BtaINT0022841 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003330 | ATL3
Description
Bos taurus atlastin GTPase 3 (ATL3), mRNA. [Source:RefSeq mRNA;Acc:NM_001098978]
Coordinates
chr29:42632945-42635815:-
Coord C1 exon
chr29:42635765-42635815
Coord A exon
chr29:42633002-42635764
Coord C2 exon
chr29:42632945-42633001
Length
2763 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
ATAACTCTTCTTTTTTAAAGCTC
3' ss Score
7.29
Exon sequences
Seq C1 exon
ATTTATAATTTGTCCCAGAACATTCAAGAAGATGATCTTCAACAGCTGCAG
Seq A exon
GTATGTATTCCTCATAAAAATGTTAATAATGTCATTTAAAAGTTTTAAGGCCAAGGTGCATTTTACAACTGAGTAGTTTCAGCAAAAGATTGAAATGTGGAGGAAGGTGTGGGCTCATGGTAGTCCTTCACTCTGTGCATCTATGATTGGAGTGGTCAGGGATGCTCTTATTGAGTTAAGCAGGGGACCGAAAAAAGTGAGAGGGTAAATCCTGCAGATATTTTGGGGGGAAAGTGATGCAGGGAAGGAAACAGCGGGAAAACAGACCTTGATGTGGAGTGTCCTTGGTGGGTCCAGGAACAGCGTGGAGGCCAGTGGGTGAGGCTGGAGGATGAGTAGGAGAAGGGTGAGTGATGACGTCAGAGAGGCGGGCGCTCAGCTTCCAGTGATGCCCTGCTTTGTAAGGACTTGGGCTTTTCCTCTGCATGAGATGGGAGCCAGGTTTTGATCAGAGGATATTGCTTGACATGTGATAAAAGGATCATGGTGACTGTTGTGTTTAGAGTATATTTTTAGAGGTGCAATGATGCATTCAGTGAGACTGCTTATGAACCTACTGCAGTAATTCAAGTGAGGCTAAATAAACTAGTATTCATAAAAGGCATAGGGTCATTGCCTGGAAAACAGTATGTGCTTAATATGTGCTATCTGTTACCTATTAAACCTGTTACTGTTATTAGTCATTGTCCTCACTCCATAGCAGCAGTTCTTACACATGTTTCCTGTAAAATCCTCTTCATTGGATATCCCAGAGTTGGATGCAGTCTGGCATGCTTCTCAAATTCTACTCTTCCCACTGACATCCAGGAAATATATCAGAATGTGAGAGTCTTGGGGGTGTCATTTATTATAGAGATTACCTTGAATTAGTTTTAATTTATATTCCTTAAAAAAAATAATTCCAAAATTTTGGCTCTTGATGTTACTATTACCAGTTACTTGTACTTCATAATTGGTGGTTCTACACCAGTGCCATCATTCAGTGGTTGAGAGCTGTTGCTCCGTGATACGTATCCATCAAAACTTGACTTTGATACCTTTTCACCTGAAACTGACCCCTTTCTAAGCTCCTTTCTTTCACACATTTTTTGGAATACCTAATTTGTGTGAGGGCTTCCCTGGTAGATTGGTGGGAAAGAATCCACCTGCCAGTGTAGGAGACGTGAGTTCGATCCCTGGGTCAGGAAGATCCCCTGGAAAAGGAAATGGCAACCCAGTCCAATATTCTTGCCTGGGAAATCCCACAGACAGAGGAGCCTGGCAGGCCACAGTCTATGGGGTCCCAGAGAGTCGGACTTGACTGAGCAACTAAACAGCAGCAACAGCAATTAGTGTGAGGCAGTGGACCAAGTGCTGCAGATGCACTAGTGTGTGAGGTAGACTTGATTCTTGATGGATTTTGTAGTCCAGTCAGTGGGAGGGTGCAGAAATGACTGGGCATGAGTGATGTGTCAGGACTACTGCACACACCTCACAGAGTGCCACAACCTGGGTGGCTTAAAATGTAGAAATGTGTCATCTCACAGTTGGGGAAGCTGGAAGTCATATGTGTATGTAATATATATAAAGACTTCTACCCATTTCCTTAGTCATCAGGAAATGTCGTCAGTCATCAGTCATCCTCCCTCACCTCCTGTTTCAGGGTAACTGGTGCTTTAATTTCTGAGCCTTTCAGGTATTCTGCTGAGAGACTCTGCTTGTTACTTTTTGGCCCCTGCCTCATAGATCTCTTATTCTTAGAGGGGTGGAGAAAGCCAAAACCCAAGACAGTTCTTGTTTGTTCTCCTTCCAGAGTGTTTGTGACAACTCTTCTTTTTCATACCCTTTCTCTTCCTCTCTGTCCTGTGAGTTTATAACTTTTGCACTTCATTTTGCTGTACTTTTTGGTGCAGCTTCATGAAGAAATAGAGGTAAATGTGTAAACCCTAACTTTAAAGAATTCCTTCATTGGGTCATTCGAACAGCGTGCATCCTACAGGTCTGGTACATGCTGTCCTCGGTGCTGGAGGTCCCATAGTGCACAGAGCGTCCCTGCCCTCATGGACTTTAAATTCTAGTAGTGAAGACAGATACTAATCAAGATAAGTAAAGGTATAGTGTGTTAGATAGACAAGTGAGGAGAAAAATTTGAAAGGACATGGGACAGGAAGTACTGGGTGGAGAGGTGTAATGTTTTTAGGTAGATGGCCATGGGAGCCTTCATTAGGAAGGAGTCATTGGAGTAAATGCCTGAAGGAGGGTTGTAGCTGTTCAGGTGTTTGGGGGGAAGGACATTGCAGGCAGAAGGAGGCATCAGAACAAAGGCCCTAGGATGGCAGTGCATGCAGCAAGTTTGAGGAACATCAAGGAGGGCCAATGTGGCCAGATCACACTGTAGGGTCTGGCTTTTATGCACAGTGAGGTTGAAGGGTTTTGAGCAGAGGCATCATGTGGTCTGACTAACCTTCTGTATAACAGAGCCACCGTGGCCACTGTATTGAGCAGAGTCTGTGGGGCTGACACAGTGAGAAGCTATCGCAATATTCTAAGCCATGTGGAAGTTGCACATGGTTGGATTTTGGGTTTGCTAATGAATTGGAATGAGGAATTTCTGAGAGAGAAATAGTCTAGATTATTTTAAGATTTGTGACTCCTGTGGGAGTGTAGAATTTTGGTCTCATATAAGTAGTATTCAGTCTGTTAAAAGAATTATTTGCTAAAGAATAGCCATTAAAATATTTTATGTAATATTGCCTTACAAACCATAACTCTTCTTTTTTAAAG
Seq C2 exon
CTCTTCACAGAATATGGTCGTCTGGCGATGGATGAAATTTTCCAAAAACCCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003330:ENSBTAT00000046152:5
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(5.8=100)
A:
NA
C2:
PF0226314=GBP=FE(6.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]