RnoINT0138539 @ rn6
Intron Retention
Gene
ENSRNOG00000010378 | Slc4a5
Description
solute carrier family 4 member 5 [Source:RGD Symbol;Acc:1303009]
Coordinates
chr4:114959909-114961432:+
Coord C1 exon
chr4:114959909-114959964
Coord A exon
chr4:114959965-114961274
Coord C2 exon
chr4:114961275-114961432
Length
1310 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCATTTTCCTCCCGGAGCAGCGG
3' ss Score
4.6
Exon sequences
Seq C1 exon
GTCATGCCCAGAGTAGAAGCATGAATGACATCTCCCATACCCCAAACACAGACCAG
Seq A exon
GTAGGAGAGCTCTGCCCTAGACTGTGAAGGCAGGCAGGGAAGGAGGAGCCTTTAGATGCACAGGCAGAGAGACCTTGAAAACCTCTCTCCCACAAGGGAACAGAAATCCCCAGAACTAAGAACTTATAAGTAACCTTCCCTAGGACATTTTCATCATCAGATGACTCTGGAGATGTGAAGTCATAAAGACAGAAGGTGGACTAGTTTGAGCAGAGGACTTGTCTGGTACACTAGAGCCGGTCACTCCATCTGTTTCTTGCCCTGGACAGCTGATAGCCAGTGGCACTGGAGAGGGAACCTGAAAGCATGGGAGCGTCCAGCACGCTTGGAGACTGGTCCAGACAGTCCTATGAGTAAGGAAGCAGGGCAAAGGGCAGACAGACCCAGGAACAGACTTCTCTTCACCACCCAAGGTGAAGGCCTGGAGGGAGGGCTAGGCAGCTGAGCACTGCATGCTAAGAGCTATGTCTGTTCCAACAAGGAAACTGCAGGTGAGGGAAGGCTAGGTTCAGCAAGCCCAGGGCTCTTCTCTGACTGTGTGGTTCATACAACAGGGGAGTGTTTTAAGGTCTACTCAATGACTGGATCCTACATCTATGAATTGGTCTCTTGAAAATTTCTGTGGAAAGTGGGAGAGAGAGAGACAGAGAGAGAGAGACAGAGAGAGAGAGACAGAGAGAGAGAGACAGAGAGAGAAAGAGACACAGAGAGAGAGACAGAGACAGAGAAAGAGAGTGAGAGGAGAGAGAGACAGAGAGAGAAAGAGACAGAGAGACACAGAGAGAAAGAGACAGAGAGAGAGACAGAGAGAGAAAGAGATAGAGACAGAGAGAGAGACAGAGAAAGAGACAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGAACGTGCACACTTGAGATATCAGAAGAGGGCATCAGATCTCCTGGAGCTGTAGTTAAAGGCAGTTGTGAACTGTTTGCCTGGGTGCTGGGAATAGAACTCTGGCCCTCCATAAGAGCAGCAAGGGATCTTGACCACTTACTCATCTCTCCGGCCCCTAGGGGGATTTTGTTCTTATTCATTTTTAGTTTTTCAAGACAGGGTTTCTCTGTAGCCCTGGGTTTCCTGAGATTAGCTCTGTAGACCAGGCTAGCCTTGTACTCAGAGATCCTCCTGCCTCTGCTTCTCAAGCACAAGGATTAAAGGTGTGCACCACTACACTTGGCCACTCCTGGGGAGATTTTACAGTTAGACCTCCATTGTTCTCTGAAGTAGAATATGAGCATGCCAGGTCTTCTTGGGTGTGTCATTTTCCTCCCGGAGCAG
Seq C2 exon
CGGAAAAACAAATTCATGAAGAAGATCCCCAAGGACTCAGAAGCCTCCAACGTGCTTGTGGGCGAGGTGGACTTCCTGGACCAGCCATTCATTGCGTTTGTTCGTCTTGCCCAGTCTTCCATGCTGGGAGGGGTGACCGAGGTGCCTGTCCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010378:ENSRNOT00000014249:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.842 A=NA C2=0.170
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(6.7=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.4=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:
GTCATGCCCAGAGTAGAAGCA
R:
CTGGTGGGGACAGGCACC
Band lengths:
214-1524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]