DreINT0024622 @ danRer10
Intron Retention
Gene
ENSDARG00000013841 | abl2
Description
c-abl oncogene 2, non-receptor tyrosine kinase [Source:ZFIN;Acc:ZDB-GENE-020809-2]
Coordinates
chr8:14921891-14923663:+
Coord C1 exon
chr8:14921891-14922060
Coord A exon
chr8:14922061-14923498
Coord C2 exon
chr8:14923499-14923663
Length
1438 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
CTCTGTCTCTCTTCTGCCAGAAG
3' ss Score
8.62
Exon sequences
Seq C1 exon
GAATCCTCAACACATCGGGTCTGTGTTTTGTTCCATGTGAGATTAGACATTAGTCTAGCGCCGCTAGATTATGACATTGAGGACCCTTCCGTCCAGCAGCAGTTTTGAGGAAGAGTGGGTCAGGCTGACCAAACTACCCAGCACACAGGATGACCACTATTGCCTCGCAG
Seq A exon
GTAGAGCTTTTCTGAGGATTTGTGGAGGATTTCAGGTTCAAGGACGTCTATTTGTTGGTTTTTGTGTGGACAATGTGGAAGCTTCTGCCATTCCCAGGATTTATTTGCTTTTATGCGTCTGAAGTTTGTAGACATGTTAATTCAGCTGAATTTAATATTTAGCTAGGAAATATTTCAGAGAAATTTCACCTTTGGATTTGGATCTGCTCTCTGGATTTATGTATTTGAGTAAAACATAATTCTGTAAGGGGGCGAGGCAGTGGCGCAGTAGGTAGTGCTGTCGCCTCACAGCAAGAAGGTCGCTGGTTCGAACCTCAGCTCAGTTGCCGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCCTTTGCATGGGTTTCCTCAGGGTGCTCCGGTTTCCCCCACAGTCCAAAGACATGCGGTACAGGTGAATTGGGTAGGCTAAATTGTCCGTAGTGTATGAGTGTGTGTGTGAGTGTGTGTGTGGATGTTTCCCAGAGATGGGTTGCGGCTGGAAGGGCATCCGCTGCGTAAAAACTTGCTGGATAAGTTGGCGGTTCATTCCGCTGTGGCGACCCTGGATTAATAAAGGGACTAAGCTGACAAGAAAATGAATGAATGAATGATAATTCTGTAAGGAATTTCATTTAAGGACCAAACAAGGTGTCTATGTTTTATGGTATATATTCATTTTAGACAACACAATACCAATGTTTAACTTCAGAAGAAATGAGCATTTGATGAAAAAAATATTATTCTGCTTGAATGTTCTAAATGACATTTCTATTTGTCGAAATTTGTAAGAAATCAGTCAAGCGAAAGTCAAGTTTATTTAAATAGCTCTTGTCACAAAAATTATTGTTTAAAGCAGCTTTATAAAATAATTGCATTACAATAAAAAAAAAAAGGTTTAGGTTATTAGTTACCGTAACTTCATAACTTTAACTAATTAACAAGTAACTAATAGCTTTAGCAGCTAATGTTATATATAAACATAGTTAACCTGTAGTTATATAGTGTATAGGTGATGTTCATGTGTACATGTTATCAGACTTTTACAGAATAAAACAAATATTAAACCATACCCAATTAATCCAGAGAAGCCAGATTTTATTTATTATATTTGTATTATTAATTGCAGTTTTGAAAAAGAGCCCATTGTAAAGTCGGTGTGACGTCAAGAGCAAAGTGGTATCATTTTGAATCACCTTCATTTTGCGTCAGCTAGTTTCGGTTTTATCACATGTCTTCTCTCCTCTCACCTTGGTGTTCACTTGTTTATCGACTCCTCCTTTCCGGAAACCCCTCCCTCCCACCTCCTGTAGACTCATTCTGCCCCTCCCAGAGGCCTCTTCTCATCTGAGATCTTCTGCTTTATTGGCAGACGCTTGTGTTTTCAGTTTCTCATCTGCTGTGTTTTTTTCTCTGTCTCTCTTCTGCCAG
Seq C2 exon
AAGCCCTGCACAGGCCGTTTGGACTGGACTCGACGGCGCTGACGGAGGCGGTGCGCTGGAGCTCCAAGGAGAATCTGCTGGGTGCTGCTGAAAGTGACCCCAACCTTTTTGTGGCACTTTACGACTTTGTTGCCAGTGGTGACAACACACTAAGCATCACGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013841:ENSDART00000041697:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0001823=SH3_1=PU(38.3=32.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCCTCAACACATCGGGTCTG
R:
CTTTCGTGATGCTTAGTGTGTTGT
Band lengths:
334-1772
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]