HsaINT0042479 @ hg19
Intron Retention
Gene
ENSG00000144655 | CSRNP1
Description
cysteine-serine-rich nuclear protein 1 [Source:HGNC Symbol;Acc:14300]
Coordinates
chr3:39183342-39185942:-
Coord C1 exon
chr3:39185628-39185942
Coord A exon
chr3:39185536-39185627
Coord C2 exon
chr3:39183342-39185535
Length
92 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGG
5' ss Score
6.34
3' ss Seq
ACCTCTACTTTTCTCTGCAGATG
3' ss Score
12.31
Exon sequences
Seq C1 exon
CTTTCGGCAGCTGGGGTACCCCAGGCAGAGGCAGGGCTGCCACCTGTGGTGGATGCCATTGATGACGCCTCTGTGGAGGAGGACTTGGCAGTCGCTGTGGCAGGTGGCCGGTTGGAAGAAGTGAGCTTCCTACAGCCCTACCCAGCCCGGCGACGTCGAGCTCTGCTGAGGGCTTCAGGTGTGCGAAGGATCGATCGGGAGGAGAAGCGGGAGCTGCAGGCACTGCGCCAATCCCGGGAGGATTGTGGCTGTCACTGCGATAGGATCTGCGACCCTGAGACCTGCAGCTGCAGCCTGGCAGGCATCAAGTGCCAG
Seq A exon
GTGTGGTGGCTGGACTGGGATGGGGATCCTGAGCGTGGGGACTTCTTTGCACTCCACAGAACCCTCACTTGTACCTCTACTTTTCTCTGCAG
Seq C2 exon
ATGGACCACACAGCATTCCCCTGTGGCTGCTGCAGGGAGGGCTGTGAGAACCCCATGGGCCGTGTGGAATTTAATCAGGCAAGAGTTCAGACCCATTTCATCCACACACTCACCCGCCTGCAGTTGGAACAGGAGGCTGAGAGCTTTAGGGAGCTGGAGGCCCCTGCCCAGGGCAGCCCACCCAGCCCTGGTGAGGAGGCCCTGGTCCCTACTTTCCCACTGGCCAAGCCCCCCATGAACAATGAGCTGGGAGACAACAGCTGCAGCAGCGACATGACTGATTCTTCTACAGCATCTTCATCAGCATCGGGCACTAGTGAGGCTCCTGACTGCCCCACCCACCCAGGCCTGCCTGGCCCTGGCTTCCAGCCTGGCGTTGATGATGACAGCCTGGCACGCATCTTGAGTTTCAGTGACTCTGACTTCGGTGGGGAGGAGGAGGAAGAGGAGGAAGGGAGCGTGGGGAACCTGGACAACCTCAGCTGCTTCCATCCAGCTGACATCTTTGGTACTAGTGACCCTGGTGGCCTGGCCAGCTGGACCCACAGCTATTCTGGCTGTAGCTTCACATCAGGCGTCCTGGATGAGAATGCCAACCTGGATGCCAGCTGCTTCCTAAATGGTGGCCTTGAAGGGTCAAGGGAAGGCAGCCTTCCTGGCACCTCAGTGCCACCCAGCATGGACGCTGGCCGGAGTAGCTCAGTGGATCTCAGCTTGTCTTCTTGTGACTCCTTTGAGTTACTCCAGGCTCTGCCAGATTATAGTCTGGGGCCTCACTACACATCACAGAAGGTGTCTGACAGCCTGGACAACATCGAGGCACCTCACTTCCCCCTGCCTGGCCTGTCTCCACCTGGGGATGCCAGCAGTTGCTTCCTGGAGTCCCTCATGGGCTTCTCCGAGCCAGCCGCCGAAGCCCTAGATCCCTTTATTGACAGCCAGTTTGAGGACACTGTCCCAGCATCTCTAATGGAGCCTGTGCCGGTGTGAGGACCAGGATGTCTTTTCCCAGCCCCAAGAGACCTGTTGCTGCTTTCTTGTAATTATGGGGCTCCCCAGAGTCTGCGTAACAGTCTCCCACTGGCTGGCTCACCCACAGGTGCCATGTGCACACTCCTGGTTTTCAAACAATTCTCTGGATTTATTTATTTGTTTTAACTTTTCTGTGCTGAAGAGAGGACTGGGGGGAGGGGGCTTCCCCTTTCAGCTGCCCGGCCCCCCACACCCACAGCTTGCTCTTCTATCTCCACAACGTGAGCCTGGAAGAGGAGAAAATGTGGCTCCTCTGGAGCTTGGCAGACCACTTTTCGGTCTTTGCGTGATGTTCCTTAGCCCAAAGACGGTGAGACAGGGCTGAAATCAGGTGGCTTCTGCCACCCTGAGCCCTAGACCCATGGGTGGCTAAATCCACTGGACTGTGAAGACTATAATTTATTTCCATAATTTATTTGGAGATTGAGGAGGCTTTGGTTGCACTTCTTTGGCTGGTGGGTAATGCCAGGGGTGGGGTGGGCACAGGCCCTCAAGAGCCCCTTTTGCCTTGTAGTCCTACACCTTGCCCTGCCTGGGCTTTGGTGCAGACTAGGTGTGGATTTGAGCTCTGTGATCTATGTCTGCTGCCTGGCTCCTAGATGGCTCTGTGGGCAGGTGCTGGCCAAGGACATCATCTAGGCAGGGGGAGAGCCTGGGCTGAACAGCTGTGACCAAAACTCCCTTCTGCCCCACCCTGCCCCCTCCACTTCCTGCCCTCTGTTCCATCTTCCCCCTTCCCAAAGGCCACAGCCTTTATTCCAGGCCCAGGGATGTAGGAGGGGGAAGGAGGAAACAGGAAGCCCAGAGAGGGCAAAGGGCCTACCTCGGGGCGCGAACCATGCCCCAGACTATTATCTCAGGGCTTTCTGGGCACTGCACTTCAGCGTGGCCCACCTGCCCATGCCCTGAGGCCAGTTGGCGAGGGGTGGCTCCTGAGGGTTTTTATACCCTTTGTTTGCTAATGTTTAATTTTGCATCATAATTTCTACATTGTCCCTGAGTGTCAGAACTATAATTTATTCCATTTCTCTCTGTGTCTGTGCCAAGAAACGCAGGCTCTGGGCCTGCCCCTTGCCCAGGAGGCCTTGCCAGCCTGTGTGCTTGTGGGAACACCTTGTACCTGAGCTTACAGGTACCAATAAAGAGGCTTTATTTTTAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144655-CSRNP1:NM_033027:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.474
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGATTGTGGCTGTCACTG
R:
TGGGTCTGAACTCTTGCCTGA
Band lengths:
174-266
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)