DreINT0052196 @ danRer10
Intron Retention
Gene
ENSDARG00000102517 | crtac1b
Description
cartilage acidic protein 1b [Source:ZFIN;Acc:ZDB-GENE-090312-28]
Coordinates
chr13:39971694-39972600:-
Coord C1 exon
chr13:39972500-39972600
Coord A exon
chr13:39971863-39972499
Coord C2 exon
chr13:39971694-39971862
Length
637 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTATTGATTTTTCATTCCAGGGC
3' ss Score
9.72
Exon sequences
Seq C1 exon
GAGCGGCTGTGACTGACTTTGATGGAGATGGACTGCTGGATCTTCTGGTCACACATGGCGAAAGTGCAGCACAACCCATCTCTGTGTATCGAGTCACTCAG
Seq A exon
GTGAGAATGTGCGTCAGACACTTTTAAATTTGGGAGTTAAGTTCGATTATTTACTTTATTTCATATGTTTTGTATTTATTTCATATGTACACCATCTTTATTTTTATTTCACGGCAAAAAGATATACCTTATTTTTTTAAGAGCGCGGCCATTTGTAAGCTAACTTGAATAAACTTGACGAGACTTCCGGTTTCATTTGTGTACCCGTTATTATTGCAAAAGCTACTTTATATTGTGACTTGATATTTGTTGTTACATTATTAAAATGTTTTATGTTTTTTTTTAAATTAGTTTACCTTTTATATTGTGTTAGCTATTAGGGGAATCAAAAGTAAGCACTTGCAAAGTAAACAAACTGTTGGCTTATGTTTAGCTACAAGGTTTGAAGTAGTTTTATAAGTTGAAGTTTAGAGTTTTGAGTTTTTTAATTTCTCAGTAAAAAGTGAATTTCTGACTTGGAGAGACTTGTTTAAAATATCAAATGTGTGTTTTTCTGATCTAGAGTCATTCTATCTTGTTAAACTTGAAACATTGTTGTTTGCCATTTAACATATATTGTTCTGAATATTTAAATTTTTTAGCATCTGGAAAATTGCTGTTTAATATTCATCATATCATTATTGATTTTTCATTCCAG
Seq C2 exon
GGCTCATCTAATAAATGGCTTCGTGTAATTCCACGCACACAGTTTGGGGCTTTTGCCCGTGGAGCAAAGGTGATTGTCTACACCAAGCGAAATGGCCCTCACACACGCATTATAGATGGAGGATCAGGATACCTGTGCGAGATGGAGCCAGTAGCTCACTTTGGATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102517:ENSDART00000157852:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0183918=FG-GAP=FE(82.5=100)
A:
NA
C2:
PF0183918=FG-GAP=PD(5.0=3.5),PF075937=UnbV_ASPIC=PU(60.9=68.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCGGCTGTGACTGACTTTG
R:
CAAATCCAAAGTGAGCTACTGGC
Band lengths:
270-907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]