RnoINT0137043 @ rn6
Intron Retention
Gene
ENSRNOG00000048853 | Slc25a41
Description
solute carrier family 25, member 41 [Source:RGD Symbol;Acc:1588585]
Coordinates
chr9:10004805-10006469:+
Coord C1 exon
chr9:10004805-10004929
Coord A exon
chr9:10004930-10006313
Coord C2 exon
chr9:10006314-10006469
Length
1384 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
AGTGGCCGTTGTTCTTGCAGGTT
3' ss Score
10.77
Exon sequences
Seq C1 exon
CTGCCCCTAAAATCACAAGGCCAGATAACCAGCCACTCTCAACTGGGAACTGGATAGACGCTCCAGGAAACGCTGAGACTGGGAGCCTAATCCTTCAGGCGGCAACTATGGGAGTCCATCTGGAG
Seq A exon
GTAACTCCGGACCCTTGTTCAAGGATCCAGACCTTGCTTAAGAGGGCCAAGGCCTTATTTAGGAAAGCTCTACCCTGCCCCACCCCCACCCGTCTCCACCCTACCCCAGCACTATCTGAAGCCTGGAACCCAGGGTGCACACACATATGTGAGTATGTTTGGACACATGGGTCAGAACAACCCTGAGCATTCTCTATTACAGCAGGTAAGTCTGGAGAGTGAGTTGGCGCAAGCTGAAGCAAAGGGAAACAGCTTCGAGGCCCTTATGGTATGGAACACCTTCTCCCTCCAGGCAGAGTAGAATAGCCTACACTGAGACCATGTGTGAGACCATGTGGTGCTTCATACCTGTTACCCCGGCACTCAGGAGGCTGCAGGCAAGACATCAAAAGTTCGAAGTCATCCTCAACTGTTTAGTGAGTTAGAGACCAGTCTGGGCTACTTGGGACCCTGTCTTAAAGTGGGGTGGAGAGGAGAGAGGGAGGCTAGATTAAAGGAGATGGCTGAGGAGATAAAGGGCCTGACACTCCAGAAGCACAAGGCCAGACTTCAGGTCCCTAGAACCTGTGTAAATGCTAGACAGGCCTGACAGACACCTGTAACCCCAACAGTCCAGAGGTAAGACAGAGATAGGGGAGCAAGCTGGCTGGCTGGGCCAAATGAACTGGTGAGCCTCTGGGCTCAAATGAGGGACTCTGCCTCAACAGGTAAGGTAGAGAGTGGTACAGGAAGGCACTCACACATACAGACACATACCACTACAAACATACATGTCCTCTCTCACACACAGTCCCACATACCACCACACACACACTCACATGCATGCACTCTCTCGGACACACACACAGTCACACATATCCCTACACACACTCACATGAGTACACTCGTGCGCACACACACACACACACACACACACACACTTTGTGCACACAATTGAAACCACACTGGAGCAGTTAAGAGTTCTTACAGCAGACAAGAACTCAGCCCCCAGCACCCACATGGTGGCCCACAACCATCTGTAACCCCAGATGCATTGAATCCAATGTCTTCTTCTGGTCCCCTTGGATACTTTCACACACAAACAAAAAGTAAATTATTAAGAAAGACAGAAACCAGCTGCGTGGTGGTGGCCTCTTAATCCCAACTCTTGGGAGGTGGAGGCAGACAGATTTCTGTGAGTTGGAGACCAGCCTGGTCTCCACTGTGTCCCAGGACATCCAGACCTACACAGTGAGACCCTACCACAAAACAAACAAAAAACCAAAGCCACCTAATCACCCCCTCCAAAGATGTCCACATCGAGACAGCAAACGAGCAGCGGGGACTCCAGAGGGGGAGAGCTCCTTTAAGGCCCACTGTGGCCAAGTGGCCGTTGTTCTTGCAG
Seq C2 exon
GTTCTGGACACAGGAGAGCAGCTGATGGTTCCTGGGGATGTCTTGGAAGAGGAAAACAAGGGGACCCTGTGGAAGTTTCTGCTCTCCGGAGCCATGGCTGGGGCAGTGTCTCGCACAGGGACAGCACCTCTGGACAGAGCTAGGGTGTACATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048853:ENSRNOT00000074117:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0015322=Mito_carr=PU(35.1=63.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCCTAAAATCACAAGGCCA
R:
TGCATGTACACCCTAGCTCTGT
Band lengths:
278-1662
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]