DreINT0034731 @ danRer10
Intron Retention
Gene
ENSDARG00000057719 | atl2
Description
atlastin GTPase 2 [Source:ZFIN;Acc:ZDB-GENE-030131-6505]
Coordinates
chr13:7953131-7953985:-
Coord C1 exon
chr13:7953914-7953985
Coord A exon
chr13:7953563-7953913
Coord C2 exon
chr13:7953131-7953562
Length
351 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
TTGTTGTTTGTATGTCACAGGTG
3' ss Score
9.51
Exon sequences
Seq C1 exon
GCAACTGCTGAAGCGAACAATCTGACAGCTGTCGCTGGAGCAAAAGACACTTATAACAGAACCATGGAGCAG
Seq A exon
GTAGAGTTACTGCTGCTGCTGTTTCTTCTAAATGTTTCTTCTCAGAAGCATGAATGTAAACAAAGGAAATATGAGAAAATGCATCACTGTATCAAGGATATGCCTTGAGTCAAGGTTATTCAGTTTAAAGGATTGTCGATGCAGAGGGACCTCATTTCTATTTAAATATAGCAGACGCCTGACGTGAGATGAGCTAGCCTATATAACTGAAAATAACTTGAGGCCAATGCACTAAAATAGTAGGTTTGGCCTGGATAACTTAAAATAAGCAGTGTGCCTGTTTTGGTTAATTATATCTGCAATATATGTTTTATTTTATCAGGAAATAAACTTGTTGTTTGTATGTCACAG
Seq C2 exon
GTGTGTGGAGGAAACAAACCATACATCGCCCCAGTTGACCTTCAGCGCTATCATGATGAGTTTAAGAAAACCTCAGTCGATCAGTTTCGCGGGGTGAAGAAAATGGGCGGTGTAGAGTTCTGTCATCGCTATCAGGAGCAGTTAGAGACAGAGCTCGATGAAGTGTACACAAATTTCGTGAAACACAATGAAAGCAAGAACATTTTCTATGCAGCAAGAACTCCGGCCACCCTGTTTGCAGTCATGTTTGTCACCTACATGGTCTCCACCGTAACTGGATTTATTGGCTTATCATTCATCGCTGCTCTGGCCAGTGTGGTGATGGGGGTAACTCTGCTGTCGCTGTGTGCCTGGTCATATGTCAGATACTCAGGAGAGTATCGAGAAGTGGGAGTGACTATAGACCTAATAGCAGAGGCCCTGTGGGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057719:ENSDART00000080460:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF028419=GBP_C=FE(16.7=100)
A:
NA
C2:
PF028419=GBP_C=PD(57.2=54.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCGCTGGAGCAAAAGACA
R:
GCCAGAGCAGCGATGAATGAT
Band lengths:
355-706
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]