HsaINT0151872 @ hg19
Intron Retention
Gene
ENSG00000181240 | SLC25A41
Description
solute carrier family 25, member 41 [Source:HGNC Symbol;Acc:28533]
Coordinates
chr19:6432060-6433790:-
Coord C1 exon
chr19:6433498-6433790
Coord A exon
chr19:6432216-6433497
Coord C2 exon
chr19:6432060-6432215
Length
1282 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GGGCCGGGTCTGCCCTGCAGGTA
3' ss Score
7.83
Exon sequences
Seq C1 exon
AATCCTCCCACTAGACACTCCCGCATGGTAGCTGGAGCAGCAAACAACTGCTTAGGGATTTGAAGCCAGGTGTCCTAACTTCCTCCATGGGCGCTCAGCCTGGGGAACCTCAGAACACTTGCTCTAGGATCCAGACACTGTTTAGGAGGGTCAAGACCTTACTCATCAAAGCCCCGCCTCCCCCCCAACCTCCGCCTCCACCCCCATCCTGGAACCCTGGCTGTACACACGTGTATGGGTACGCGTTTGGCCACATGCATGACAACAACCTTGAACATCTCCCGTCACAGCAG
Seq A exon
GTGAGTTTAGGAAACACCAGTGTCCCGGCACCTCTGGTCAGGACTACAGGGAGAGGCCAGGCTACCCACGCCCTCTACAGGCCCACTCCCCTGCTAGCGGACCTAGAATTCCACCTTGAAGCAGGGTGGGGCAGGGAGGCAGGGCGCGATGGCTCCACACATGTAATCCCAGCACTTTGGGAGGTTGAGGTGGATGGGTCACTTGAGGACAGGAGTTCAAGACCAACCTGGCCAACATGCCGAAACCCTATCTCTACTAAAATTACAAAACTTAGCCAGGCATGGTGGTTGGCGCCTGTAGTACCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACTCAGGAGGTAGAGGTTGCAGTGAGCCCAGATCTCATCACTGCACTCAAGCCAGAGCAACACAGCGAGATTCTGTCTCAAAAAATAAGAATAAATTAAGAGTCTAGATATAGTCCTAATTACATTTGTATTCCTCCTTGGATCCTCCATGAGTAACTTAGAGAGTCTATATTACATTGGCTGGGTGTGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGTGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCTGCCTCTATTAAAATAATACAAAAATTTGCTCGGCACGTTGGCACTGTAATCCCAGCTACTGGGGAGGCTGAGGCAAGAGAATCACTTGAACCCAGGAGGCGGAGGTTGCAGTGAGCCGAGATCACACCATTGTCCCTACTTGGGAAGCTGAGACACGAGAATCGCTTGAACCAGGGGGACAGCGGTTGCAGTGAGCCAAGATCGCACCACTGTACTCCAGCTTGGGCGATAGAGTGAGACTCTGTCTAAAAAAAAACAAAAACAAAACAAAAAAAAACCAGGGGGGAGGGTTGAATCACTTGAGGTCAGGAGTTAGAGACCAGCCTGGCCAACATAGTGAAACCCATCTCTACTAAAAAAAAAAAAAAAAAAAAAAAAAAAAATTAGGTGTTGTGGTGCATGCCTATAATCCCAGCTACTCAGGAGGCTGCGGCAGGAACTGCTTGAACCTGGGAGGTGGAGGTTGCAACGAGCTGAGATTGTGCCACTGCACTCTAACCTGGGCAGCAGAGCAAGACTCCGTCTCGAAAAAAAAAAATGCAGACTTGGGGGAACAGGGTGGGTCTTTCACCAGGTGGGTGCCCTAGATGTGTGTCTGGGGAAGGTGCCCCAACCTGGCTGAGGATGAGGGAGGGCCGGGTCTGCCCTGCAG
Seq C2 exon
GTACTGGACACAGGAGAGCAGCTGATGGTCCCCGTGGAAGTCCTGGAAGTGGATAACAAGGAGGCCTTGTGGAAGTTTCTACTCTCAGGAGCTATGGCCGGGGCGGTGTCTCGCACGGGCACGGCACCTCTGGACAGAGCCAAGGTGTACATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000181240-SLC25A41:NM_173637:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.565 A=NA C2=0.096
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0015322=Mito_carr=PU(35.5=63.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTAGGGATTTGAAGCCAGGT
R:
CGGCCATAGCTCCTGAGAGTA
Band lengths:
344-1626
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)