DreINT0040920 @ danRer10
Intron Retention
Gene
ENSDARG00000035122 | camsap1b
Description
calmodulin regulated spectrin-associated protein 1b [Source:ZFIN;Acc:ZDB-GENE-070705-301]
Coordinates
chr5:64937303-64939002:-
Coord C1 exon
chr5:64938881-64939002
Coord A exon
chr5:64937422-64938880
Coord C2 exon
chr5:64937303-64937421
Length
1459 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
ATTTTTTTTTGTCGCTGTAGGAC
3' ss Score
10.07
Exon sequences
Seq C1 exon
AGGAGAATCAGTCGAGTCATTTCCAGGTCTCAGTCGCAATTCCAGTCGGACTACAGAGAGAGACTGGGACAACGGCTCCACCGCGTCTTCCATTACATCAACATCCATGGCGGAATACACGG
Seq A exon
GTGAGTTTTCGCTTCAATAGTTGTTTTGATACTCAGAAGCTCTGGTTGCTAATTTATTTATGAATTTACTTAAACTGCTTTAGATATGTTTGCACCACAACAACATCCTGTTTTAAAAATAGCATGCTGATGTAATCTCGGTCATGCGTCAGTCAATGTTTGTCTGTGTGCTTGAGTACATAAGCACTTATGCGTTTTTTTTCATCAGGCAGATGTTAGTGAACAAGTAAGCCTGTAGACTCTCTCTTTTGCTCTTGAACTGACAACGTATACATTTAACAAGGGATATGTGCTTTTTTTATTTAAGTCTTGAGTTTGCAGAATAAATGGTGTTGATTTGCACTGAAATGAAATTAATTTAGATTTTTTTTATCTGAATATGTGGGACTTTTTTTCTTTATTTTTCTGTCAATTCTGCCAGAAACCCTAATTTCCAATCGTGATTAGTGTAAATTATTTAACTAATGCTGATGGCAGTAATGTCATGTTCATCATTAATCATTTTTATCTTGATGTTTACTCCAAGGAAGTTTTAAACCATGTAAAGAAGCAGATTGTTTAGAGCAGGGGTCAGCAAACTTGTTCCTGGAGGGCCGGTGTCCTGCAGATTTTAGTTCCAACCCTAATCAAACACACCTAAACAAGCTAATCAAGGTCTTACTAGGTAAAGTAGAAACACCCAGGCAGGTGTGTTGAGGCAAGCTAGAGCTAAATCCTGCAGGGACACCGGCCCTCCTGGACCGAGATCGGTGACCCCTGGTTTAGAGGTTGTTTAAAAAGTTTAGCCACATTTGTTAGGTGTCAGAGTGATGGATGAGCTAGTTTAATTTGTATCACTAAGACTGAGAAGCTCCAGTACACAACAATAAGAGCGGTGTAGGAACACCCTGTCCTAACCAGGTGAAACCACAAATCAATGACCAATACATCTACATTTATTTTAAAATGTAAGAGTCTTTTTGTTTTGCTTTCATTTAGTTTTTTCTTTAGTTTTTTCCTATCCAGTCATTCATTCATTTTCCTTCAGCTTAAGTCCCTTACTTATCAGGGGTCACCACAGTGGAATGAACTATTCCAGCAAATGTTTTAAGCAGTGGATGCCCTTCCAGCCACAACCCAATACCAACTAATCATAGTACATATCCTAGGGATGTTGCATGAATGAATGAACATGAATGAATGAATGCCTATCTGGTCAACATTTCAATGTTTTTGAATTTGAAAGCTGCTAAAAATGCACTTGCCACATTCTATGCACAATTATCATTATTATTACTATTTTGCTTTTACTTATTTTAAAATCTTTTTTTTGCTTCTATTGTTGTTGTTTAGACAATTAGGATTTGTACTGAAAGGAAGGGCAAATGCAAGTTTTGTTGTATTTTGTACAATGACAAAAATTCTGATTCTTCTCGAGTTTTTTGTTTATTCTTGTAACAATTTTTTTTTGTCGCTGTAG
Seq C2 exon
GACCCAAACTTTTCAAGGAACCAAGTGCGAAGTCCAACAAGCCGATAATCCACAACGCCATTTCTCATTGCTGCTTAGCAGGGAAAGTCAACGAACCGCAGAAGAACTCCATTCTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035122:ENSDART00000147707:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.916 A=NA C2=0.267
Domain overlap (PFAM):
C1:
PF086836=CAMSAP_CKK=PU(0.8=2.3)
A:
NA
C2:
PF086836=CAMSAP_CKK=FE(30.0=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:
TCAGTCGAGTCATTTCCAGGTCT
R:
AGAATGGAGTTCTTCTGCGGT
Band lengths:
230-1689
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]