BtaINT0022824 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016167 | ATL2
Description
atlastin GTPase 2 [Source:HGNC Symbol;Acc:HGNC:24047]
Coordinates
chr11:20693629-20694769:-
Coord C1 exon
chr11:20694698-20694769
Coord A exon
chr11:20694061-20694697
Coord C2 exon
chr11:20693629-20694060
Length
637 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CTGTCCTGCTGTCTGCACAGGTA
3' ss Score
10.15
Exon sequences
Seq C1 exon
GCAACAGCTGAAGCTAATAATCTTGCTGCAGTAGCAGGAGCAAGAGAGATCTATTGCAAAAGTATGGAGCAG
Seq A exon
GTTTGTGACTAACATTTATATTAGACACTAGAGTGAGAAGATTTTTATATTTAAAATCATTGAACCAATTCATACTCCTTATACATTGTCATGTTACATCATTCCCAAATCTTCTTTTATCATCTCTACTGAAAATAAACTTAAGATTATAATTTCCATCGTTAGAGTGCAGGATGAGAGTAGTAAGTTATTTACATAGACCACAATAAAATATTTTTTGACACATGATTCAGAGTGCTATTATCAGTAGCTTCTGATGTTAGTAACATTGTCCTAAGACCAATAGCAATTTCTTTGCTAAGCTTGCTAATTCAAATATTCAAGTACCTTTTTTATGTGTTACAGCTCTTAACACACTTTCTTGCCAGCAGTCTTTTGTGGTGTATTGCTGGGTCAGCTGACATCAATACAGATTGTAGTGTAATTCTTTTTGTCTTTATTGGTATATAGTTAATTGGGAAAATTTATTTTGCCTGAGTCAGTTAAATATATAAGAAATGCATAGATTATGATGAAGTGTGGAGTATTACAAACAAATTTAAAACTAAATCATGTAGGTGGTTTAACTTTACTGATGGGGAATTTCTTTCAAGTGTGACTTATTTCCAGCATGTAATCTGTCCTGCTGTCTGCACAG
Seq C2 exon
GTATGCGGTGGGGACAAGCCTTACATTGCACCTTCAGATCTGGAGCGAAAACACCTGGATCTTAAGGAAGTGGCGATTAAACAGTTTCGTTCAGTGAAAAAAATGGGTGGAGATGAATTCTGCCGTCGTTATCAGGACCAGCTTGAGGCTGAAATTGAAGAAACCTATGCAAATTTTATAAAGCACAATGATGGCAAAAACATCTTCTATGCTGCTCGTACCCCTGCCACACTGTTTGCGGTCATGTTTGCTATGTATATAATCTCAGGACTGACTGGCTTCGTTGGCCTAAACTCTATAGCCGTCTTGTGTAACCTTGTCATGGGGTTAGCACTGACGTCTCTTTGTACTTGGGCATATGTTAAATACTCTGGGGAGTTCAGAGAAATTGGAACAATGATCGATCAGATTGCTGAAACACTATGGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016167:ENSBTAT00000061283:11
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(17.6=100)
A:
NA
C2:
PF028419=GBP_C=PD(55.0=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGTAGCAGGAGCAAGAGAG
R:
CGGCTATAGAGTTTAGGCCAACG
Band lengths:
349-986
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development