HsaINT0024264 @ hg19
Intron Retention
Gene
ENSG00000170085 | C5orf25
Description
chromosome 5 open reading frame 25 [Source:HGNC Symbol;Acc:24779]
Coordinates
chr5:175722033-175723323:+
Coord C1 exon
chr5:175722033-175722265
Coord A exon
chr5:175722266-175723253
Coord C2 exon
chr5:175723254-175723323
Length
988 bp
Sequences
Splice sites
5' ss Seq
ACAGTATGA
5' ss Score
2.27
3' ss Seq
TGATTTCACTTGACTTTCAGGCT
3' ss Score
7.18
Exon sequences
Seq C1 exon
AACAAGGGTCAAAAATTAGAACCCATCCCTCATCGAAGACTAAGAATGGTAACAAATACCATTGAAGAGAATTTTCCTCTGGGGACTGTGCAGTTTTTGATGGACTTTGTGTCACCCCAGCATTACCCACCAAGAGAAATCGTGGCTCACATCATCCAGAAAATCTTGCTCAGTGGCTCTGAGACTGTGGATGTCCTAAAGGAGGCCTACATGCTTCTCATGAAAATTCAACA
Seq A exon
GTATGAACCGTAACCTCTGGCTGTTGGCGAATCTTCTAGGGATCTTGGACTCAGGGCATAGCTTTCTCTTGACAGGCTTTTTTAACCTAACCGTTACAGTGGGTGACTTAGCATATTAGTGTTATTTGAATTGCAAATGATAGGAAACCCAGTCCAAACAGACCTTAACTACTGCTAAAAGAGAATTTAATGGCTCGTGTTACTAGAAACCGAGGAGTGAGATGTGACTTGATTCAGTATACAAAAATGGTTACCAGGGTTCATTCTGCAGCTCTACTTCGGTTCTGTTTGGGGCTGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTTGGGGCCGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTTGGGGCCGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTGGGGCCGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTTGGGGCTGCATGTGGTAGCCTCTCAGCCTCAGTTCTGTTTTGGGGCTGCATGTGGTAGCCTCTCAGCCTCAGGCTTTTATGACACTTCCAGTGGGAAAGAGTGTCTGCTTCCTTTATAGTCACCCAAGAGTTCTGAAATTGAGTCTTGCAGGATTTAATTGGCCTAATGAGAGACATGACCATATCTTTGAGCCAATCACCGTGAACTGAGGGGTAGAACAGCACGATTGGCTAAAAAAGCCACATACTTCATTTTGGGGTTCTGGTAGGTAAAACTAGTTGGTTAAGAGTAGTGAAGAGTTGGTTTCTTAAGACAAAATTATAGTACTAAAGCTTTCCAAAAGGGGACTGGATACTGGGTAGCAAAAAACAATGAAGTTCCACTACTCTCAGATTGACATGGTATGATACCAGAAAGTGAGCAAGAGCATGGAGGATAATGGAGGATAGGAAGAGGCTTCTTCCTTCTATCACCTTCAGATCCTATCCCTTCTTCCGCTAAATTCTCCATAATTCTAATTGATTTCACTTGACTTTCAG
Seq C2 exon
GCTACATCCAGCCAATGCCAAGACAGTGGAGTGGGACTGGAAACTGCTCACCTATGTCATGGAGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170085-C5orf25:NM_198567:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.141 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGGGTCAAAAATTAGAACCCA
R:
CTCTTCCTCCATGACATAGGTGA
Band lengths:
302-1290
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)