GgaINT1009522 @ galGal4
Intron Retention
Gene
ENSGALG00000012225 | CIRBP
Description
cold-inducible RNA-binding protein [Source:RefSeq peptide;Acc:NP_001026518]
Coordinates
chr28:2973403-2975230:+
Coord C1 exon
chr28:2973403-2973467
Coord A exon
chr28:2973468-2973884
Coord C2 exon
chr28:2973885-2975230
Length
417 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
GAGTCAAGGTGGCTATGGAGACAGGTCTTCAGGAGGGTCCTACAGAGACAGCTACGACAGTTACG
Seq A exon
GTAAGTCCTGGTTCAAATGGGAGCGATGCGTACGTTGCTGTAGGAACTCTCTAAACCTTCTGACCCTGTTGTGAAGGCTGGAAATGCTCTGAGGCTCAGCTTTGGACTGTGCCCCTTTCTGTTCTCGCCCGTAAGAACCAATCCGTCAGGCTTTGGATGTGGTTGTGCCGTTTAAAATTTCTAATTTGTAATGCATGTGTAGGAGTTGCTTGGATCTAAAGGCAAAGCAAGTTTTAAATACGTTCTTGGAGCTTGAGACTAAGCCAAAACTCGGAAGCCCTAACAAACTGGATTCAAGGGTGGGGGAGTTCTCTGACACGGTAGCGCAGTAGCTTCTGGAATAATGCAAGGGAGTAAAATGCTGGAACTTGTCTATGCTTCAGTGCCTTTACAATTGTGCCTGCTTCTTGTCCTCAG
Seq C2 exon
CTACACACAACGAGTAAAAATCCTTCCTGACTCAAGATCGTCCTTCCAATGGCTGTATTTATAAAGATTTTTGGAGCTTCGCTGAAATCGTTATTGTGTAGTACATCTACTTGTATTCTCACTTTTGTAGTATTATCAGTTCTAATCTTGTCAAACACAGCCTGACAGCTTCTGACACGAGATGGTCTGATGAGACTTTTCTTTAGGAAAGCTCTGCTTTCGAGTGTTTTTAATCTTTTTTTTTTTTGTAAAGCACTTCAGATTTCGTTTCACACTTCATGGTGAGCCAAGGTGTTGTTTTTTCTTTTCCTTTTTTTTTTTTAAAGTCGTGAATTGGGGCCCCAATTCAGTTCCTTTTGAGATAGAAAGGACCTTTAATTCAACGTTCACGAGAAGCTGAACAAGCTGTGGACTTTTTTTTAAGTGCATTACCTTCGTCTTTTGTAACATTCCTTTAGTGTAGCAAGGTAGGAATGCAGCCTGGGTACAAATTGGAAGGCAAACCACCTTGATATATCTAAAGAGAAACTTGCTTGTATGTTCAACCTGCATAACGGTATTTTTACTGTTGTAATGATGTAAATTACCCAGAAATAGACTTGCAAACTTACCATAAAAGAGGTTCTTGAAAATGTTTATTTATATTGTCCTTTTTTACTGGAAGAAATATGCATATTCCATTGATATTGTATTTGAAGTGGTAAAGGATTCTTGTATACAGTTTTCTTTGGCTTTACGAAGCCTATTAAAAGACCGTCTGAAATGAACTCTGCTCCTGACATTGACATTTCATTGCACAACACAGTCCTTGAAGACGAACAGTGTGTGTAGAAGATGCCAGAGGAGAGGAGAAGACTAGCAGTAGTGTAAGAGCAAAGCAGATTGTACCGAACAGTTGCTAGAACTTAATCTGAACCCGCTCTTGACATGTGAATTTACCAACAGTGCTTTCACATAAGAACAGTGCGACTGGTCTCTAGAGGCAAAGCACTGGCAGCACATTGTGTGCCTTTGGGTGTTGGAATGCTTGGTGACAGCTGAGGGAATGCCAGCGTTAGTGAGGGGAAGTGATGTTTCCTTATAATGCTGAAGTATCCTGCGTTGAAAAGCTGTAGTGAAGAATTAGTCCTTTGGTAACTGGAGTGGTTACTGGAGTGTTAATGGTAGGTAAATTGCCGTAATTAGCTAGCTTTGTCATTGCCTTACAAGTTCTAAGAATTCTTTGCTAGCATATGGAAACTGCAGTGTCCTTGGAGAAAAGAAGTGTTGTGCCTCCAACAGAAACCTCTGAGACGAAAGCTGCTCTCTTGGCTAGTTCATATGTGGAAATAGTCCTGTAATTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012225:ENSGALT00000045607:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.670 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGCTATGGAGACAGGTCT
R:
TGGCTCACCATGAAGTGTGAA
Band lengths:
347-764
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]