DreINT0024613 @ danRer10
Intron Retention
Gene
ENSDARG00000035187 | abl1
Description
c-abl oncogene 1, non-receptor tyrosine kinase [Source:ZFIN;Acc:ZDB-GENE-100812-9]
Coordinates
chr5:71382464-71384277:+
Coord C1 exon
chr5:71382464-71382592
Coord A exon
chr5:71382593-71382670
Coord C2 exon
chr5:71382671-71384277
Length
78 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
ATGAACTAAACTTTCTCCAGACG
3' ss Score
5.2
Exon sequences
Seq C1 exon
AGGTGGAGAAAGAGTTGGGGAAAAAAGGAAAGAAGCTGACCCTGGGACCAATACAGCAGGCGCCAGAACTTCCAACTAAAACCAGGACACTACGAAGACCTACAGACGGCAGGGATGGGGACAGTCCCG
Seq A exon
GTAAGCTCTTCTCTCTCAGACCTCTGCTTATTTTCGTTATTATCGAGCAGTTGTACTGATGAACTAAACTTTCTCCAG
Seq C2 exon
ACGCAGCCGAGGCCGAGGTCACTGGACCCCCGATGATGCCGAGGCCACTCCTAGATAGCAACCTGAATGAAGATGATCGGCTCCAGTCTAAAGATAATAAGGATAAATTTCGAATGAATCCCTTCAGTTATATTAAGAAAAAGAAGAGGACGGCTCCGGCGCCCCCAAAGCGCAGCAGCTCCTTTGGGAAGATGGACGGACACCTAGACCGTAGAGGATTGGGTACTGACTGCAGGGAGGATTTCAGCAACGGGTCTTCCACCAATGATGCCTTAAACAGCATTGACCCTTGCAAATTAGTTGGGTCAAACAGTACCACGACCATCGGGGTCACCAACGGAGCTCCAGTGTATCCCGGTCAGCTCTTCCCATCTCATCCACGGAAAAAGGGCACTACATCGGGTGGTGGAGGGAAGCTTGCCACGACTCCACCTCCAGAGGAGGACTCCATGTCAAACTCCAAACGCTTCCTACGATCTTCTTCTTCCTCCAGCATGCCTCCAGGCTCTGATCGCTTCGAATGGAAGTCCGTAACCCTGCCGCGGGACATTCAGTCAACACACTTTGATTCTAACACATTCAGAGGCAAGCCAGCTTTACCTCGTAAGAGCTGCATGCCACGAGGTGGCACGCTTACCCCACCACCACGCCTTCCCAAGAAAAGTGAAGATGTTTCAGACGAAGTCTTCAAGGACTCTGAGTCTAGTCCTGGATCAAGTCCTTTAACTCTGACTCCCAAGCTAGGCCGCCGACCCCAAACAGAAAGCTCCAAAACTAGTGCCTTACAAACAGAGGTATTAAAACCCAATGTGCTTCCACCTCTTGGAGACGAAGGCAGACCTCGAAGACTCAAACTGTCCTCTGAAATCCCAGGACAGAGAGAGCGGGAGAAGGGGAAGTTTGCGAAACCCAAACCCGCTCCCCCTCCTCCTCCGGTGTCCAGTGCCAAATCTGGAAAGACCTCAAGGAGTCCGACTTTTGAGGTGTCTTCAGATACCAAAGTCAAGAGTTCACTAGACTCCGCAGATCAAGGCAAGGCTAGTCTATCCCAAGAAAGTGCTAAAAAGTTGCCCAAAAATGGCTCAAAGGTAAACCCCTCGAAGGCAGGTGCGACTGCTCCTCTACCTGGAATGGGAGCCAGTCCTGTGGTCGGGGATCCGGGATCCAGCTTCATCCCACTGATGACGACGCGACGTTCACTGAGGAAGGCTCCAGCACGGCAGCCATCAGAGCGACTCTCCAGCTCCACCATCACTCGAGACATGCTGTTGGAGAGCTCTGAGCTCCTGCGTACCGCCATTGCACGTGTCTCCGAGCAGACCGGCAGCCACAGCGCTGTCCTGGAGGCGGGGAAAAATCTGTCCAAGTACTGCGTCAGCTACGTGGAGTCCATCCAGCAGATGCGGAACAAGTTTGCTTTCCGCGAAGCCATCAATAAGCTGGAGAGCAGCCTGCGCGAGCTGCAGATCTGCCCCGCGGCCACCGGCACCGCAAACACTCCGCAGGACTTCTCAAAGCTGCTGTGCTCCGTCAAGGAGATCAGCGACATCGTGCAGAGGTAGCAGAGAACGGCGCCACTGGAAACACAGTATCTCGATGTCTGGGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035187:ENSDART00000149910:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.966 A=NA C2=0.819
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF089195=F_actin_bind=WD(100=20.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAAAGAAGCTGACCCTGGG
R:
GGTTGCTATCTAGGAGTGGCC
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]