BtaINT0022817 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014312 | ATL1
Description
Bos taurus atlastin GTPase 1 (ATL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034631]
Coordinates
chr10:43532492-43534825:+
Coord C1 exon
chr10:43532492-43532542
Coord A exon
chr10:43532543-43534768
Coord C2 exon
chr10:43534769-43534825
Length
2226 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
ATGTGTGATTTTCCTTGTAGCTT
3' ss Score
9.05
Exon sequences
Seq C1 exon
GTTTATAATTTATCTCAAAATGTCCAAGAGGATGATCTTCAGCACCTTCAG
Seq A exon
GTAACAGTATTTATAGTCTGTTTTATATATCTGGTAATCTTTTGGGCATGGATAGCAGAACTTTAAGATTTTGTCAGGCCTTCTTGTACTTGTAAAAGGTAACAGTCAGAAAGATTTAAAAACATAACCAAATGGAAGTTGTCACATTTCCAGGTTTCTTGTTCTAACCCTGTATGCTTATGTTCTTTCTAGTTCAGTTTTCAAAGTCCTTTGTTTCAGTAAAGCTACTTGCTTGTCGACCCTGTATATGGCAAAATATATGGCACGTTAGAGTGGAAAAAGAACTTTTGGTTTAAAAATGGCCCAAAATGTGAAGTTGAAGTCTGATGGTCAAGGATTTAATAATTGTTAGTATAATATCAGTTATATGCTAGATTTTTTTCCTGTGGACCACTTTATAGCTATGGGTGAACACCTGATGGTAACTCATAGAATTCTATTTTAGATCTGAAAGAAACCTCAGGAACACCTAACTTATCCTTAATATTTTATGAATGAGAAATTGTTTCTGAAAAAGAATGAGTTGCCAGTTAGTGACAGAGTGGGAATAGAAATCTCATCATCTGATTGGACTCGGTGTTTCTTTCACTCTCCAGGCTGCATTTAAATCTCAAATTAGTAGAAGATTAGATATTTCCTAAAGGTAGTTCTCATCTCTGTCACACTCTCTTCTCTCTTTCAATTCATGTTATTAATAGCTACATATTAATAGAAAAACCTATTGTTTCTCTGATAGTTTCCCTCTGCTTATTTTACAGAAAATTTTGCTTTTAATATATTATCTTGGCAATAAGGGCCCTACGCAGTGTAACAGATAACAAAGGATAATAGCACAGGGTGATCTGTGAGGCTGGAACTATTATTTGGAGTTCACATCTAGCGTTACTCCCAAATATGTTTCTGGTACATCACACTGATCAGTTATGAAAAATAGACGATATGCTGAATAATTGTTAGATGTTTCTTTGAGTGAGCACAACTGCTTCTTTAGGTGTGTGTCATAACCTAGCCAGTTAATGACATGGCACTGTCCAGTACCTGTTTAAGATTTCTAAAAAAGGACTGATTTTGGACTGTGATATTGAGTAAGTAATCAATCTCTTTTTGAGATCATTTAAAATTTTTTCCTGTAAATGACATCACCTCATTCTTTCTCAGAAAAGACTGTGAGTTCAAATTATGTTAGTATATGATTCTGATGAAATTGAGTAATGATTCTGGTCCCCAGACCAGCTTTTAAACATAATATTCCAGACTTTCATTTAATTACTATAATCAGATACCTAGGTACTATCATTTGCTTTCTAGATTCCCACAGTTTTCACAGGAGAGGCAATGTAGTTCTTTGGGGGCAATTCTAAAAGGCCAAAGGAGGGAAGTCCCCTGTGTCAGCACCCTTCCCCAACTCTGAGGTGCCTCTGAAGCTTGCTACTCTTGTGTGATAAAGTGGCATTTCCTTTGTACATATCGGAAAACCCACTTGGCCAGTCTGAACAGAACTCTCTCCAGAGGCCCAATCACAGGGACCACCTCAAGTCTGTGTTCTCTAAAACCTTACATTTCTGGTGAAACAAAATGATATGGTACATCTCAATTGGGAGCAATAAAAAATAAAAGGTGGTTTATTTGATTCTTCACTTTTAAACCAAATGTCTGTTGTTATTGTTGTTCAGTCGCTAAGTCGTGTCCGACTCTTGGCGACCCCATGAACTTCCATGCCAGGCTTTGCATGCCAGGTTTCCTGGCCCTTCACTATCTCCCAGAGCTTGCTCAAACACCTGTATGCCTTTGTAATAATCGAGGCCATTGTGCCATTAAATTTCCTCAGGCAACAATTTTTGTAAATTATCCTACTTAGTTTATAGCTCTCTGGTCTAATCTATGCAAGTTTTGCTTTGAAAGGTCATTTCACATGTTTCTTTGTCTCTTATCTTCCCCACAAAAAAATTGTCCTACATTCTAGATATAAAGGTGTTATCTTTAAAATGGAAACTTCATTTTAAAATGTACTCTATGTCCTTAATTTTAAAATATATGATTATGGTAGCTCTACTTAATCTAATACTTAGTTACTTACAATGATTATTGCAGTCTTAATAATATAGTATTATGTTACAGCTAAAGAAAAAAATTAGTGAAAGAAAGCCAAGAAGATACTGAAGTTTTCTCTCTTTGTGTGTGTGGGTGCATGTGTGTGTGTGTGCGGATGTGTGATTTTCCTTGTAG
Seq C2 exon
CTTTTCACTGAATATGGCAGGCTGGCAATGGAAGAAACATTTCTGAAGCCATTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014312:ENSBTAT00000019032:5
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:
PF0226314=GBP=FE(5.9=100)
A:
NA
C2:
PF0226314=GBP=FE(6.6=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development