HsaINT0020260 @ hg19
Intron Retention
Gene
ENSG00000165685 | C12orf59
Description
chromosome 12 open reading frame 59 [Source:HGNC Symbol;Acc:26438]
Coordinates
chr12:10339019-10344403:+
Coord C1 exon
chr12:10339019-10339188
Coord A exon
chr12:10339189-10342494
Coord C2 exon
chr12:10342495-10344403
Length
3306 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
TGTTCCTTCTTTCTTCACAGCTC
3' ss Score
11.72
Exon sequences
Seq C1 exon
GTTGCTAGTGGTAATTGGCGCGCTGCTTCTCCTGTGTGGCCTGACGTCCCTGTGCTTCCGCTGCTGCTGTCTGAGCCGCCAGCAAAATGGGGAAGATGGGGGCCCACCACCCTGTGAAGTGACCGTCATTGCTTTCGATCACGACAGCACTCTCCAGAGCACTATCACAT
Seq A exon
GTGAGTACACTGAACTTTTAACCTGGGAGGAGGACCCAATTTAAGGGAATAATGAAAAGGGTGCAAAGGTGTAGAACCACTGATCGAGTAATATTAAAGATTCCAGGACTCACAATAATTTCCATTCCCAGAAGCCTGATGGTGCAGTGACCTGGGCTGTCACTGAAGCTGTGTTCTCAAGGGTCTGTCTGGCTCATGATAAAGAAAGAAGTGAAATATTGGAGGCTATTGGAAATATTGAATAGGAAGAATTAGCCAGTTTATAAATAGTTACTTTGCTAAAAACTATTTTGAACTCCAAACGGATGCCTTTTTCAAAACGTCTTGGATTTTGTGAAATCTACTTTTTCTATTATCTATACTATTTTATATTTTTAAAGAAATTAATGACATGTACTTTCAGTTCTTTATTCTTCAAGGCTTGATACACTAAATTTTAGCCTTAACATTTTCTCAATGATTATAAGACACTTTCCCTTTTCTTCTGTGGTTCTATTCTTTCCATGACGGTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTTGTTCTGTCGCCCAGACTGGAGTGCAGTGGTGCAATCTCAGGCTCACTGCAACCTCCGCCTTCCGGGTTCAAGTAGTTCTCTCCCTTAGACTCCAGAGTAGCTGAGATTACAGGCACCTGCACCATGCCTGGCTAATTTTTGTATTTTTAGTAGACACGAGGTTTCACCATCTTGGCCAGGCTGGTCTCAAACTCCTGACCTTGTGATCCACCTGCCTCCGCCTCACAAAGGGCTGGGATTACAGGCGTGAGCCACCATGCCTGGCCAAAATGGTTACTTTCTTTTTTTGACACGGAGTCTCCCTCTGTTGCCCAGGCTGGAGTGCAGTGGTGGGAATCTCAGCTCACTGCAACCTCCGCCTCCTGGGTTGAAGAGATTCTCATGCCTCAGCCTCCTGAGTAGCTGGGATTACAAGCAGCCACCACCACACCAGGCTATATTTTTTTAAATTTTTATTTATTTATTTGTTTATTTTTATTATTGGTAGAGACAATTTACCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCATGATTCACCTGCCTCTGTCTCCCAAAATGCTGAGATTACAAGCATAAGCCACTGTGCCTGGACTATGCTCTTTCCTAAAATTGAGGAGCAAGTACCAGTCAGAACACCAGCTGGCAAAATGTGGATATTTATTTTGAAAAGAGAGTGATGGCTGGGCGCAGTGGCTCATGCCTGTAATCCCAGAACTTTGGGAGGCTGAGGCAGGTGGCTTACTTGAAGTCAGGAGTTCGAGACCAAGCTGGTCAACATGGTGAAACCTCGTCTCTACTAAAAATACAAAAACTAGCCAGGCATGGTGGCACACACCTGCAATCCCAGCTACTTGGGAAGCTGAGGCGTGACACTCGCTTGAACCCGGGAGGCAAAGGTTGAAGTGAGCCGAGATCGTGCCACTGCACTCCAGCCTGGGTGAGCGACAGAGAAAGACCCTGTCTCAAAACAACAACAACAACAAAATAGAATGATATGATGTGTTGCTGTTCACCTTTCCTACCTCCCCTTTCTCACTGTCATCTTAGGAAAAAAGGATAACCAAGGCTGGGCACGGTGGCTCAGTCCAAGGCGGGCAGATCATCTGAGCTCAGGAGTTTGAGACCACCCTGGGCAACATGGTGAAACCCCGTCCCTATTAACGTACAAAATTTAGCTGGGCGTGGTGGCACGGGCTTGTAGTCCCAGCTACTCGGGAGGCTGAGGCACGAGAATCATTTGAGCCCAGGAGGCGGAGGTTTCAGTGAGCCGAGATGGCGCCACTTCACTCCAGCTTGGGCTACAGAGTGAGACACCATCAAAAAATAAAAAAGGAAAGAAAGAAAGAGAGAGAGGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAAAGAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAAGATAACTGGGCATGGTGGCTCATGCTTGTAATCCCAGAACTTTGGGAGGCCGAGGCAGGTGGATTATTTGAGGTCAGGAGATTGAGACCAGACTGGCCAACATGGTGAAACCCCACCTCTACTAAAAATACAAAAATTAGCCAGGCACTTTTGTTGGCCAGGCACGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAAGCGGGTGGATCACAAGGTCAGGAGATCGAGACCATCCTGGCTAACGCAGTGAAACCCCATCTCTACTGAAAATACAAAAATTAGCTCGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCGAGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATTAGCCAGGCACGTTGGCACATGCCTGTAATCCCAGCTACTCGGGAGGACGAGGCAGGAGAGAATTGTTTGAACCTGGGAGGTGGAGGTTGCAGCGACCCGAGATTGTGCCACTGCACTCCAACCTGGGTGACAGAGTGAGACACTGTCTAAAAAAAAAAAAAAAAAGAAAAGAGATGAGGTAAAAATAAATAATCCTAAGGAGTCTATAGTATCGGGGGCTGGGGGAAAGGGATCTAAGTCTGAAAGGGGAAAGGGCAGGGTTGAGTTGCAGGATGCAGAAACATTCTTGGCTGGGTGTGGTGGTTCACTCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGTGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATAGTGAAACCCTGTCTCTACTAAAAATACAAAAATTACCTGGGCATGGTGGCGGGCGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAATCCAGGAGGCGGAGGTTGCAATGAGCCAAGATCCACCATTGCACTCCAGCCTGGGCAACAAGAGCAAAACTCCGTCTCAAAAAAAAAAAAAAAAAAAGAGAGAGAGAGAGATACAGAAACATTCTTTAGATTATTTGAGGTTACCAGAGAAAACAGGTCCTTCTAGCAGAGCAGGAAGCTGGGTTGTAAACATGCTTCAAAGGATATTCATAAAATTTGGGGCAAGGAGTGACAATGAGTTTGGATACTTGTAAAAAATGAAGCGACAGTTAAGTGTGAAGTAAGTCTCTGCTGTCTGAGGGTGTCCTGTTTCCCTTAGTTTCTTAGCTCTGTTCCTTCTTTCTTCACAG
Seq C2 exon
