HsaINT0035038 @ hg19
Intron Retention
Gene
ENSG00000128656 | CHN1
Description
chimerin (chimaerin) 1 [Source:HGNC Symbol;Acc:1943]
Coordinates
chr2:175779786-175783293:-
Coord C1 exon
chr2:175783262-175783293
Coord A exon
chr2:175779900-175783261
Coord C2 exon
chr2:175779786-175779899
Length
3362 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
GAATAGACTTTGTTTCTTAGGTT
3' ss Score
5.11
Exon sequences
Seq C1 exon
GTGGAAAACAGACCAAAGTATTATGGAAGAGA
Seq A exon
GTAAGTATGGATTATTAGAAAACGTTTTATAGATTGGCATATGTAAGACAGACAGGGTAAATGGATGCTTTTAAATGAAAGCAAGATGAAGTATTCAAGTTTGGTGGAGTTGCATTTATTTCTTAAAAATTTCAAATGTGATCTAATTGGTGAACAATATAGACAATAAAGACAAGTATAAATAAGAAAATAGCATGGGAAAATGTACATGCAATAATGTTAAGGATGCAAACCGTACAAGTAAGTAGTCTTAGATGTATATGAGGAAAATGTACATATTTGTGTTTTTGTGTACATATATATTAGGTATATAGATACGTATATACACACACATGTATGTACAGTGGGATGTGGGTGATTTATTCTATATATTTTTATTTTTCAGATTTTCTTAAATAGTATGTATTATCTTTATTATGAGAAAAATATAATAATTCATGCTACTCAGAAACAACTAATGTTAACAATTTGAAGTATTAATATCTGAAGAAATGTTTTCCTAATGGATTTGAACCAAATTGAGATATTATACATATCATTTTATAGCCTGATTGTTCCATTTAAAATTGACAATGAGCATTTTTCTGTTTTGTGAAAAATGCAATGATTTTTAAAGTCCTTAATTTTTCAGGTTATTGAAAAACAGAAATGTAGCACTTTGGGGAAAAGAATAAAAATCACTCATAATCTCATCATTCCTCAAAATTGTTTGTTTTTTCTGACTGGAGATCATATCAGATAAAAGTATACATTATAAATATTTTTAAATTATTTAAAATTCTTTATGTTTTCAAGACTTAGAAATGGATTACAGATGCACACCTATGAGTTGAGGAAAGGGTGATTTCAAAGTTAAGGTTGTATTGTAATTTATATAGTCATTCTGCTTTTGGTATAATAGATTGCTTTTAAACCATACTATTGGAAGTAACACCATATCATATGAAACATCTCAGTACGTGCGGTCTTGGGGGTTAGAAATTTTTGATCAACTTGTGCAAATAATTTTAAAATTCTTTAAATATATTGTCAAGTTTTGTTTCAGAATTTGTTTTCTTTAGTTTGATTTTCTTTTAAGTTAATTGAATTTTTTTTTTTTAAGATGGAGTTTCGCTTTTGTCGCCCAGGCTGGAGTGCAATGGTGCGATCTCGGTTCACTATAACCTCCACCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCAGGTAACTGGGATTACAGGTGCCCGCCACTATGCCTCGTTAATTTTTTGTATTTTTAGGACAGACGGGGTTTCACCATGTTGGTCAGGCTGGTCTTGAACTCTTGACCTCAGGTGATCCACCCGTCTCAGCTTCCCAAAGTGTTGGGATTATAGGCGTGAGCCACCGCACCTGGACTGCAATGAGGTTTTAAAAATTACAAAACCTCCTGGGTTCAGGCAGTTCTCCCACCTCAGCCTCCCGAGTAGCTGGGACTACAGGCAACTGCCACCACATCCAGCTAATTCTTTGTGTTTTTAGTGGAGATGGGGTTTCACCATGTTGGCCAGGCTAGTCTCTAACTCCTGACCTCAGTTGATCCACCCACCTCGGCTTTCCAAAGTGCTGGCATTACAGGCGTGAGCTACTGCGCCCAGCCAGTTAATTGAATTTTTAAACAGATAGATAACTATATTTTACCAACTGTATTATTTGATATTATGTAAAGTTAAAATATATACCAACGTGCTAAATAGCAAGGGATAGGTTACCATCTCCTTGCCTGCAGCAGATTCAAAGCATTAGCCTTTGGACCTAGTTCTCAAAGACTGGGAAATTTATGGAGATAAGAAATTCAGGAGCCCATTGTAAACCTAGCTGTCATGATTTGAACATGCCTACTGTGAACTGTTTGAAGAGTTAAATTGAGAGACTGAACCATCCCTATCAGGAAAAACTCCAGAAAATTTCCTCTTGCCCCTAGTAATGTTCCTGAATTATTAAGGTGCCATTTCAACGCCTTTTAAATGTATCATTCCAAATTCAAGTGACTATTGTTTCTTTAGTACCAGTAAAAGCTGCAAAATTTCTTTTGAGCAATGAGTCATTGCAGTTATTGTAGGGGAGGAAAGACTTTCCCTCTACCCTCCTATGTTTGAGAGCTGGGTCTATGAAATAAACAATAGGCAGATTAACAGGAGAGAAGGTATACAAATTTGTTAATTTTTAATACTACTTGCACAGGGGCATCACAGAAAAAAATAAAGTGAATCCCACTCCAAAAAGTGAGATTTGAGAGTTTGTATACCATCATAACAGGGGAATGGGAGGGAAGTTTCTGGCCATTTACGGGAAGGTAAATGATAGTTTGTGAAAGAGTTTGTATGAATGTGTTGTCGACTTTTAGTCTTCTCTCCTCCGTAAGAGTCAGTCTTCCCCGGTTGCTGAAACTCATGGGAGGACATTGGTAACAGTTGAGTTCCTTTTGGATGATCTATCTTTAGGTAGATAGGGAGAGTCAGAGAAAGCCTGTGTCTGCATTTGATGTTTTTGAAGTGCCTTTAGCTCAAAATACTCGATACAGCAAAGTGGCATATTTTGGGGTGACATGTCCTGAATTCCTTCATTATCTTTGAGTTATAGAAGGACATATAGGTTCTTTGTAAATTGTAAATCGCTATAAAAATGTGTAAGGTGGCTTTTTATTTTTAATATGTGTCACAACTGACATTTTTTTCAGTGTTTTATGCCAGATTGTTATAGGTTCATCTGTGTTTGTGTAAAGAGCATGTTATTTGTGTTTATTTTTTCTCTATTTTTCTATGTTAATCAAAGATAAGGTTTTAGCAGGGAATGAAAACAAGTATTATAGTTGTTTGCTTTGGACTTGAGTGTTCAGTAATGCAGATTATGCACATTATTGGGCAATCATGCCAATTAAGGACAACCCAGGGTCCTGGAAAATTGCCAACATAGACTCAGCCAAAATTTTGGAGCAGTGCTACTAATGGGAAGAAAGGAAAATAGGATACATTTTCTGCGTTTTTTTTTTTTTCTTTTCTTTAGCAAGCCATATGGTTAAATGGATACGTAAGAAAGGAATTGTCCTCTTGAGAGAGGTGGTTGATCTTCCCTTAGATGGATGTGAATTTTGATTCCATGGTTGTTAACTGGATTGGGTAGTACTTTGGTGCTGTTCTTATCACCACAGAGAAGCTGGCTGGGGGCCAGGTCCAGAGAAACACAAGCATAGTTAAACCCAAGTGCTTCCCTTCCATTATGTGGCAGTACTTTGTCTTGAAAACAACAAGAGAAGGTGGTGGTGGTGGGACGTTGTTTTATCTTGTTTTATTGAAAAATGTAGAAAGCACAGTTTCTGAATAGACTTTGTTTCTTAG
Seq C2 exon
GTTTCATGGCATGATCTCCAGAGAAGCAGCCGACCAGCTCTTGATTGTGGCTGAGGGGAGCTACCTCATCCGGGAGAGCCAGCGGCAGCCAGGGACCTACACTTTGGCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128656-CHN1:NM_001822:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0001719=SH2=PU(0.1=0.0)
A:
NA
C2:
PF0001719=SH2=PU(53.5=97.4)
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
- 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)