RnoINT0138374 @ rn6
Intron Retention
Gene
ENSRNOG00000020951 | Slc4a1
Description
solute carrier family 4 member 1 [Source:RGD Symbol;Acc:3710]
Coordinates
chr10:90303913-90304454:-
Coord C1 exon
chr10:90304244-90304454
Coord A exon
chr10:90304123-90304243
Coord C2 exon
chr10:90303913-90304122
Length
121 bp
Sequences
Splice sites
5' ss Seq
TAGGTACAC
5' ss Score
4.06
3' ss Seq
CCTTTTCCTATCCTCTACAGCAG
3' ss Score
8.76
Exon sequences
Seq C1 exon
GTGTTCCGCGTTACCGCCTCCCTGGCGCAGAGCCGAGGGGAGCTGCTGAGCTCCCTGGATAGCTTTCTGGACTGTAGCCTGGTGCTGCCGCCCACAGAGGCCCCTTCAGAGAAAGCTCTGCTCAACCTGGTGCCCGTGCAGAAGGAGTTGCTTAGGAAGCGGTACTTGCCCAGACCTGCCAAGCCAGACCCCAACTTGTACGAGGCATTAG
Seq A exon
GTACACAGACAAGGTTTCCCGGTCCCCCACGGGCCCCTGGACCCGCAATGCACTGCTTCCTTCCTCTCAGACATTTGTCCGTGTGGGTAAGCCCCTCTGACCCTTTTCCTATCCTCTACAG
Seq C2 exon
CAGACGGGGGAAAGGAGGGCCCCGGTGACGAAGACGACCCTCTAAGGCGCACCGGCCGGATCTTTGGAGGCCTGATCCGTGATATCCGGCGCCGGTATCCTTACTACCTGAGTGACATCACCGATGCGCTCAGTCCCCAGGTGCTGGCTGCTGTCATCTTCATCTACTTTGCTGCCTTGTCACCTGCGGTCACCTTCGGCGGTCTCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020951:ENSRNOT00000028445:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.099 A=NA C2=0.197
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(14.8=50.7)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(29.7=80.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAGGCCCCTTCAGAGAAA
R:
GCATCGGTGATGTCACTCAGG
Band lengths:
245-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]