HsaINT0036370 @ hg19
Intron Retention
Gene
ENSG00000130779 | CLIP1
Description
CAP-GLY domain containing linker protein 1 [Source:HGNC Symbol;Acc:10461]
Coordinates
chr12:122831922-122837333:-
Coord C1 exon
chr12:122837273-122837333
Coord A exon
chr12:122832027-122837272
Coord C2 exon
chr12:122831922-122832026
Length
5246 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
CTCTTCCTTTTTACTAACAGACG
3' ss Score
9.19
Exon sequences
Seq C1 exon
GAAGGTTGAGGACCTTCAGTTCCGGGTTGAAGAAGAATCAATTACCAAAGGTGATCTTGAG
Seq A exon
GTAAAACCCCTCCAGCTCTCTTACAGCTTTTATGGGTATCAGTATTCAGAACACGGGCGAAATAATGCACCAATTGAAATGAGCGGCCAGAACAGCCAGCTGAGGAAGTGGCGGGGGAAGGTTCTGGGGGTGGCTTTGTGGTGACGGTGCCGGTACTTGAGCCTGTGAGTGTGTGGCCCACTTCCTAGCAGAGTGGAACTTGCACTACTTCTTTCTCATGCTTCAAAATGCAAAACCATGAATTGGATCTCATCAAGTCATAAATCTGGCAGTGTGTCCTCAATTTAAAGCAGTCCTAAGTGAGACTTAATGGTGTTCGTCTGATGATTAGAAAAGGCATTTTAAATTTTGTCATAGTAGTCCATAACAGGCCGGGTGCGGTGGTTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTAGGTGGATCACCCGAGGTCAGGAGTTCGAAACCAGCCTGGCTAACGTGGTGAGACCCCGTCTCTACTAAAAATACAAAATTAGCCGGGCGTGGTGGCGGGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCAGGAGGTGGAGGTTGCAGTGAGCCGAGATCGTGCCACTGCACTCCAGCTTGGGGGATGGGTCGAGACTTTGTCTCCAAAAAAAAAAAAAAAAGTCCACAACAAAGTTTTTTGCTTTATCTCAGCTTTGCTTTCCAGTTGAGCAGGATAAATCCTTTTATAACCCTATAAAAGGAATATGTTGTAATTGTTAATTTTTTTAAAAAAGTAATTAGCAGAGCAAAAACTAAGAACACTTTATATTTCAACTTCTTTTACTTTCATGGCATTTGTAGAATTCATGGATTTTCCTTTAGTGTCAGGTTTCTCATCCCTTTTTAACAATTTATTCATATTAGTTTTTAAATTAGACACCAGAATTAAATGGTTTTGATGGTTTCAAGCCATTGCTAGATATATGACAAATGTAAATCATTCAGTTTTTCAAATTTTCCAGATTTGTAGTTCTTTAATCTACAATATTTTAGTAAAAATTGCACTTAACTGTGCGTTTCCCAAATATGCAGTTTTGCTACAATTTTAGAGTCTGCTGGCTGCCCACACCATGCTTAAATTTGAGGGGCCCTTCCAAACAGCAACTCTGATTTCTTTGAAAATAAATGTATCTTTACAGTTAACAAAGAGCAAGGGGGGCATTTTCTGGGTTCTAGTTTTATGGGGCCCAGAATTTAATGGTTCATTAACAATTTAATAGATATCTTCTTCACTCATTTCATATACAGCCACATTCCTTTAGTCAATTTTTGTGTTGTTCTCATCCATTTAAAAACACCCCAAAGTCTCATTAGAAGTTTCATGTCATCATCTAATTCATGTGAAATATAGCCCATGGTGTCTTCAGGAGGGTCCAGTTAAAATAATTTACATCAGCACTGGGTTGTATAGTCTGTCTGATAAACTTACTTGAAATTAATCAAATAAAGTTATCTTGAAACCCTAACACATATTGAAGCTTTATTGGAATCTCTTTTTTGTTGTTGTTTAATTTTTTTTATTTTTTTACTGATAGCAAAAGAGCCAGATTTCTGAAGATCCTGAGAATGTAAGAGGGCACTTAACTGTGTGGATATTTCCCTTGTTAACAAAGATTGATCACAGATTAAAATGCTTATTGATATACTCAAACACTAACTGCATAATCTGACCTTGGGACATTGACCTTAATGTTTCTGTGCATGTGGCTTTCAAAGCAATTACATTTATATCCTGAAGAAATTGTATGTAATGACTAAGCTCCACACATTCATGTGTTTAATGAATAGGCCAACGTTTGCTTTATAAAGAATTTTGCCAGAAAGGGGGGAAAAATGTTTTTTGTCTGGAGACCTGGCCTTCTTCACCTAATTCATAATGTCTTCTAATTTTAGTGGAATTATTCCAAAAGAGATGATATCTGGCTGGAGCATAAGGCATTCTAGATGTGGAGTTGTGGGAATTCTGGGGAAGTTTCCAAGTTGTCTAATTTTGCTTCCCATGAGAGGAAAGGGGATTGTGAGGCTGGCTGCTGTCCCGGAGCTGACTGGCTGCCTTTTCAGTGTGCCCCCGCCACTGGCCAGTGCCTGCCAGTGCAGCTGATGAGACATTTAAACTTCTGTTTGTTTCTACAATATTTTCCTTAGTTGCAAAACTAGAGGCAAGCGTTTGTCAATGAAGACAATAGCATGTTTTAAATTGTTATTACCGAAGTGAGAGTTTTCTAGCTGTAGCATTACTAGGTATGCAGGTGTTTTATTTTTCTTCCTCCAAGTTCAAACACCCAGTACAAGTCCTTGCTATGTGGTCTCCAGAGCCCTGCTTCCTGGTGTACCCTGCCAGCTGTGCTGCTGGTTGTAAAGAACCTGAAAACGTTTTGCCTTGATTTACTGCCACATAAGACGGAAATTAAAGAATGACATTACTTCCTACCACCTCCTGGCAGCTGAAATAGACAACTCAAGACTAAACTTTTGGCCAGGCACTGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGTTGAGGCGGGCAGAACACCTAAGGTTAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCGAATATGGTGGCACGCACCTGTAATCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCAGGAGGCAGAGGTTGCAGTGACAGGAGATCATGCCACTGCACTCCAGCCTGGACAACAAGAACAAAACTCCATCTCAAAAAAAAACAAAAAAAACAAAAAAAACAAAAAAACACAAGACTGAATTTTTTAAAAGGTCTTCGTTCTGAAGGGTTCCTTTTTGTGAAGCTACTTCAGTGATCTGGGTCTCTTCTCTCCTTCCGAAACAGGCTCCCGCTGCCCCCGGTGTCAGTCTGCATGGGATTTCCCCCCTGCCTTTCCTGTGCGCTTCTCGCAAAGCCTTTGCTTTCCTTCTCAATCCCCTGTCCCAGGACTTTCCTCTTGGGATACTCTGTGTTCTTATTCTAAGAAAGGAATGATTTTACAAGAAGGGTTGTCCTGTTCAGTGTCACATTTTTACTGTGTGCTGTGGCATGGAAGTGGATCACTAGTTCCCTTGCTGCTGATTGATCACTCAAGGTCAGGAGTTTGAGACCAGCCAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCAGTCTCTACTGAAATACAAAAATTAGCCAGGTGTGGTGGCGCATGCCTGTAATCCCAGCTACTACGGAGGCTGAGGCACTGTAGAGTCCCAGATAATGTGTATATAGACCCATCAGTAAGGAGGCGTTGGCTACGCTTATCTGAAAGATCTCTGAATGGGGAGGAGATCACATTAAATGTGTATTTGCTTTTTATCTGGAAATAGTGACCTTTTACCCAGAGGACACTTAACTGTGTCAAGAGAAGAAAGGTTCTATTGCCTTTTCTTTTTCCTACTACTGTAGTTTTGGATTTCAGCTCCTGAGGCTGTGACCCCAATTATGTAGATAAGGATTAGATTCTTTTCTTATAAAAGCAGGGAAATTGAACAGTGTCCATCCAAGGCACATACAGACCAAGGGGATTATCCAGACAGTTAGGGCTTGAATTGTATTTCATTATTTTTGTGGAGTATACAGAGCTGAAGCAGGTGATGAATTAAAAAAAATTTTTTTGTTCACCTTTTAAATATCTCATCATGGTTTGTCGATACCTGGTTTACAAGCAAAGTGACCTCTTGAATGTATTGAGGTCCCCGAGTCCCACTGGAATGAGTGAAGACGTTTGCAATCTTCACTTTTACATTCCCCCCTCTACTGAAGCTCTGCACTTTGTGTCACTTTGTTTAGAGTCTGTTGTCATTTTTTCATTGCCCATAATTGTCCAGACTGATAGGTCAATTAGTACCACAAAGTATTTAAATTACTGCACGTAACTGACAGTTGCTGAGAGCAGCCCTGCGGGTGTGGGCCTTGTCAGTCACTGATTCTGATAACTGATAACCTCTTGTGTAAGAGAGGTGGGGGTGGGAAGAGGTACATTTGGACCTAGATTATTTCAAATTAAGATTCTGCTGCACTTAAACCTGTTAGAGATTATCCTCTGGGTTCCCTATCAGGCTACATCCAAGTGCGTAATGGTGGGGAGAGCAGAGTATCTGAGATCACAGGTTTTGAATCACCTTAGGAACCCACCAGCTCTTTTTGAGAGAGCTCAAACTCATGCCTTTGTGTTGAGTTGCGTTTTTATGTCTGAGCTAATAAAAACAACTTCATCTTAAGGTAAAAATAATAAACCCCTTACCAGTTTGAGGTAAACTTTCCTCCTCTCTTGAGCCTCTCAATTGGACTCCTTCAGAGATGGAGACTATAGAGGATAATTATTACTAAATTTTCTCTTTGTAATTCTGAGTCCTTTTTTCCCTCCCTGGAGCCCAATAGCCTTTGGGACATCCACTGCTGGAAGGAAACTAGAGCTTCCATGGCCTCTTCCCCATCACATGTAGGAATGTTGCTAAGACTCTTAACTCAGACCCTTCTCACCCATTTCTGCAGAGGCTGCTAGCATGATTTCTTAGCTCTAGTTGGAGCTAGAGAAGGAATAGATTCCTTCTACTGAGGTTTTTATTTGACCCTTATTTACGTCAAGTTATATGCTAAGGTGCAAGAATCTGCTCTAAGGACTTATTGAACAGTTTAAGATTTATAATACCTTTGCCATATTTAGGTGATAGTGACCATCATTCTGAGGGTCAATATACCTTGTGAAGTTATCGAGTCAGTTACATACACATTAATGTCAAGTAGCCTTTGTGGGGCGGAGGGATAATGATAGTTTAGAGGGAGGGATATTAACTATTCTAATTGGTGCTGATAAACTTCACTTATCAATATTACTTATATTTGGCTGCATGCCTCTGACACTTCATCTGGCCTCATGTGTTTTCCATTTTTTCTTTCTGAACAGACTAGCCCATGCCCCCTGCCCACCACCATCCTTTGTCCCTGGTATTCATCCTCACTGCCCACCTCATCTCACCTCCACCTCTTCCCTTCTCCATTCCCCTTTGGTTCACCCTTTGGCAGAAGGTACTGGTGGCTCAGCCTGCATGCCGCTGTCTCTCCTCTCGTGCTGGCATGTCATGGTGGCACTGTTGTGTTCTCTTCCTCTTCCTTTTTACTAACAG
Seq C2 exon
ACGCAGACCAAACTGGAGCATGCCCGCATTAAGGAGCTTGAACAGAGCCTGCTCTTTGAAAAGACCAAAGCTGACAAACTCCAGAGGGAGTTAGAAGACACTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130779-CLIP1:NM_002956:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.259 A=NA C2=0.349
Domain overlap (PFAM):
C1:
PF058526=DUF848=FE(17.7=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
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
- 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)