GgaINT1009519 @ galGal4
Intron Retention
Gene
ENSGALG00000012225 | CIRBP
Description
cold-inducible RNA-binding protein [Source:RefSeq peptide;Acc:NP_001026518]
Coordinates
chr28:2971960-2973103:+
Coord C1 exon
chr28:2971960-2972066
Coord A exon
chr28:2972067-2972964
Coord C2 exon
chr28:2972965-2973103
Length
898 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTTATCTTTCTGGTTGTTAGTCT
3' ss Score
4.8
Exon sequences
Seq C1 exon
TGGTGGTGGTGAAAGACAGAGAAACGCAGAGGTCCAGAGGCTTCGGCTTTGTGACGTTTGAAAACATAGACGATGCAAAGGATGCCATGATGGCCATGAATGGGAAG
Seq A exon
GTAAGGAGGTTCTGCAGCAGCTGGGTTTTTTTCCCCTTAAGAATTATAGAACGGCCTGGGTTGCAAAGGACCACAATGCTCATCTCATTCCAACTCTCCCCTGCTATGTGCAGGGTCGCCAACCAGCTGCCCAGAGCCACATCCAGCCTGGCCTTGAATGCCTGCAGGGATGGGGCATCCACAACCTTCTTGGGCAACCAAGAAGCAATGAGATAAGCTTGGTCGGTGTGCTTCTCTTGGAAGCCACGAAAAAAAGATAAATACTGGAATCTTCCCAAAGAAACAGCAGAAAAGGATACGGAGCAGTGAGGCTTAGTGGGATCCTGCTGTGTTACTGCATTCTGAAAAAGGCTGAAGCTATAATCATAGAATGGTTTGGGCTGGAAGGAACCTGATGGTTCATGAAGCTCCAACTCGTCTGCTGCAGGCAGGGCTGTCAACCTCCACATTGAATACGAGCCCAGGCTGCCCTGAGCCCCATCCAACCTGGCCTTGAACACCTCCAGGGATGGATGGGTCATCCACAGCCTCTCTGGGCAGCTGTTCCAGCACCTCACCACTCTCATAGGAAAGAACTTCCCCCTGACATCCAACCTAAATCTTCTTTCCTTCAACTTAAAATCATTTCCCCTTGTCCTGCTACCCTTTTGAAGAGTTGGCTCCCTTCCTGTTTAAAGACTCCCTTTAGGTACTGAAAGGCTGCAATTAGGTCACCCTGCAGCCTTCTTTTCAAGAGTGGCTTTGTAATGGCTTGGGAATGCATCTGTATGTGTAGTCAGCTCAGTTGCAGAAAGCTAGTACATGCTGGTATCGAAACTCCTGGGTTGCTTCACTGGGAGCAAAGTTGTGTGCCTCTCTGTGTAGCGTGCATGAGCTGACTTATCTTTCTGGTTGTTAG
Seq C2 exon
TCTGTAGATGGCCGTCAGATCAGAGTTGATCAAGCTGGAAAATCATCAGAGAACAGATCCCGAGGCTACAGAGGGGGATCCACTGGGGGCAGGGGCTTCTTCCGTGGGGGCAGAGGTCGGGGCCGTGGCTTCTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012225:ENSGALT00000045607:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.181 A=NA C2=0.883
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(49.3=100)
A:
NA
C2:
PF0007617=RRM_1=PD(9.9=14.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGGTGGTGAAAGACAGAG
R:
CTCTGGAGAAGCCACGGCC
Band lengths:
246-1144
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]