HsaINT0036349 @ hg19
Intron Retention
Gene
ENSG00000130779 | CLIP1
Description
CAP-GLY domain containing linker protein 1 [Source:HGNC Symbol;Acc:10461]
Coordinates
chr12:122821179-122826244:-
Coord C1 exon
chr12:122825300-122826244
Coord A exon
chr12:122821296-122825299
Coord C2 exon
chr12:122821179-122821295
Length
4004 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
CATGTAACACTGTGTGTTAGGCT
3' ss Score
4.28
Exon sequences
Seq C1 exon
GTGGCTACAGTTTCAGAAAAGTCACGTATAATGGAACTGGAGAAAGACCTAGCATTGAGAGTACAGGAAGTAGCTGAGCTCCGAAGAAGGCTAGAGTCCAATAAGCCTGCTGGGGATGTGGACATGTCACTTTCCCTTTTGCAAGAGATAAGCTCTTTGCAAGAAAAGTTAGAAGTCACCCGTACTGACCACCAGAGAGAAATAACTTCTCTGAAGGAGCATTTTGGAGCCCGGGAAGAAACTCATCAGAAGGAGATAAAGGCTCTGTATACCGCCACGGAAAAGCTTTCCAAAGAGAACGAGTCATTGAAAAGCAAGCTGGAGCATGCCAACAAAGAGAACTCAGATGTGATAGCTCTATGGAAGTCCAAACTGGAGACTGCCATCGCATCCCACCAGCAGGCGATGGAAGAACTGAAGGTATCTTTCAGCAAAGGGCTTGGAACAGAGACGGCAGAATTTGCTGAACTAAAAACACAAATAGAGAAAATGAGACTAGATTACCAACACGAAATAGAAAATTTGCAGAATCAACAAGACTCTGAACGGGCTGCCCATGCTAAAGAGATGGAAGCCTTGAGGGCTAAACTGATGAAAGTTATTAAAGAAAAGGAAAACAGTCTGGAAGCCATCAGGTCGAAACTGGACAAAGCAGAAGACCAGCATCTCGTAGAAATGGAAGACACGTTAAACAAATTACAGGAAGCTGAAATAAAGGTAAAGGAGCTAGAGGTACTGCAAGCCAAATGCAATGAACAAACCAAGGTTATTGATAATTTTACATCACAGCTCAAGGCTACTGAAGAAAAGCTCTTGGATCTTGATGCACTTCGGAAAGCCAGTTCCGAAGGTAAATCGGAAATGAAGAAACTTAGACAGCAGCTTGAGGCAGCTGAGAAACAGATTAAACATTTAGAGATTGAAAAGAATGCTGAAAGTAGCAAG
Seq A exon
GTTTGTATTGACATCCTCCATTCTTTTCTTTTCCATTTGTTATTCTTGTTTTGCATTATGTTACTTTTGAGTTGAGATCATTCATCTTCCAAATTGCTGATTTAATTAAATTGCTTGATGTCCCCAGTTGAGTATAGTGTAGTATGTTCTGAGTATCTCAAGTATGGTTTCATCTGAGGAGATTAGAGAAAATAATGGCTCAACCATGTGAATTTATTTTGGTTGCCTGTTATCTGGGTACCTGATCTATTTATCTCTGGGCTATGCTGTGACTTCTAATTTAAGCTTAGCTCCAGTCTATAATCTGTTTAAAATAAAGAATGCCCTAACACTATGGTGTTAAGATGAATGAATGAACAGAAACTCAAAAGATCGGCCAGGCGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGTGATCACCTGAGGTCAGGAGTTCGAGATCAGCCTGGCCAACATAGTGAAACCCCATCTCTACTAAAAATACAAAATTAGCCTGGCATGGTGGCGGACACCTGTAATCCCAGCTACCCAGGAGGCTGAGGCAGGAGAATCACTTGAACAACCCGGGAGGCGGAGGTTGCAGTGACCTGAGATTATTCCACTGCACTCCAGCCTGGGAGACAGAGCAAGACTCTGTCTAAAGGAAAAAAAAAAAAAAAGCTTAAAAGATCATCTCCTCCTCTTCTAACCACATATAGTCAGGTGCCACATAATGATGTTTCAATCAACAATGGACCACATAAACAAAGGCGGTTCCATAAGATTGTAATATGGTATCTTTACCTTTTGTATGTTTAAATATGCTTTGATACACAAATACTTAGCATTGTGTTACAGTTGCCTACAACATTCAGTACAGTAACATTTTATACAGGTTTATAGTATAGGAACAATAGGCTGTGCCACGTAGCCCAGGTGTGTAGTAGACTATACCTTCTAGGTGTGTGTAAGTGCACCCTGTGATGTCCCCACAACAATGAAATGCCTAATGATGCATTTCTCATAAGATATCCTGGTTCTTAAGCAATGCATGACTGTAATTGCTTATCTATAGGGTTATGTATAAAAACAGACTGAATTCAGTGCTTCTTGACTATTATAAATTAACATGTTGGCCGGGCAAGGTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCTGAGGCAGGCGGATCAGTTGAGGTCAGGAGTTTGAGTCCAGCCTGGCCCCTGTCTACTAAAAATACAAAAATTAGCCAGGTGTGGTGGTGTGCGTCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCACAAGAATTGCTTGAACCCGGGAGGTGGAGGTGGCAGTGAGCTGAGATCGTGCCACTGTACCCCATCCTGGGCGACAGAGCAAGACTCCATCTCCAAAAAACAAAAAAAAACCCATGCTGTGATAAATAACATTCACAGCAAAATTAAGGGTAAGAGCTTGGAGCCCTTTGCATGGCAGAAATCTCATTGGAGTTTTTTTCTGTGGCATAATGAGAACATGATCTGTCCCCTCCTTTTCTGGGGGAAATACTGAACAAGTGTGCATGTGGTCAAGGCTTAGGAAATTACGTGAAACATTCGCCAGCTGCATTCCTTACTAACTAGCCTTGTTAAATGTCATCTTTATCTTTAAAGGTGGTTCGAGGAATTGTTTCCCAGTCCTGCCACTAGTTGAGGCACTGGTATTGATGCTCAATGTTCTGAACTTTTTTGTGGGAGAAGCTGCTCTATTGGCAAAGAAGGAAGGGTTGTGATGGTTAAATGGGGTGAGGTGAGGACTGACAAACAGCAAAAAATTGCTAACTAACCATAGTCGAAGATGACAAACTGGTTACAGGAAATTTTTCTCAAATCTCCTCATGTGGTTCCGAAATACTAATCAAAACACAAAAATTAATTAGAAGATAATATTTAGCTAATGCTAGTTTACTTTTTAACATCAAGATTTCATGAAAGCCAAGTTCTAATGACTATTGTCCAGTGGATTTTTTTGTTTTGTTTTGTTCTGTTTTTTTGAGACAGTCTCACTCTGTTGCGCAGGCTGGAGTGCAGTGGCACAATCTCGAGTCACTGCAACCTCCACCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCCAGGATTACAGGCGCCCGCCATCATGCCTGGCTCATTTTTGTATTTTTAATAGAGAGAGGGTTTCACCATGTTGGCCAGGGTGGTCTCGAACTCCTGACCTCAAGTGATCCACTGACCTCGGCCTCCCAAAGTGCTGGGATTATAGGCTTCAGCCACTGCACCTTGCCTGTCCAGTGGATTTTTAAATTTTATTTAAATGTCAAACTACTTTAAGCATATACACAAATAGAGAAAATAATGTAGACCACATATATTCGCATCTTAAGGTTTTTGTTTTTATTTATTTATTTTTTAAGACAGAGTCTCGTTCTGTCACCCTCACTGCAGCCTCCGCCTCCCAGGCTCAAGGGATTCTCCTGCTTCAGCTTCCCCAGTAGCTGGGATCACAGGTGTGTGCCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGATTTCACCACGTTGGCCGGGCTGGTCTTGAACTCCTGACCTCAGCTGAGATCTGCTGACCTCGGCCTCCCAATGTGCTGGGATAACAGGTGTGAGCCACTGTGCCTGGCCTTAAGGTTTTTTGGTTTTGGTTTTGTTTTTTTTTTTTTTGAGACAGAGTCTCGCTCTGTGGCCCAGGCTGGAGTGCAGTGGCATGATCTCGGCTCACTGTAGCCTCCACCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCGTGCCACCACGCCTGGCTAATTTTTTATATTTTTAGTAGAGATGGGGTTTCACCATGTTGGCCAGGATGGCCTCGATCTCCTGACTTCGTGATCCGCCCACCTCTGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGTGACCAGCCAAGGTTTTTAAAGTCTAGGAAATGAAATTGCTCAAGTAGCTCATTTAGAAAGTAAGCATCCACACCTTCTGCTTTAGATCATGCTGATACTCCAAGTTACAATGAAGTATAGAAAAATAGTCTATTTTGACTATTTAAAAATAGTCTCTGGGCACAGTGGCTCATGCCTCTAATCCCAGCACTTTGAGAGTCCAAAATAAGAGGATTGCTTGGGTCTAGGAGTTTGAGACCAGCCTGGGCAGCATGGTGAGACCCCATCTCTCTTTTCTTTCTTTTTTTTTTTTTTTTGAGGCAGAGTCCCACTGTGTCACCCAGACTGGAGTGCAGTGGTCTGGTCTCGGCTCACCCAACCTCCGCCTCCCAGGCTCAAGCGATTCTTCTGCCTCAGCCTCCCAAGTAGCGGGATTACAGGAGCGTGCCACCATGCCCAGTTAATTTTTGTATTTTTAGTAGAGATAGGGTTTCACCATATTGGCCAGGCTGGTGTTGAACTCCTGACCTCAAATGATCCACTTGCCTCAGCCTCCCAAAGTGTTGGGATTACAGGCATTAGCCACCGAGCCCAGCCAGAGACCCCATCTGTAAAAAAATTTTTTAAACATTAGCTGTAGTGGCACGTGCCTGTAATCTCCGCTGCTTAGGAGGCTGGTGCTGGAAGATCACTTGAACTCAGGAGTTCTAAGGCTGCAGTGAGCCATGATCACACCACTGCACTCTAGCCTGGGTGACAGGGGAGACCCTGTGTCAGAAAGAAAGAGAAAAAAAAAAAAACACAAAAATAGCCATTAGGAAATCATATCATAGAACTGATTGTTTGAAAAGTCATTGACTTCTTAGAATTAAAAACCAACACCAAATTTGTATTCCTTTCAGTTTTGTTTTATGTTTCTCATAAGTTTTTTACATTTGTTTATTTTTTTCTTCTCATTCTCTTTTGTTTTCCTTTTGTTCATTTGCTTCTATACCATGTAACACTGTGTGTTAG
Seq C2 exon
GCTAGTAGCATTACCAGAGAGCTCCAGGGGAGAGAGCTAAAGCTTACTAACCTTCAGGAAAATTTGAGTGAAGTCAGTCAAGTGAAAGAGACTTTGGAAAAAGAACTTCAGATTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130779-CLIP1:NM_002956:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.393 A=NA C2=0.179
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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)