HsaINT0129495 @ hg19
Intron Retention
Gene
ENSG00000196313 | POM121
Description
POM121 transmembrane nucleoporin [Source:HGNC Symbol;Acc:19702]
Coordinates
chr7:72398923-72400649:+
Coord C1 exon
chr7:72398923-72399003
Coord A exon
chr7:72399004-72400477
Coord C2 exon
chr7:72400478-72400649
Length
1474 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
ACTGTCTTCTCTTTTATTAGGCC
3' ss Score
9.98
Exon sequences
Seq C1 exon
GCGCCATGATAGCAGTGGCAGTGGACATTCAGCATTTGAGCCCCTGGTGGCCAATGGAGTCCCCGCTTCTTTTGTGCCTAA
Seq A exon
GTAAGTGGGAGTCCATCCGGATGAAATACCAACTGTTTGGAAAAAGGCCTGATCAGAGCTGTTGCCCTATAGATTTTCCTCTTTGTTTTTTGCATTGCTTAATTGGTTCAGGTTCACGTCTTTGAAATTAGGAACGTTTTGAGTAACTTGCCACAGTTAACTGCCTTCTGTCTAATTCCTTTTAATGTTCTTGCATTAATATGGATGAAATATGCTGAGACTTAAGAGGTTTTATAAATATATTTAATAACCAAGCACATACACAGAAGGATTGCAAAGTTTGTGCAGTGGATAAAACAGTATGAAACCTAAATGTTAAATTTCTACATGTCAGTTTAAAAACAAATTGGAGGAAGAATTGGGTGGAAAGGAAAGTGGCTCAAAAGTATGTGTGGAAAGACTTAGGATACCTTAGGTACCTCATCTGAGTCAGCAGTGTGATGTGGCCGCCAGGAAAGCTAAAGTGCTCCTGGTCTGTGCTGTTAGAAGAAAGACTAGAATGAGGCAGGTGGATGGTATTCCTGCCTTCCGTAGTTCTGCTCACTGTCCGTGGAGCACTGTGGTCAGATCAGTGTACTGCACTGCGAGGGAGGATGTACACAAACGGAAATTCATTCCCAGTGAAGCAATGAAGATGTTAAGGAGATTTGCAACAGCCCAAAGGGGTGGTGGTGGATGTTGGGGTTTTGGAGGTATGGAAGTATTAGCCCAGAGGAGAAAAGTCTCAGGGGGAATAAAGAAATAAGTGAGGGAAGGACAATGGTCTCCAAAAAACCAAAGGACTGTCCCTTGAAAGAAGCAAAATAACTTGCTCTGTTTGACTTCAAATAGGATCCGTGGGTGAAAGAGGAAATACACTGTAATCCACTGTAAGAATAAACTGGTTCATGGTTGACGTGGGTCACTCTAGGAGAGAGTTGTCTATATTGTAACAGGTTGGATGACTGTCCTACAGAAAAGATGCGTAGGAGATTTCTGTTTCCATTGGAGGTTTAGTAAAATGATGGGTTCCTCTTAACTCTGATTTTTTTTTAATAGCTTTGTTGAGATATAATTGACATAAAATAGACCGTACTTGTTTAAAGCATGTGACATTTTGACACACATACACCTGTGGAACCATCCCACCACTAAGATAATGAACATCCTTCACCTCCAAAAGTTCCCACATGCCTGTAATCCCTCTCTTTACTTCCACCCCTGTTCCCAGGCATCCACTGATCTGTCTTCTGTCACTGTAGATAGGTATGCATTTTCCAGAATATTCTATAAATGGAAATCATACATTTAAGTTTTAAATATTTGGCTTTTCTTACTGACTTTGTCAGATAGATTTGGCCAGATTGTTAGCAGTAAAAATTAAAAGCATTATTCTCTTCCCTTCATGTTATTAAGAAAGATGTCATGACCGTGGATGAAATCGTAAAAGAATTTTGCCTTCAATAAAGCATCTAACTGTCTTCTCTTTTATTAG
Seq C2 exon
GCCTGGGTCTCTGAAGAGAGGCCTCAATTCTCAGAGCTCAGATGACCACTTGAATAAGAGATCCCGAAGCTCTTCCATGAGCTCCTTGACAGGCGCTTACGCAAGTGGCATCCCTAGCTCCAGCCGCAATGCCATTACCAGTTCCTACAGCTCCACTCGAGGCATCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196313-POM121:NM_172020:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.923 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152291=POM121=FE(11.3=100)
A:
NA
C2:
PF152291=POM121=FE(23.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGATAGCAGTGGCAGTGG
R:
TGTGAGATGCCTCGAGTGGAG
Band lengths:
249-1723
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)