RnoINT0138402 @ rn6
Intron Retention
Gene
ENSRNOG00000005307 | Slc4a10
Description
solute carrier family 4 member 10 [Source:RGD Symbol;Acc:631407]
Coordinates
chr3:48257529-48259036:+
Coord C1 exon
chr3:48257529-48257780
Coord A exon
chr3:48257781-48258967
Coord C2 exon
chr3:48258968-48259036
Length
1187 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
TTCTAACTGTTCTCTTACAGTTT
3' ss Score
9.6
Exon sequences
Seq C1 exon
AAAGGTTGTGGCTATCACCTGGACCTGTTGATGGTGGCAGTCATGCTGGGGGTATGCTCCATTATGGGCCTGCCATGGTTCGTGGCAGCCACTGTCCTCTCCATCACTCATGTGAACAGCCTCAAGCTGGAATCTGAGTGCTCTGCTCCAGGAGAACAACCCAAATTTCTCGGCATTAGGGAACAGAGGGTCACTGGGCTCATGATTTTCATCCTTATGGGTTCATCAGTTTTTATGACCAGCATTCTGAAG
Seq A exon
GTAATGAAATAATTACTTACGAGTGAGAGAAAGTAGTCATATGTTTAAGATATCGTTTTAATATAAGCATCAATATGTAAATATCGCACGGCATGAGGTAAAAGTGATAATTTAAAAAATGTTTATATATTTCTCCTTCACCAATGATAAATGAAAATTTGTCCCCTGTTTTAGAATCTAAAATACTTGAAAGAATAATTTTGTTATACTTTCTGGCACTAACAATTTTGATTTGTAGTTTTCATGCCCCGGGAAAGGTCACACTTTCTGAGTAGCTAATGACTAAATTCACTGCAGTTCTATCCAAATTAAAGTTCTTATTATTTTGTCAATCTGGATATTGAATGTTATTATCGGTCTGTAGATCGAGTATTATTGTAAGTCAGTGATGTAGACAGGACGATGGCTAGGCCACGCTTACATAGACAGTTTTATATTTTGAAGGCCTCACAAAACACAGCATTAGTAATTTCTACATTTAAAATTATTGAATTAATTTTGAACAACGGTAAGACTGATCATTTTGTCATATAATTCTGGAAAGTATTCTTATAGCATGTTAGCTACATTATATATTATTAGTCATTTTGATTGCTAAAATTATTAAATATCAATTGAATTGTTTAATTTACACAGTGTCTTGTATTTAATAATTGAGAACTCATATTTCTGTTATATAACTAATAAAATAATGTATAAAATGAGCTAACCCAATAAAGAAAATTTGAATAGTCTACCTGTTAACAAATATTTGCCATAATGAAGGACCAAATTGTAAAAGTAAAACTTCGCTCCTTGTCTTTAATCCAAATATCTTACTAATTTAAAAGGGAATGTAAATTGTCTTTAAAGTGGCTAATAGTCAATGTTTAGTGTGACTCCATAGAGCTTCCAGTACCATTTCTTAGGAGTCACGCGGGTGTTAGAGTGAGTTTAATTCTTACAGCTACACTGTTGTTATCATCCCCTTGTAGATCTGAGTAACTAAGGTGTGGGCATCATAAGTAACTGATTAATGTTACAAACATAAAAATGCTAAGCTGCAGTGTGAAATTGTCTTCTGATTCCGTACTATACTTGATTCTAGCATGCGCTCAGCTCTCCTTTCCCCCTCTCTGATAACTGCGAGACTGAATGACCGTGTGCTGGAGAGTAATGCCCGGCATCTTCTAACTGTTCTCTTACAG
Seq C2 exon
TTTATCCCCATGCCAGTGTTATATGGAGTGTTTCTTTACATGGGCGCCTCGTCTCTGAAGGGAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005307:ENSRNOT00000007218:19
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(16.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGTTGTGGCTATCACCTGG
R:
GAATTCCCTTCAGAGACGAGGC
Band lengths:
318-1505
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]