HsaINT0129508 @ hg19
Intron Retention
Gene
ENSG00000135213 | POM121C
Description
POM121 transmembrane nucleoporin C [Source:HGNC Symbol;Acc:34005]
Coordinates
chr7:75068422-75070393:-
Coord C1 exon
chr7:75070232-75070393
Coord A exon
chr7:75068503-75070231
Coord C2 exon
chr7:75068422-75068502
Length
1729 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
ACTTTTTTGATTTGTCGCAGGCG
3' ss Score
9
Exon sequences
Seq C1 exon
ACCAGAGCAGATAATCAGCTCAACACTGTCGTCACCATCAAGTAATGCCCCAGACCCATGTGCAAAGGAGACTGTACTGAGTGCCCTCAAAGAGAAGAAGAAGAAAAGGACAGTGGAGGAAGAAGACCAAATATTCCTTGATGGCCAGGAAAATAAAAGAAG
Seq A exon
GTAACAGGCTCAGGAGAGTACTAAGCCAGTTTCCCGCTTGGACCCCTATGGGATGAGATGTAGACATTCCCGTAAAGATACAGAGGCCACGTCCAGTTTGTGAGCCTTCATAGGCCTCCTTCTTTGGCTTTCATGAGAGAACCTAATAACAAGGGTTTTAATGCTGTTCATTTCAAGGCACAGGTTAGATCGATGTCATAATTTACCTTTTCTGTGAGTAGCAGAGATAAGCTGACAGCTATTAGCCATGTTAGCCTCATGCTTCTGTAGAAACGTGTTAAAAGTTTATTTTCAAGAAAGAAGGCTCTAAGTCTTCCGGTCGGAATTTTGTGGTGTTCAGTTATTTGGGTAACCACCAGTTCTAGTGTCTTTTTTTTTTTTTTTTGAGTTGGAGTCTGTCTCTGTCCCCCAGGCTGGAGTGCAGTGGCCCGATCTCAGCTCACTGCAAGCTCAGCCTCCCAGGTTCATGCCATTCTCCTGCCTCAGCCCCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCATGCCCAGCTAATTTTTTTGTATTTTTAGTAGAGACAGGGTCTCACCATATTGGCCAGGATGGTCTCAAACTCCTGACCTCGTGATCCGCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGCTTGAGCCACGGCGCCCGGCCCACCAGTTCTAGTGTCTTAATTGTGCTGAAGGAAATGCTTGGGAAAGAAAAATGAAAACTAGAGTTTGGTAGTTTTATCAATAATGAGATTAAAACCAATTTCCTGGCAGGGCAAGGTGGCTCACGCCTATAATCCCAGCACCTTGAGAGGCCGAGGCGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGATGTGGTGGTGGGTGCCTGTAGTCCCAGCTACTCCAGAGGCTGAGACAGGAGAACTGCTTGAACCCAGGAGGCGGAGGTTGCAGCGAGCCGAGACCATGCCAGTGCACTCTAGCCTGGGTGACAGAGCGAGACTGTCTCAAAAAAAAAAAAAAAAAATTCCTTATGTGGTTTGTAAAATAACCTAATGAAAATGGAATAGTTTTCTAATTACAGAAAGAAAAGAAGTTGAAGTGGGTGAGCATTTACTGAGCACCCACTGTGTATGAGACCCTACTGCAAGTACTGTGGATAGAGCAGTGGACAAGACAAAATCTCTGCTCTCATGGGACTCTTGAGGGAAACACCATTTTATAAGGCTGGGTATGGTGGTGCATGCCTGTACTCCTAACACTTTGACAGGCCAAGGTGGGAGGATCGCTGGAACCCAGGAGCTCAAGACCAGCCTGGGCAACATAGGGAGCCCTCGCCTGTACAAAAAATTAAGAAATTAGCCAGGTGTGGTGGTGCATACTTGTAGTCCCAGCTGCGCTGGAGGCTGAGGCAGGAGAATTGGTTGAACCCGGGAGGCAGAGGTTTGTTGCAGTGAGCCAAGATTGTGCTATTGCACTCCAGCCTGGGCAACAAGAGTGAAACTCTGTCTGAAAAAAAAAAATTTACCTTTCAGAAACTTAGGGATTTTAAACAACCATTTTCTGGTCTAGCATGGAATCTGTGCTCCATAGAGATAGTATAAGGTCCCAGAAATGTGAGAATACACTTTAAAGGGACAAACAAAGTCATGTCATTTCATTTGAGACTTTTTTGATTTGTCGCAG
Seq C2 exon
GCGCCATGATAGCAGTGGCAGTGGACATTCAGCATTTGAGCCCCTGGTGGCCAGTGGAGTCCCCGCTTCTTTTGTGCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135213-POM121C:NM_001099415:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.965 A=NA C2=0.848
Domain overlap (PFAM):
C1:
PF152291=POM121=PU(10.5=45.5)
A:
NA
C2:
PF152291=POM121=FE(11.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGATAATCAGCTCAACACTGT
R:
TTAGGCACAAAAGAAGCGGGG
Band lengths:
238-1967
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)