CTCTGCAGTCGGTGTTTGGCCCTGCAGCTCGGAGGATCCTGGCTGTGGCTCACTCCCACAGCTCCCTGGGCCAGCTGCCCTCCTCTTTGGACACCCTCCCAGGGTATGAAGAAGCTCTTCACATGAGTCGCTTCACAGTAGCCATGTGCGGGCAGAAAGCACCTGATCTACCCCCAGTACCTGAAGAAAAGCAGCTGCCTCCAACAGAGAAGGAGTCGACTCGAATAGTTGACTCTTGGAACTGATGAGAGCTGTCATTTTATAAATAGGAGTGGAGTGATGTCCAGAGTCTGTGGGAAAATGGAACACATACTTTTCTAACCCTCAGAAGTTTTAAGATGGCATCTAACACCATCATTCTATGGGAAAGATGGTTCTTACTCTTCGTTCACAGGCCTTTATATCTTCCGATACAGAATGCTCTAATTGGGAACTCTAATTTTGTATCCAATGGCCAAAATCTGCAAGTAATCTCTAGCCACACTGATTACTACTAAACCAGGAAAGCATCAAGGTGTCTTGAATTCCTTTAACTATTGAGTGCATATAGAATTCCTGTACCCACATGATACTGCAAGTTGTGTCTCTCTCTGTCAGCGAATCCACTGCGGTTAACTGGAAAAGAAAGACAACAGTGTCAGCACAGCCATCGACATTAATGCACTGAATGCATGCATCTTTCCTCCTGAGACAGCAATCGATTTTACACCGAATGACAATGATCATCTTAGACAGCACAACATACCCACTCGGATATCTAAAAGCTAGGGATGGCATTGCTGATATGGGCAAAGAGAACACAGTATAGTATTTAAGTGCCAAATATCAGTCTTTCTTTCTCTCTGGTCCTACCCCTCAGCAGTATGAAAAACTCCATACTGTGCAGTCACAGTTGGATTAATTCTTCAGTTCCTCCGCACTGCAAACACATATATGTGCGCACATGCATGTATACCTGCACCCTGTTTTAACTCTAAAGGAATAGTGTTGCTTTACTTCTTTCCTGTTTTGCCTGGACCACTTAAAGCCACAACACCTCTATAGTGACACACGCTAGTCTCTAGTGGTGGCCCTCACTGCCACCTAGAGGAGCCATGGTGGAAAACACACTCTCTCCTTTGAGCCTATCTGCACATCTCTCGAGTTCTTGGAGCAAAAACTAAATGCTGAACTAAGCCTGGTTGAGATGCTTCCCATGGACCATGCCGCAGCACAGTGCTAATCTATCCACAAAACATACCACCTCCCAAAGTATTATTATTGGAAAATCGAGGAAGTGACGCACATTTAGGGAAAAACTACTCACCTTAGAAAAGTCACTGAAATCCTTTTTTTTTTTTTTGAGATGGAGTTTTGCTCTTGTAGCCCAGGCTGGGATGCAATGGCATGGTCTCAGCTCACTGTAACCTCCACCTCCCGGATTCAAGCAATTCTTCTGCCTCAGCTTCCCGACTAGCTGGGATTACAGCTGCCTGCCACCGTGCCCAGCTAATTTTTGTATTTTTAGTGGAGAGGGGGTTTCACCATGTTGGCCAGTCTGGTCTAGAACTCCTGACGTCAGGTGATCCGCCCACCTTGGCCTCCCAAAGTGCTGGAATTAGAGGCCTGACCCCCTGCTCCTGGCCTGAAATCTTTAAAGCCGTTTTTTCCCTAAAAAATGGGAAATAATAACACCTCAGAAGGTTTTTGTGAAGATCAAAGAAGCTAAATATATGTGGCATGATTTGTAAAGTGTTATGCATATGTATGTTATTCTTCCTACTGTCTTCTAACCTTCCCTTGCCTGCTATGACTTATCTGAGAGCCATGTTCCCATTTATCTTTTTGCCAACTATGTTACTGTTGTCACACCTGAAATGGCTTTGTTTTTATCAATAAATACTTGTTGATTGCGGTAAACAGCAACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165685-C12orf59:NM_153022:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.309
Domain overlap (PFAM):
C1:
PF149791=TMEM52=FE(40.1=100)
A:
NA
C2:
PF149791=TMEM52=PD(45.1=78.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)