BtaINT0022815 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014312 | ATL1
Description
Bos taurus atlastin GTPase 1 (ATL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034631]
Coordinates
chr10:43527783-43528465:+
Coord C1 exon
chr10:43527783-43527917
Coord A exon
chr10:43527918-43528360
Coord C2 exon
chr10:43528361-43528465
Length
443 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
TGTACTCTACTTGCCTACAGGTT
3' ss Score
8.92
Exon sequences
Seq C1 exon
GAATCAGTTGATTGGGTTGGAGATCACAATGAACCATTGACCGGTTTTTCGTGGAGAGGCGGGTCTGAACGAGAGACCACCGGAATCCAGATATGGAGTGAAATCTTCCTTATCAATAAACCTGATGGTAAAAAG
Seq A exon
GTATGATGCGAGCTTCTTAAAGAAAATTGAATTTTCACTTACCAGCGGTTACCACTTTTCAGGATCCTCAAAAATGCTCTTTTAAAAACTAATTTGACCATTTGACATGAAGTTTAAAAGGGAAGTGGGTAGCATCTTATTTCATGTCCCCAGCTTCCTTGCTGTTGATCACAGTAGGCAAAATCATAGGGACAGTAGAACAGCAGATCAATTAGCAATGCTGTTTCTGTTTTGTTGGATTGCCAGTGAAAATTAATCATTACAGTATTCAGCAGCAAATTAATATTTCTGTTTTCAGTGGCATTCATGGCATGTGTGAAAAATTACCTATTAAATATTCATTGCTGATGGTTTGCTTTAGTCCTTATGGTATTAACTTTGTGGTAACCCTAATTCCCTGCATGTTCTATAATATATCAATAATGTACTCTACTTGCCTACAG
Seq C2 exon
GTTGCAGTGCTATTGATGGATACTCAGGGAACCTTTGATAGTCAGTCAACTTTGAGAGATTCTGCCACAGTATTTGCCCTTAGCACAATGATCAGCTCAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014312:ENSBTAT00000019032:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0226314=GBP=FE(16.2=100)
A:
NA
C2:
PF0226314=GBP=FE(12.5=100)
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:
ATCAGTTGATTGGGTTGGAGATCA
R:
CTGAATTGAGCTGATCATTGTGCT
Band lengths:
238-681
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development