BtaINT0065472 @ 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
chr11:96195503-96197050:+
Coord C1 exon
chr11:96195503-96195625
Coord A exon
chr11:96195626-96196920
Coord C2 exon
chr11:96196921-96197050
Length
1295 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
CGGGGGTGGGATTTGTTTAGAAG
3' ss Score
0.25
Exon sequences
Seq C1 exon
ATGATCCCAGCCCGAGACTCAGTGCACAGGCTCAGGTCGCTGAGGATATTCTGGACAAATACAGGAATGCCATCAAACGCACCAGCCCCAGTGAGGGAGCTCTGGCAAACTACGAAAGTGCAG
Seq A exon
GTGACCATCCTGATAAAGAACGGAATAGGAACTTTTATATCACTGCCATGAAAGTGGTCTGAACTGAAAGTAGCCTCTTTCTTTTTTAACTTTTTCTTTTATATTGGAGTTAGTCAATTGACAGTGTAGTTTCAGGTGCACAGCAGAGCAACCCAGCCACATACACACGTATCCATACGTACACACGTAGCCATACACACACACGTAGCCATACGTACACACGTATCCATACGTACCCACGCGTATCCATACACACACACGTAGCCATACGTACACACGTAGCCATACGTACACACGCATATCCATACGTACACACGTAGCCGTACGTACACACGTATCCATTCTTCCAAGTAGCCCTTTAGTAGCTCCCGTAAACAGTTGTCAAAAAACCATGGTATAATCCCCAAGATTAATATTAGAGCGTCTCTGGAAGAGTCTCTGACAAACTGAACATGAGTTGGCTCAAGGGGGACTCACAGGAGCCTGAGAAAACCACCTACTCTTTTTAAGTTTTAAAATAACAAAAAAGTTGGAATAGTACAGTGAAGGTCTGTTATATTCCATCTGCCTAGACTTACCAGTTGTTAATGTTTTGCCACATTTTCTATATGTATTTTTTTCCTGAAGTATTTGAAATGATCTCCTAAGAATAGAGATTTTTTTTTCCACATAGGCACAGTATCTTTATTACACTAAGGAACTTGTCATTTCTTTTGATTGTATACATGCATGTATTATCTAAATGGATAAATTAGAAACATAAAAATAACTGTGGGGGCACCATAGGTCTGTGCTGGCTGCATTTGTGAGTTTGTCCCCAGCTCATTCTCAGGTGGGGAGGATTGGGGGGGTGTCCCTTGGAGTGAGGATGAGGGGTCTCAGTGTGGCCTGGCCGAGAGGGTCACAGCCAGCTGCTTCCTGACTGGGCAGGATTCCACGTCTGAAAAACGAGAGTGTTATATAAAATGATTTCTGAGACCCCCTTTTAGTTCTGTGGTTCAGTGATTGTGGTTACAGAGTATTATCTTTATTAAGTTAATAAAGGTTTTCATTGTTTTGGATTATAATTGGATAAGAAGTAAAATTATTCTCAATTGCTCTCTTGATATATTATCATTGCAGGCAGTTTATTTATATGTTTGAAGTTTCTTTTTTTTTTTTCCCTTTCTCTCTCAAAGAACTCTTTTCAGAGGGCACAGCTTAATTTATCGTTGAGTTGCTCTGAATACCTACCAGTACTAGAATATTCCGGATTAACTTGCTTATCCTTTTTGCCGGGGGTGGGATTTGTTTAG
Seq C2 exon
AAGTCATGGGTGACGGTGAAAGCGCACACGACTCTCCTCGTGACGAAACCCTGCAGAACATCTCCGCTGACGATCTCCCAGATTCTGCGAGCCAAGCGGCTCACCCTCAGGATTCAGCCTTCTCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011544:ENSBTAT00000015341:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.952 A=NA C2=0.932
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGATCCCAGCCCGAGACTC
R:
AGAAGGCTGAATCCTGAGGGT
Band lengths:
246-1541
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development