HsaINT0035538 @ hg19
Intron Retention
Gene
ENSG00000122966 | CIT
Description
citron (rho-interacting, serine/threonine kinase 21) [Source:HGNC Symbol;Acc:1985]
Coordinates
chr12:120156504-120158390:-
Coord C1 exon
chr12:120158283-120158390
Coord A exon
chr12:120156667-120158282
Coord C2 exon
chr12:120156504-120156666
Length
1616 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ATCTCTGTTTCCATTGCTAGGGT
3' ss Score
9.02
Exon sequences
Seq C1 exon
GTTCTCTATTCTCATGAAAAGGTGAAAATGGAAGGCACTATTTCTCAACAAACCAAACTCATTGATTTTCTGCAAGCCAAAATGGACCAACCTGCTAAAAAGAAAAAG
Seq A exon
GTGAGTCAAAGTGTTTGAAAAGTGGGAATTGTCAGTTTCACTCATCATTCATGGCTCAGTGGACACCACTGTGATATATGATCATAGGAACATAGAAGAAAACAAAGTATACTTTTTTTGTTGTTTTATTTTGGGTTGAAAAATAGATTTTGAGATAATTATAATAGGTCTTACTGAAAGATATCAGTGATCAAGTCTAACAAACTACTTTTTGTTTATGACCATTCAAATCATAGTATCTTTGTTAAAGAAGTAATCCCTCCCCAGCCCACACACATAGCAGTTGGGGCAGAGGGATGTATGCAGAGAGAAAGATTTATACCAAGTCATGCATACATGACTCTAGAGGGAGTTAGCAAGTCACAAGTATGGGGCTTCAGCAGTTCAGGTCTCTCGTACCACACTCCAGAAAGGACTTTAACAGTGATCTAGTCCAGTCCTTTTGATCGGCTCACAAAGAGACTAGAACTCAGGGAGCTGGGGTGACCTGCCTGAAGTGTCTGACTGGACACTTCTCCCCTCTGCCAAGTACTGAACAACCCTTTTAGATTGCAGGAGACAAATTACAAACTAGGGGCAGGGTTATACATAGTGCACATGAGAAGATTGTTTTTCATAAGCCTGATCTATACATGCTTTCCCAAACCACTAAAGCCTTCATACTAGGTTTGGCCAGGTGTTCTCAGTTCCAGAAAAGTCTTGAAGAAGCTTGCAGTTTCCTTCCAAATGCAGAAGCATACCATAGCAGCAGTGGCAGTGGTTTTGCAGGAGAGGCCTTGATGACTTGGAATACCTAGGAGGAAGGAGTGGAGGGCTGAAGTTGACAGTTGTCTCAATATTTCCGGTGCCATCTTCGCTGTAAGGGCATGAGCACAACATTCAGAGGCCGCCTCCCACTAGACGTTGGCTGCACGGGAAGGATTTTCTTGCATGCTGCGTGACTGTATATGGTTGTTATGCTTATGATATTTAATCTTTTTTATTTTAGCAGTGAACTGTTACCTGGTTATGTCACTTGATTTAGTTAGGGTGTTTCCATTTGTTATTTTTTTTAGTTACCTTTTTTTTAAGTTGCATTATTCTGTTTTCCTTTTTTTTCCATGTATAGTAAATATTTTCATTTGCATTTTTTTTTGAGTAAGCCCCTTGTTTTGACCTCATTTTAGCATTCCTTTTAAAATTTTGCTTCCTTTTACAAAACACTCATCTCTGTGTCTTGTAACTGAGCATCATGAGACATATTCCAAGGCAAGAGTGACCTCTGAACCATCTCTCCTGACTCCATACTCCATACTCTCCTGATTCCATTTTTTGAATGGGAAAGACTCAGGACATGACTCTCCTGTCTTGGCAATGCTAGAGGAAGAGGTGGTGGCCATTCAAGCATCTTTAATCCTCTTGGTGAAAACTTCCGCACCCCTATTTTTTTCAGCCGGCTGGAACGGGCTGTGGCTCAGCCTACCCTTCCCCCCCTTCACATGCCATTTTTACTAAATACACTTACAGTGAGTATGCTCCTGGCTTTTGTGGTTTGCTCCTCCCGAGTCAGATTTCCTTTAGCTAGTTTCAAGTGCCAGTTTCCAGGAGTTAGGAGATATCTCTGTTTCCATTGCTAG
Seq C2 exon
GGTTTATTTAGTCGACGGAAAGAGGACCCTGCTTTACCCACACAGGTTCCTCTGCAGTACAATGAGCTGAAGCTGGCCCTGGAGAAGGAGAAAGCTCGCTGTGCAGAGCTAGAGGAAGCCCTTCAGAAGACCCGCATCGAGCTCCGGTCCGCCCGGGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122966-CIT:NM_007174:29
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.527
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTCTATTCTCATGAAAAGGTGAA
R:
CGGACCGGAGCTCGATGC
Band lengths:
259-1875
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)