HsaINT0035487 @ hg19
Intron Retention
Gene
ENSG00000099622 | CIRBP
Description
cold inducible RNA binding protein [Source:HGNC Symbol;Acc:1982]
Coordinates
chr19:1271980-1273171:+
Coord C1 exon
chr19:1271980-1272050
Coord A exon
chr19:1272051-1272425
Coord C2 exon
chr19:1272426-1273171
Length
375 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
TGCCTGCTTCTTGTCCTCAGCTA
3' ss Score
8.62
Exon sequences
Seq C1 exon
CCGGAGTCAGAGTGGTGGCTACAGTGACCGGAGCTCGGGCGGGTCCTACAGAGACAGTTATGACAGTTACG
Seq A exon
GTAAGTCACACTCCGAGGGCGCCACGCTGCTGTGGCCTGCGGTGGGAGCTCGGTTCACCTTGGTGCCCTCTCCAAGCACTTTAGGCTGGACACTCAGACCTTGTCACTGTGCTTGCCCAGAAGAGGCGCATCTGTCCTCTCAGAGCCATTTCTATCGCAGGACGCAAAAGCCAAATGAGACTGACCAAAAAGGCAAGGGAGAGCGAGGGCCCGCTGGGCAGTCAGCTAGGTGCATGTGTGGCCGCAGGCCAGCCTCCCTCGGCTGTGGGGGGTGGTTGCTCCCCGGCCGCAGGCCGCGCCCTGGTCTGGCCTCTGGGGTGAAGCTGCCTCTTGTTGCTTCGGTGCCTTTACACTGTGCCTGCTTCTTGTCCTCAG
Seq C2 exon
CTACACACAACGAGTAAAAACCCTTCCTGCTCAAGATCGTCCTTCCAATGGCTGTGTGTTTAAAGATTGTGGGAGCTTCGCTGAACGTTAATGTGTAGTAAATGCACCTCCTTGTATTCCCACTTTCGTAGTCATTTCGGTTCTGATCTTGTCAAACCCAGCCTGACCGCTTCTGACGCCGGGATGGCCTCGTTACTAGACTTTTCTTTTTAAGGAAGTGCTGTTTTTTTTTGAGGGTTTTCAAAACATTTTGAAAAGCATTTACTTTTTTGACCACGAGCCATGAGTTTTCAAAAAAATCGGGGGTTGTGTGGGTTTTTGGTTTTTGTTTTAGTTTTTGGTTGCGTTGCCTTTTTTTTTTTAGTGGGGTTGGCCCCATGAAGTGGGTGCCCCACTCACTTCTCTGAGATCGAACGGACTGTGAATCCGCTCTTTGTCGGAAGCTGAGCAAGCTGTGGCTTTTTTCCAACTCCGTGTGACGTTTCTGAGTGTAGTGTGGTAGGACCCCGGCGGGTGTGGCAGCAACTGCCCTGGAGCCCCAGCCCCTGCGTCCATCTGTGCTGTGCGCCCCACAGTAGACGTGCAGACGTCCCTGAGAGGTTCTTGAAGATGTTTATTTATATTGTCCTTTTTTACTGGAAGACGTACGCATACTCCATCGATGTTGTATTTGCAGTGGCTGAGGAATTCTTGTACGCAGTTTTCTTTGGCTTTACGAAGCCGATTAAAAGACCGTGTGAAATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000099622-CIRBP:NM_001280:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.465 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGGTCCTACAGAGACAGTT
R:
CCCACACAACCCCCGATTTTT
Band lengths:
348-723
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)