DreINT0034740 @ danRer10
Intron Retention
Gene
ENSDARG00000057719 | atl2
Description
atlastin GTPase 2 [Source:ZFIN;Acc:ZDB-GENE-030131-6505]
Coordinates
chr13:7955132-7956195:-
Coord C1 exon
chr13:7956068-7956195
Coord A exon
chr13:7955189-7956067
Coord C2 exon
chr13:7955132-7955188
Length
879 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
ATTTATTCCTTTTTTTGTAGGCA
3' ss Score
8.46
Exon sequences
Seq C1 exon
AGATTGATGATGAGTTCAAGAGGGAGCTGCAGAATCTAGTTCCTTTACTGCTGGCACCAGAGAACTTGGTAGAGAAAGAAATCGGTGGAGCTAAAGTCACATGCAGAGATCTGGTGGAGTACTTCAAG
Seq A exon
GTCAGATTTCATTACTTTAGCCGCAGCAGCTGTAAACACAAACCAGATTAGCTGTTAATTGTGTTAAGATTTAAACAGAAGAGACTCTGTTCAGGTGTTTTTGTAGAGTTTATGATGTGATGAACGTCTTTTGGTGATAATAAATGAAATTAACATTCATTTAGTTATTAATCATAGACAATTCTTAAGGCAAAATATATGGTGCATGTAGAAACTGACAGTGGCCTATTAACTGATACCAAGCTGCAAGAAATGTTCTTGACACTACCTGTTTTAGCTCTGGTTTGTTATCGCAACAGTTTATTAAAAATTATTCTGCCAAAGCAGGCCTGTTAAAGCTGAAGATTGGCTGAGGGAAAGCTGGATATCTTCAGATTAAGACATTTTAATTTTTCTCTCATTGAGATACAACACCACCAAAGCTTTCTACAAAGGCATGCTACAAATCAGTTACACACAGCAAAATAGATGCATAATCTACGTGGATTTGTCAGTGCACCATACACATACATCCTTTGATTGCTACTGTATAATGGAATGCACATAAATCCAGCTTATAAAATGCTTTGTTGCATCTTAAATACACGTTGCAAAATAAGATTTAAAGTAAGCTTTAAAGTTTAAATAAGCTTGTGTTGATGCAATGCAAATTTTAAATGTAAAATAACAAAAAACAAAGCTAAGAACGGTTAAATCCTAACCTTTCTTTATGTTGTGTGCAAGAGTGCAATGTTAAAATGTCAGAAAATTAAATTTTGTGTTTTATTTTATTTTAGCTTTTATAGAGTTGTTGTGAGGTCAGACATTTGCTTTTTGCAGTGCCTCAGAACATTCAGTAAGGACCCATGTTTATTCCAGTATTTATTCCTTTTTTTGTAG
Seq C2 exon
GCATATATCAAAATCTACCAAGGGGAGGAGCTTCCACATCCTAAATCCATGTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057719:ENSDART00000080460:9
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=0.211
Domain overlap (PFAM):
C1:
PF0226314=GBP=PD(9.6=60.5),PF028419=GBP_C=PU(10.1=32.6)
A:
NA
C2:
PF028419=GBP_C=FE(13.0=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:
TTGATGATGAGTTCAAGAGGGAGC
R:
CTGCAACATGGATTTAGGATGTGG
Band lengths:
182-1061
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]