HsaINT0035520 @ hg19
Intron Retention
Gene
ENSG00000122966 | CIT
Description
citron (rho-interacting, serine/threonine kinase 21) [Source:HGNC Symbol;Acc:1985]
Coordinates
chr12:120220322-120221855:-
Coord C1 exon
chr12:120221712-120221855
Coord A exon
chr12:120220442-120221711
Coord C2 exon
chr12:120220322-120220441
Length
1270 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGC
5' ss Score
3.73
3' ss Seq
AAAATTTTTGCTTTCTGCAGAGC
3' ss Score
8.26
Exon sequences
Seq C1 exon
ATGGAGCAGGAAATGACCCGGTTACATCGGAGAGTGTCAGAGGTGGAGGCTGTGCTTAGTCAGAAGGAGGTGGAGCTGAAGGCCTCTGAGACTCAGAGATCCCTCCTGGAGCAGGACCTTGCTACCTACATCACAGAATGCAGT
Seq A exon
GTGAGCCTTCCCTGAAGCCCCCTTCCCTTGGAGGTGGCACTTCCTGTTGTGTGTGTCTCATCCTGTTTCATGATGGCTCCATGAGGCACATCACAGCCAATGGCAGAGAGTAGAGAGAGGGAGAGCACAAAAGCAAGATCTGTGTTTTGCAGAGTAGTGAGAGCCAGGCGTAAGGTCCCCAAGAAATGAGATTGGACTCATTTCCAGCAGAAAGTGCAGGTAGACGGCTGGTACCATGGAGTCTGGAGATGGGAGTAATCCATCTTTGCCGCAAGTTGCAAAAGATCTTAACATCTCCCATCCCAGCCTCTGTGGTCTGCGTTGTGTCTGACATGAGCAGCCTTGAGAACCAGACTCCCAACTATGTACAAGAAAACTTACTTTCAATCTTCCTGACATCAAATTTTCCATTGGCCAGAACCAGTGTAGTGACAAGAAAATAGCCTTGAAAACCCAGACCCTCTGTCATTATTTACCATGTGACTTTCATTTTTTCTTTCCTTCACAAGAGTAGACTGTCTTCTTCTCCATTGTCTTGTTAAATTTTTCATTCAGGTGTTTTTTAATGTGCCCAATTAAACAGTCTCAAGAAGTTGAATCACACATTTCTAAAGTTTTTTTCACAAGGGAGAGGAAATCTATAGAACGTGGCTGATTAAGAATAACTGCTATGTTTCCATTCCAGACTTGGCTGCCTTTCAGTGGTGGGTGAAGTTATTCAGCTATGTATTTCAGATATAGATTTCAGTGCCATTGAAGCATTAAGGGATTCTTATGGATGAAAGGTGTCCAGGAAAAATAAGCCAGGAGGTAGAAATAGACCACTTGGAGTCTTAAATGACAACTGGGCAGAGGATATGAAGTCATTGCTACTTTGAAAGAGGCATATGTACTTTAGGGCCCACAAATAACTGTAGAAAACACTTTGTAGCTATCCACATGGTGGCTGTAATAGCTACTGGGTCTTAATAGGTTTTAGTCCTGAACATGCAAGTAAGTATCTCCTAGGACAGGTAGATGGTGGCAGGAGACAGGCTGATGCAGTTTCCGGCTGGATCCCTAAGGTCACCAGGTTGAGATGATGTTTCTTGAACCAAGGGGTTTTACAGGATGGAAACCGGAGTCGGCAACCAACTGGAAGTTGTGAACTGTGGTCCGTCACTCGAAACTGTCCTGGTGTCTGCGAAGCAGCTTGCAGCTCTCTTAATGAGTCTTTTCAAACAAAGCAGGATCCACAGGGCATCCCTATTAAAATTTTTGCTTTCTGCAG
Seq C2 exon
AGCTTAAAGCGAAGTTTGGAGCAAGCACGGATGGAGGTGTCCCAGGAGGATGACAAAGCACTGCAGCTTCTCCATGATATCAGAGAGCAGAGCCGGAAGCTCCAAGAAATCAAAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122966-CIT:NM_007174:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.375
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:
ATGGAGCAGGAAATGACCCGG
R:
GCTCTTTGATTTCTTGGAGCTTCC
Band lengths:
262-1532
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)