GgaINT1009518 @ galGal4
Intron Retention
Gene
ENSGALG00000012225 | CIRBP
Description
cold-inducible RNA-binding protein [Source:RefSeq peptide;Acc:NP_001026518]
Coordinates
chr28:2970822-2972066:+
Coord C1 exon
chr28:2970822-2971862
Coord A exon
chr28:2971863-2971959
Coord C2 exon
chr28:2971960-2972066
Length
97 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GCGGCTGTTCTCTCCTCCAGTGG
3' ss Score
8.9
Exon sequences
Seq C1 exon
GGTGCTCCGCTGCTGCTCTGCTCCTCGTGCTCGAAGGCCGCCTTTAAGTGCCTTATTCTGCCTTTTCCCCCTTTTTAAACCTTTTTCCAATTATCCGAACGATCGGAGTTCAAAAGAAGGAACTGCCGGTGCTTTGGGGGGGAGGGGGTGTAGCGATTCCTTCCTCGCACCGCTGACGGTTCCGTGCGTTCCTGGAGGCGATATTAAACGCGAAACGGGGAGAGTGAAGAAAGCTTTGCTGATGGAAATGAGAGCGGCCCGTGGCGTAACACCGCGCGTTATCGGAACGACCCGACGTTCCTCAATGGGGCGCTTCAACGCCACGGGAATCACCGCGGGCTCCAAAGGGGCCCTTCGCTTGGAGGCAGTAACGATATAACGGTCCGCCGTTGGGTTCGGGCGGCCACAGCTGACGGCACAGCAGCCCCCGACCCCCCCCCACCCCTCCTAGGGGGGCTCAGCGGGCAGCAACCCGCGGGGCCGCCCCACATCGGGGTCGGAATGGCTCTCATTTCCCCGACGGGACGGCAGATGGGACCGGGATGGGGGGCAGCGCGGCCACGGGGAGCGCAGCGCGGGGTTCGGTTGGGCGCTGAGCGGCGCTCCGGGGGTGCGGAGGGGCTCTCGGTGCGGAGCGGCGGAACGGCGCAACCCCGGAACGCCGCGCTCAGCTCCGCCCGCGCCCGGCCCCGCTCTGCGCGCACCTTCCTGCGCCGGGACCGCCGCTCCGTGCCGGCCATGCTGCGCCCGCAGCCCCTCTGCGTTCTGCTGCTGCTGCTGCACGGCGGCCGCGCCGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCGGAGCTGCTGACCGAAGGCTGGTTGACTTGGCAGGTCACGATGGCATCGGATGAGGGCAAGCTGTTCGTCGGAGGGCTGAGCTTTGACACCAACGAGCAGTCGCTGGAGCAGGTCTTCTCCAAATACGGGCAGATCTCGGAAG
Seq A exon
GTGAGGGCACGGCGCGGGGCTGCAGGGCTGTGCTGGGCTGTGTAGGGCTGTGCTGGGCTGTGCTGCAGCGGCTGACGGCGGCTGTTCTCTCCTCCAG
Seq C2 exon
TGGTGGTGGTGAAAGACAGAGAAACGCAGAGGTCCAGAGGCTTCGGCTTTGTGACGTTTGAAAACATAGACGATGCAAAGGATGCCATGATGGCCATGAATGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012225:ENSGALT00000045607:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.181
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(38.0=77.1)
A:
NA
C2:
PF0007617=RRM_1=FE(49.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGACTTGGCAGGTCACGAT
R:
CAAACGTCACAAAGCCGAAGC
Band lengths:
182-279
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]