BtaINT0022813 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014312 | ATL1
Description
Bos taurus atlastin GTPase 1 (ATL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034631]
Coordinates
chr10:43567090-43569743:+
Coord C1 exon
chr10:43567090-43567104
Coord A exon
chr10:43567105-43568912
Coord C2 exon
chr10:43568913-43569743
Length
1808 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CTTGATTATTTTATTTCTAGGCT
3' ss Score
7.04
Exon sequences
Seq C1 exon
GGAAGTACAAATGAG
Seq A exon
GTAAGTTAAATTTTTCTTAAATTAAGAACTATTTGTATATTTATAAACATTATGATTGTCTTATTTTATGAACCAACTAGTCATTAAAGGATGTCTCAATGTAGAGAGGTTTTAAAATATTTAATTTACTCTGAACATGATATATAATTTTATCTGCCTATGAAACACAAGAATTGATTATCAGGAATATTTTACTTCTGAATGTTTAGAAATTTTCAAAAATCTTAAGCTCTAACATTGGGCATTTTGCTCTACTGCAGAGTGAAACAAGTAGTTATGAAAATCTGGAGGAAACTTAAGTAATGCAGAGTAAATAGAGCTACAACCTTTAGAACTGTGGCTTCTGAAAGAGATACTGTACCACTTTAAGCAGGTTTCAGGCCAGCATGTAGTGTAACTAACTTTCTTGGCATACCTTGGACCTGACCTGTAAATTAGTGTTCATTTCTCCCACTGCACATGTGCAGAAAGTCTGTATCTGAGGAATAATCTAAGTTTCTATGAAGGAATCATTTTCACATAAGAAAAGTTATTTCTGTGGACTCATTTAGGTCATTACTTTCAGAAAGCAATACTGATCTTCAGCAACTACAGTGACAGTACGTAATTCTTTCCTTGGTTTCTGCTGTTTTATATATAACTAGGTTATGTCTGCCAATCAGATACCAAGGATATATTTAATATTTATAAGTCAACAAGGAATTATTTTATGTAAAATTCAGTAAAATGAATTTACTAAAACAGTAACAATAAATTTCAACTTTGTAAATCAAATCTTAAGAAAAAATACGAACTTTTAAGAAAACATTGATTAAACTGCATGTATTAGAATCAGAATAGAACTAAGGTTGTGCCAGTATGCATTTGTAAATTGATGATGGTATAATTCAGAGTTAAGAAAATAGCCATAAAGACTCAAAAAGATAAAAATGAATGGAATTTCCTGGAAATTCTATTTAAGGATATCAAGCTTTTATTCAGCCTTTAAAAATATTCAGACTTTTTAAAGACTGTAGAATTACATCAGATAAATTGGTCTTAACTGAGTGTTCATTATGTGAAAGTCAGAGGAGGTAATGAATTTTAGAAACTAGGTGAGGGGTTAAAAAAAACATAAAAATATTTATGGACACTTCAGAAAGCAGTATGTAAACATTTCTATGATGCAAACACTGTTACACAGACAAATAACAACGACAGAGGTACTTTTAATGAAGGAAGACTTTCTAAGGTAATGTTTCTGAATAAAGGTTTTGTAAGCTATGAACTGATTAGTGGAAGCAAGGGAAAAGAGCATATTTGAGAAAGCCCATCATATCAGGAAATTATGGAGAATAAAAAGTGGTCCCTTTCTGAAAAACCTATCAGGAAGGTCCAATAGCAAGTGTTCTACCTGTGTATAATAAATTAGCTATTGGCAATCACAAGTTATGAGCTCCCACAATTATTCTAAAACTAATAATATTCACAATATGAGTTTTCCACATCCCTGGGATACAGTGGTTAGGAAGCTCTCCTCCAAAAGGTGGGAACGGTAAAAGAAAATGCAATCCGAGGATAGAACATTTACCATAGAGATCAACCTGCATAAGTAGTACTATCAACACACTGGAGAGTTGAAAATACTTTTGACTGCTGAGATACTAGTTATTAGTATATATGTTAGACAGATTACTAAGGATTCCAAATTTAGCATGCTAAATTTTATATAGTACCATAAATTACACTAAAAGGAAAAAATTTATATCTATGTATTTAATAAAATGTTTTATCATTTTTTAAAATAATCTTGATTATTTTATTTCTAG
Seq C2 exon
GCTTTATACAAGCTTTACAGTGCAGCAGCAACCCACAGACATCTGTATCATCAAGCTTTTCCTGCACCAAAGTCAGAATCTACTGAACAATCAGAAAAGAAGAAAATGTAACCCCAAATTTAAAAAATACAGGTGCATGACCAAATTGTCAATTAAATATTGTTTTACGTTTCCATGCAAACATACAAAGTGCTTCCATCAGAACAGAGTAGAATGCCAAGCACCTCTGAAGACTGCACAACAGCTTAGTTCTTTTACTTCAGTGTCTAATAAGCAGATATATGTATGCATGGTTATATCATTTGTTAACATGTATAGTTTCTTGATTTTGTCTTCAAATATGCTATTATAATTTAAAGAATTTGTCTATTTATGATAATGGTACATGTGTTCTGCTTGAATTTACTAAATACTACTACTGGGTTATAGTTAAACCATGTAGTAATATTACTCCACATTTGGATATGCTCATTTAATTTCTACAGAAGAATTTTTAAATTATTTCACATAGGCATTTGTTAAAACATAGCTCAATAGGCTTGATTCAACCTATACCATCTTACATATACCATTAGCTTTTATTATAAAAGACATCTAAGAGAGCTTTTCAGTTGCTTTATCAGAAACTATATATTGCTTCTTTTATATTATTGTTTAATATAGAATATAAACCTCTTGATCAAAAATGCACAAAAAAATCACTTTGTATATGTATTTGAGTTTCACTGCATTGTATATTTTTTCATTTGGTACACAAAGATATGTATTCATCATAGGTTTATTCTTTTAACATGTGAACTATTATTAAAGTTTATTCTGGTTCCTAAGATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014312:ENSBTAT00000019032:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.278
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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