DreINT0047003 @ danRer10
Intron Retention
Gene
ENSDARG00000103672 | cirbpa
Description
cold inducible RNA binding protein a [Source:ZFIN;Acc:ZDB-GENE-050417-329]
Coordinates
chr2:58659934-58662360:+
Coord C1 exon
chr2:58659934-58659989
Coord A exon
chr2:58659990-58661673
Coord C2 exon
chr2:58661674-58662360
Length
1684 bp
Sequences
Splice sites
5' ss Seq
ATGGTACGT
5' ss Score
9.89
3' ss Seq
GTGTGATACTTCCTCCTCAGCTG
3' ss Score
5.94
Exon sequences
Seq C1 exon
AGGTTCTGGTTACGGTGATCGAAGCAGCTCGTACAAAGATGGCTATGATAGCTATG
Seq A exon
GTACGTATTAGCCTCCGCTCTACAGTCCCCATACAAGCATGACTGCCGTAGACTGGACAAACAGGCTTTACCTGACCTCCCATATCCATAGTCACCAGCTCATCTGCTTCTGTTAATCAATTCAGTTAATCCAAGAGTCGCCCTTTGAGTTGTACCGTACATCTAGTCTTTTTGCTGGAGTAGAGATTTGCTGAGTTGGAGGACCAAACGCATGACTGTGTGCTGACGGCATGTTCCGTGTGCATCTTCACCACAGTTAGGCTTTTTGTTTTTCCCCAATTTAAGTGCTAAAGCTTTTAATCATGGTGTATTGTGTAGTCACAATATTCTCTGAAGCTGCACAATACTTAATGACCAATGTTCAGTGTAGTTTGTTTTATTTTATATGCAGGTTCATGGCACATGTTTTAAATTAAGTTGCCAAAGTCTCATTTGTAAACGATGCGTGCATTCAAATCAACAGGGACACAAATTGCAATGGCTGTTTATTTTATTCATGTAGTGAAACCATTAACTTAATTTGAATGCATTCAGCATTAAAGGGATGGTTCACTCAAAGAGATTTTTACTCGGCCTTTACCTGTTCAGGCCTTTACGTTTCCTGTGATAAAGAATATTTTGAAAGCTTGAAACTTAACCGTTGACTTGAGTATGTTTCTTACTATGGAAGTCAGTGGTTACTGGATTTCAGCTTTTTCTGTGAAATATAATCTATTTAACAGGGGAAACTAAAGTTTAGGTGGTGAGTATTTTCATCTTTGGGTGAACTCTCCCTTTAGATGAGCAATTGGCATCAGCTAAGGGAAATGCGTGCTTTGGTAGTCTTATTTTATTTTTTTATAATTGTTAATTCGGCTTGGTTCAATGTTAACAAGCGTGTATTTAAGCGAAGGTTAATAAAACCCGTTTTCTATGTAGATTAATATGGTGTTTTTGAAAAGCAAACCAAGTTTTCAGTTATTGATTTACACGCATCACAAATAAAACGGTCTTAATATGCCTAAAGCACTGTAAAAGTTTAAATGGCATCATGAAGTGCCTATGATCAATCTTTATGCATGTTCATCATAATATATTGATTTAATTGCATTGATCCACTCTCACTCTCCAAATCCAGCGCTCAAACTCTCCTGTGTTCATGTCTGTCAGTTATTTAGTTAGCGGGTTCGTGTTAAATGGATAGTTCACCCAAAACTGACAATTGTCATTTTACACTCATAATTCTGAACATGTCTCTTGTTGAACACACAAGATATTTAGAAAAATGTTGTAAACCGGTAACCATTGACTTCCATGATATTTTGAACAGAACCAGTAACCATTCACTATCATATTTTAGATGGCCAAAAACTGGTAACCATTGACTCCCATGATATTTGAGTGCTGACAACCAGTCCACTTTAACTGCAAATTTTTTTTTTTTTTTTTTTTTTGATGAATATGGAAAACAGATACCAGTTTTCAGCTTTATGATGTCCGCTCATAATGGGTGACGAATACATTGGAAGTCAATGGTTACCAGTTCTTTAACATTATCTTTTGTGCTCAACAGAAGGCCAAATGTTTGAACGGTAAACGATTTGTCTGATTAACTTTCTCTGTGAACTATCCCTTTAATCAACATCATCTGTCTCAAATGTGTTGCGATTCTTCAGTGTCTTGATGTGTGATACTTCCTCCTCAG
Seq C2 exon
CTGTACAAGATTAAAACCCAAGACCTGACGCGTCACTGGCCGAGCGTTTCTAAAGACTCATGGATCTGTTCTTGGATTTGTTGTTTCTGTTCTGTTCTTGTACTTTTGAGGGGGAAAAAGGCTGTTTTGTATTTTTATTTCTCTCGGCCGTGAATGAATGAATGTTCCTCTTCTGCACCACGAGCCTCATTTTCTGAATCCTTTAGCGTTGCGTTTGTTGGGGTCACCGTCCGCGGTGCGACTGCTTTTATGGGGATCAAAGAGTGTTACTGTACCTGCGCTGTCATTTATAAGAGAACGGCTCCTTCTGTTAGCTGTGTTTAAAAAAAAAAAAAAGCAACAAATTTGTCCATGTTCAATATCCAAAAAGTGAATTCCTTTCAGACTGGTGAGCGCTGGAGCGTCCGGCATCAGTGCGGCTGTTCTTGCGGAGGTATATCGATATCTCTGTCTCTGCTCCATGCCTGTTTTAATGATGGACTAAACCTATTCTCACACGCGTTATATATCGATCATTTACTTGAAAGAGAAGCAGAAATTGTGAACCGTAAACTCCAGAACTGAGATATCCTTGTGCTCTTGTTTTTCTTTGTATTGAAATTTGACACTTTGTTTTTATTCTCATTTTTATTTTTGCTTTTTTCCAATTGTGGCTTCATGGAGCCTATTAAACGAAAACGTTTGTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103672:ENSDART00000158777:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.750
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCTCGTACAAAGATGGCT
R:
CACAGCTAACAGAAGGAGCCG
Band lengths:
352-2036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]