DreINT0040929 @ danRer10
Intron Retention
Gene
ENSDARG00000035122 | camsap1b
Description
calmodulin regulated spectrin-associated protein 1b [Source:ZFIN;Acc:ZDB-GENE-070705-301]
Coordinates
chr5:64947438-64949484:-
Coord C1 exon
chr5:64949388-64949484
Coord A exon
chr5:64947574-64949387
Coord C2 exon
chr5:64947438-64947573
Length
1814 bp
Sequences
Splice sites
5' ss Seq
ATGGTGATT
5' ss Score
3.18
3' ss Seq
AATTAATGTTCTCTTTACAGCAA
3' ss Score
9.16
Exon sequences
Seq C1 exon
CACAATGTCATGGTATTTATAGCGGAGCTCTTCTGGTGGTTTGAGATCGTCAAGCCTGAGTTTGTCCAGCCGAGAGATGTTCAAGAGTTCAAAGATG
Seq A exon
GTGATTTTAATATTATTTTTATGTCACAATTTACAATAAGGTTTCATTAATGAGTAGTTAGCATGAACTAAGAATAAACTATATTTGTACAGCATTTGTTAATGCTAGTACTAATTTAATATTAAAATATCGTAATCATGTTGAATCCTGCACTTAATGAGACAATGTGGGAACCAAAATGACAGAGCCTTACATTTCTGTGATGGAAGTATTCTCATTATTTTGAATACATGGAATAAAATGGCATTGTATCAATGGACAGTGATTTTACTGAACTAATATACTGTGAAGGTGTAAGTTATATACAGTGTGTTGTTAAAGGGTCACGAAACACCAAAACACATTTTTTGAGCTGTTGACAGTCGTATATGTGTCCCACACTACTATAAACACTATTAGGACACCTATATTTCACTAAAAAGTGTAAATTGGTTGTTTTTGCGTTATTTCAAGCAAATTCGTACTTCCTGTTTGAAACGAATTTTTGAAGCTGCGTCACGGTCATGACATAATAGCGTGTATTCCAGTGTGCAGACTGGACGTCTGTGCCAGAGTGAGTCTTATTACGTCTTACAGTGTGATGCATTAATGCATGAGTAAGGCTTGGTTAAAACCAATCAGCGCGCTCTATTGTGCAACTTCATTAATATTCATTAGTGTCACAGTGTTTTCACGACAGAGATGCCACGTTGTGTTGGCAAAACAAGCGTGAAGTGTTGCTTTTATAATTTGCTGCCGTTAAGTTTTGTTTTCATTTTCTCTCTGTGAGAGCGCAGCTGGCGTCACGTGTGGATTAACAGTGTACGCGACGCTCGACAACAATAACTTACGTGTCTAAGGAGGTTTATTGTTTACCTGAGAGCTGTTCTCATCTGCAAACGCTGAGATCCGGATTCGTTTGTAGTATTCTCTTCATAAAGACACGGCTCTAGTTACTGGTGATTGTCCTGTCTCTACAGATTTGGTAAGTGAGCGACCAGTGCTCTTTGTTTATTCAGTTTGCTCGTATCGAACTAAGTTAACTATTGCACCGAGTCACCGAGTGTAAACACGTTAGCATCACAACCAAACTTTAACCTCGTGTAGGGTTTTTACCGCATTTAGTGACCGGAATAACACACGCGGCTTTCTGACGCTACCTGCCGTGTGCATCTAAGTTTCCGGGAAATGCGGAGGTTTTTTTTCTCTCATTCGCCGTGTGGTATCAAACATTGCATGAAAAATACACGCTTAGAGCAGATCCTCGAATCAAATATCTCGTTTGTCGCGAGGGGCATGAATGAATTCCCTGAATGAAAGAGCCAAACTGCAGTTAAAGTCCAACATTTAATAATTTGGCAAATAAGTCGACTACAGATGTCCATGTAGGTTAAACACCATCACTTTCTCCTGTGTGTATTTTGACTCTGAAACTCGCGCGTGCCCAAATAGACACTCCCACACCATCCCACTTTAGTTCCTCCGACACTCCCCCCTAAACAGAGCTGGACACGCCCACTTTTCTGACTTTTTCCAAAGTAGAGGTGTGAAAACACCCTGCTGAAACGAGGGGGTTTCATGGCCCTTTAAATGCAGAGCTCCTCTCTTTAAAAAAATGAAAAATACCCTGCAAGTTCTTAAAGAGATCAAGCCTCAGCCACGTTTGAAAAAGTAACTTAAAAGTACCGTAACGCATTACTTTCCATCAAAAGTAACTCAACTAGTTACTTTTTTGGAGAGTAACTCAATATTGAAATGCAATACTTTTAACTTCAACTTCAATAGTCTCCAACACTGTTGATAATATGAGTTAAAAATTAATGTTCTCTTTACAG
Seq C2 exon
CAAGAGCAGTGAGCCAGCCCAAGAGTGCCAGGCCTACTGTGCCCATTTCCAACGCCACAAAACGAAGCTTCCTGGTGTCTCCGGGTGCGGCTGATCCAGTGCTTCCTGTTCAGAACAGCCCGGAAGTTTGTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035122:ENSDART00000147707:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.370
Domain overlap (PFAM):
C1:
PF0030726=CH=PD(8.9=42.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAATGTCATGGTATTTATAGCGGA
R:
TGTTACAAACTTCCGGGCTGT
Band lengths:
232-2046
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]