HsaINT0035488 @ hg19
Intron Retention
Gene
ENSG00000099622 | CIRBP
Description
cold inducible RNA binding protein [Source:HGNC Symbol;Acc:1982]
Coordinates
chr19:1269267-1271035:+
Coord C1 exon
chr19:1269267-1269409
Coord A exon
chr19:1269410-1270865
Coord C2 exon
chr19:1270866-1271035
Length
1456 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
ATGTCATTTACATAAAATAGGAA
3' ss Score
4.14
Exon sequences
Seq C1 exon
AGGATGTGTAGGGGGCGGGGCCCGGCGGAAGCGTATATAAGGCCGGGCTCGGGGACGCCCCCCCCTCACTCGCGCGTTAGGAGGCTCGGGTCGTTGTGGTGCGCTGTCTTCCCGCTTGCGTCAGGGACCTGCCCGACTCAGTG
Seq A exon
GTGAGGGCCCTGGCTGCACCGGCTCCGAGGAGCTCGGGGCGGCGGGCGGCCTGCGGCGGCCAGGCGAGGCGGGGCCGCAGCGGCACGCCCCTGGGAGGGGGCGGGCCCGGGGTGGAGTCCGCCCCGCCGGCGGCGAGGGACAGCGGGAGATTGGGCCGAGTAGCGGCCAGAGGGCCTCTCCCCGCCGGTCCGGGCCGCCGGCGACCCGGTTGCCGCCGCAAAATGGCGGCCGCGAGCTCGAGGCTGTGCCCAGCGAAATGGCGGGAGCGCCGAGTTCCCGGATGGAGTGGCGCAGGGTGCGCGCGGGGCGCATGCGCACGCGGCGGGGGCGGGGCCACGTGGCGCCCCCGGTCTCCAGGGCCGCTTTCCCGGCCTTGGGGCTGGAGGTATCCACACACCAACGCTTTTGCTTACCGAGCCTTAGTTTCCTCCTTTTCCCATTGCGATTGCATGAGGGAAAGGACGGCCTCGTAAATCTTGGGTAGGCGTGGCCCGTTCTAGTGTGGTTCCTCGTCTGCCACGTCGTGCTTTGCGCCCAAAGTTTGGTCCAAGTTGGCACAGCTCCCAGTGCCAGACTTCCAAGTCTAGTTCTCAGAGCCACTGGGTGGCGGCCATTCCCAGCCAGTGAATGCTTTGTCTGTGTCAGCACTGACCGCCCCCTTAAATAGCCAGTTCTCCTAAATGCCACTTCCCCTGCCTGGAAATCCTGCCTTATCACTTCCGGGGCCATCCCTTCCCGATTCCCGGCCTAGGTCCTGGCTATGGAAGTCAGTACCTGCCCTGAGGTGCCCCCCAGGACGGGGCGGCCTCCCTGACAGCCAGCCCCCCCCCCAGTCTCAGGAGGCATTTTACAGTGAGCAGAAGCACGTTCTGGTCCAGCAACAAGTAGATGTCAGTTGGTTAGGGTAGGAGTTGGCACCCGTTCGGAAATAGGAGAACCTGAGAGTGCAGTCCTGCCCAGGGCACAACTGGAAGGCTGTGGGGGAAGGGAGACACCCATTGTGGAAATGGGTGCGGCCTGCCTTCAGTCTTGGGGGTGGATGGAGTAAATTATTTGAATTAAGAAGTCCTAGGTGGCTGGGTGCGGTGGCTCACACCTGTAATCCCAAAACTTTGGGTGGCCAAGGTGGGAGGATTGCTTGAGCCCAGGAGTTTCAGACCAGCCTGGGCAACAGAGCAAGACCCCATCTCTACTAAAACAAATTTAAAAAAATTATCCAGGCGTGGTGGTGTACACCTACAGTCCCAGTTTCTTGGGAGGCTGAGGTAGGAGGATTGCTTGAGCCCAGGAGGTGGAGGCTGCAGTGACCCCTGCACTCCAGTCTGGGTGACAGTTAGACACACTGCCCCCGACCCCAAAAAAATAAGTCCTAGGTATGAGTTTGAGATAATGAAAAATAAAAATCTGATTTTCTAATATTTCCCCTAAAAAACACATGTCATTTACATAAAATAG
Seq C2 exon
GAAGCGGGGAGAGGTGGTGAGAGATGACCCCTGTTGAGGATTTCATTGGTGTCTGCCACAGGCCGCCATGGCATCAGATGAAGGCAAACTTTTTGTTGGAGGGCTGAGTTTTGACACCAATGAGCAGTCGCTGGAGCAGGTCTTCTCAAAGTACGGACAGATCTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000099622-CIRBP:NR_023312:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.139
Domain overlap (PFAM):
C1:
NA
A:
PF0007617=RRM_1=PU(38.0=77.1)
C2:
PF0007617=RRM_1=PU(38.0=77.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
ENSP00000322887, ENSP00000407512, ENSP00000412831, ENSP00000464728, ENSP00000464830, ENSP00000464906, ENSP00000465077, ENSP00000465114, ENSP00000465334, ENSP00000465338, ENSP00000465558, ENSP00000465779, ENSP00000466025, ENSP00000466207, ENSP00000466216, ENSP00000466712, ENSP00000466897, ENSP00000467028, ENSP00000467138, ENSP00000467307, ENSP00000467449, ENSP00000467734, ENSP00000467791, ENSP00000467848, ENSP00000467876, ENSP00000467948, ENSP00000468016, ENSP00000468097, ENSP00000468224, ENSP00000468229, ENSP00000468645, ENSP00000468788
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGATGTGTAGGGGGCGG
R:
TCAGAGATCTGTCCGTACTTTGAGA
Band lengths:
311-1767
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)