATAGCAAGCTTTGCCTACCAGGGCTAGAGTGAACAGCTCACACATCAGAGCCATCATTTCCCAGGCCTCAACAGTGGGTGATTCTTTCTTAGGGGTGCAGGGTGTTGGATGGGGATCATATTTGTTAAAAAGTACTTCTGTTGTTTCAAATTTGAAAATTAGACTGGTGAGATTCATTGCACTCATGAAACTTCCCTGAGCTGTTTATTAATTAGAATGTGGGACAATGTAATATCTGTCTCCTATGAAAGAAGGTATAATTACACAACAGGATAAGTTGTTTGGAAAAACAAGAACTTCAAAGAAGCCAGTAATTCATGGACCAAGAGCAAGCGATCTTTCTTTTATGGTTCTGAAAGGAGCAAAAACTTTAGAAGAGTCACTTGTTTTTTCTTCATGAGTTCCAATCATATATTGTAATAGTTTTCAACATTTTTAAAAGTTTACACTTATATTGAATATATACATTTTTTGTATATATGAGTTATATCAAGACCTTTGATGCTGTAGTTCAACACCGATTTGGTCTTTCTCTGTAGGTCTGTGTAGAAATTAGACTGATGGTCTTTGGATTTTGTTTCAG
Seq C2 exon
AGAACAACGAGTCACTGGAACCCTTGTGTTTATTCTGACTGGCCTGTCAGTCTTTATGGCTCCCATCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003134:ENSRNOT00000004391:20
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGGAGCTGGCTATCACCTG
R:
GATGGGAGCCATAAAGACTGACA
Band lengths:
246-1313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]