BtaINT0065468 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011544 | GAPVD1
Description
Bos taurus GTPase activating protein and VPS9 domains 1 (GAPVD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001102520]
Coordinates
chr11:96184788-96188854:+
Coord C1 exon
chr11:96184788-96184907
Coord A exon
chr11:96184908-96188776
Coord C2 exon
chr11:96188777-96188854
Length
3869 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CGTCTGCCCGTGTCTTTCAGGTG
3' ss Score
11.76
Exon sequences
Seq C1 exon
GCATAAGTGCAACCTCTGAGGATATTCCCAATAAGATTGAAGATCTGAGATCTGAGTGCAGCTCTGATTTTGGGGGTAAAGATTCTGTCACTAGTCCAGACATGGATGAAGTCACCCATG
Seq A exon
GTAAGAAGGGGAAATGAGAATGACTTTTATTAATAGAAATGATCACATCCGTGACTGAAACTGTCAACCTTAACACAGTGCTGATGGTGATATCAATTGTTATACATCTTTGGGGCGTTATGTGTATAAGGCCTTAAAATAAGGTTCACAGACTAAATTTCATTCAGTTAATCCATTGTAGGAATCAGTCGTAAGGAAACAGTTGATGTATGGAGAAAGTCTTAGGCACCAAGATATTCTTCATAATATTTATATTGGCAGAAAACTTAAAACAACCTAAAAACTGAAAAATAGAATGGCTAAGTGAATTTTGAAGTAACCACTTATTAGAACTTGCACAGCTGTTTTTTAAATACTTTAAAGAATATGAAATAATTTGGAGAAATACCTAGAACATAATATCACTTGGAAATTTTATCTTAAAGCATTTTATATATAAGATAATAAAATGTAAAAAAAAAAAAAACCTATCCTAAAGAAAGCACTGGGAAGAAGTACCAGAGTGTTAGTAAGTAGTGATTTTATATACTGTGTAATGGTTTTTTTTTTAATTTGTTTTTTAATTGAAGGATAATTGCTTTACAGGATTTGGGTACTGGGTTTTGAAGTACTTTTATTTTTACATTTTTGTTTATTCTAAACCAAGGTTTCTTACCTCAACACTATGGCATTTTGAGCCAGGTGATTCTTTGCTGTGGGGCCTGTCCTGTGCATTGCAGCATGTTTAGCAGCATCTCTGGCCTCTGTTGGAAGCGTACCATCCCCTTCTTGTGCAGTCATGACAACCAAAAGTAAAAGTTGCTCAGTCGTGTCTGACTCTTTGTGACCCTATGGACTATACAGTCATGGAATTCTCCAGGCTAGAATACTGGAGTTGGTAGCCTTTCCCTTCTCCAGGGCATCTTCCCAACCCAGGGATTGAACCCAGGTCTCCCACATTTCAAGCGGATTCTTTACCAGCTGATCCACAAGGGAAACCCAAGAATACTGGAGTGGGTAGGTAGCCTATCCTTTCTCCAGCAGATCTTCCTAACCCAGGAATTGAACTGGGATTGCCTGCATTGCAGGCAGCTTCTTTACCAACTGAGCTATCGGGGAACAACCAAAAATCATTGCCAAATGATCACTTCGGTGGTACAGTAAGCCCCAGTTGAGAACCACTGTTCTAAACCAGCAGTTTTCAGAGTGTCGTGTCCATGGTCCACTGAGGGCCCTTATGACCTCTCAAGGGGTTGGGGAGGTATGAGGTCAAAACTGGTTTCGTATAATAAAAGGTTATTGTCCTTTGTACCATACTGACGTTGCACTGATAGTACACAAGCAAAGATGGGTAAATTTGCCGAGGCCTTTAGGACAAAGCAGGACAGCAGGACCAGGCTACCAGTCACTGTATTCTTTTCTCAGAGTTAAAAAAAAATAAAAGTTTTACTTATGAATGTGTTTGATAAAGCAGTAAAAATTATTTAATTATATATCTCAACCCTTGAGTACACATCTGTCTAATATTCTGAAGACACAGGAAATATCCCTAATGGATTTTTGCTGCATTCTGAAATATGATGGCATGTCTAAGGAAAAGCTTATATGATTGAGTTATGAGCTGAAGTAGCTGTTTTTTTTTTCTTTTTTCATTGTTTGTTTTTTCATGAAACATCATTTTTACTTGAAAGAATGATAAGCTGTAGTTATTGGTACTTGGGTATTTGGCAGACATTTCTTGAAATTAACAAAATGAGCCTGTTATTTCAAGGAAAACAACTTACAGGGTAGAGTTTGTTGCCAGTGATAAAATTCAGGCTTTCAGATAGAAATCAGAATTTTTGAAAGCTTTGTGTCTACCTCCCTGAGCATGACAGATTACTGCTATTTAAAAACTTTTCTGGTGAGATTGGTGGTGATACTGAGAGTGTCATTTTTTCTGGATATTATACGATGAATGGTGTCAACATTTGGAAGATCTGCATTTATCTAGTTGAACCAGTATTTTCCAGATGACCAACACATGATGTAACAAAATCATGCTTGGGTAAAAGATTCCTTCAAAGTGCAAGACAGACCACTTGAATTTTAATGTAACAGTACAAAAAAGTTCGTTGGTCTGGTTTCAGCTTCCAAATTGTAGCTAACCTTTAAAAAATAGTTACTACTGCCAAGGTTTGGTATAGTATTTGAAGAGTAATATCCACAGTTTCCTGAAAAGGCTGTTAAAATATTATCTCCTTTCTACTTGCATATCTTTGTGTGATCAGCTTTTCCTTATATACGTCAACCACAACAGCACAGTGCAACAGATGGAAAGCAGAAGCAGATATGAGAATTTAGCTGTGTTCTGTGAAGGAATTTGCAGAAATGTAAACGTGTCACTCTTCTGGCTTTTTATTTTGGAAAATACAGTTACTTTTCACCTAAAAAGGTTATTTGTGTTACCATTTAATGAGTGTATTCAATTGAATTAATATATGTAACATTTTAATATAAAATTTATCAAAAGTTTAAATGTGTTTTATTTATATATTCTTTTCAGTTTTAATTGCTAGTATGGTTAACTATATTAGATATAACCAACCTTATATGAGATATATAAGATATATCTTATTATATATCTTATAATATATCTTATATTAGTTATAGTATTATATATAACCTTACATATAAGTAAGGTTTTAGGGTTAAGAAATTGTAAGGGACTTTCCTGGCAGCCCAGTGGTTGAGACGCCACACTTCCACTGTCAGGTATGTGGGTTGGAACCTGGGTGGAGAACTAAGATACCACGTGCTGTGTGGTGCAGCCAAAATATAAAAAAATAATTTAAAGAAATTAAGCATGTTTTACATGACCTAAGACCAAAATCTTGAAAACTGATAATTCTAAGCTATCTTTCCTAATGATAAACTATTTCTGTAGTTTTTAGAAAGGAAAGTAATTATAAGACAGAATAAAAGGAAAATCAAATGGAAAAATCATACTATCATTCATTATCAAAAAAGAACTCAGACTAGAAAGTTTAGAGCAACAGTTTCTTTCATATATTTGTGAGTTTTAGTCTCTGCATACTTATGTGTTTTAATAGTCTCTCATTTTGATTGTTTAGACATATGCTTAGAGGGGGCTTCCTAGGTGGCACAGGCGTCAAGAATCTGCCTGCCAATGCAGGATATGCAAGAGACATGGGTTCAATCCCTGGGTTGGGGAGATCCTCTAGACTAGGAAATGGCAACCTGTCCCAGTATTCTTGCCTGGAAAATTCCATGGACAGAGGAGCCTGGTGGGCTACAGTCCATGGGGTCGCAAAGAGTCGGACATGACTGAGCGACTGAGCACTCATGCTCAGAGGAATCATCTTTTACTCTGTAGCTTTAAAATAACGTATTTTAGAGGTTCAAGTTTGTTTTGTGGTATAATGTAGCTTGACTCACTTTTGTTATGAGTTCTCTGTTGCTGAGAACAATAGTGAATTTCAAGTTTTAGAACTTTTAATTTATGCTCCTGCTGTAGGTAGTATTTGTTTTTATAGGTGAAGGCAAAGTGGACTCAGGAAACTTAAAACATTCTGAAAGTTTTGATGATTTTCATCTTCTGACTCTGCTCTTTGCAATAACCACAATATAATTTGGCCATTAAAAGTAATAGGCATATGGATACTAGACCACTTAAACATAATTAAAATCCATGTATGTAGATAAAAACCTAAAGTGAATTTGACGTAATCAGAATATACTATTTATTAGACTGCTTTTTCTGGTATGCCCCTCAAGTTCTGATTGGTCAAAAAGGAAACCTGTGGAAGAGAGAGCCTTTTTCGCTGCGTGGAGACTGCCTCTGAGTCATGACTCCTGAGTTGGTCACACCGTCTGCCCGTGTCTTTCAG
Seq C2 exon
GTGCCCACCAGCTGACCTCTCCTCCGTCTCAGTCAGAGTCTCTGCTTGCCATGTTTGATCCATTGTCTTCGCACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011544:ENSBTAT00000015341:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.976 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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