BtaINT0121579 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027809 | RABGAP1L
Description
Bos taurus RAB GTPase activating protein 1-like (RABGAP1L), mRNA. [Source:RefSeq mRNA;Acc:NM_001103263]
Coordinates
chr16:57034588-57036418:+
Coord C1 exon
chr16:57034588-57034762
Coord A exon
chr16:57034763-57036210
Coord C2 exon
chr16:57036211-57036418
Length
1448 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TCCTTACAACTCCACTACAGAGG
3' ss Score
3.9
Exon sequences
Seq C1 exon
AATCATAGACCAATCCAACAATATGGAGATAGCATCTTTTCCAATTTATAAGGTATTGTTCTGTGCACGTGGCCATGATGGGACAACAGAGAGCAATTGCTTTGCGTTTACAGAGAGTTCCCATGGTTCTGAAGAATTCCAGATACATGTCTTCTCCTGTGAAATTAAAGAAGCA
Seq A exon
GTAAGTATAATATTTTGTAGCAATTTGCTATTGAGATGACTCAGTATTTGATTTGAGTTGCACAGAGTCGGACACGACTGAAGTGACTTAGCAGCAGCAGCATAGTTGAAATCAAATCGACTATTTGATTTCACTGTCAAATAATTTAGTATGTATGACCATATATCATATTACATAATAAGTTTGGAGTATCTTTCTAAATAGAAAGTTAATATTTGTGATGGCATAGAATGAAATATGGAAATTTAAATCCGGTTACTCTGTGCTCTGAAGTGGTACTCTGAGTTTAACATATGTAACAGAAAAATCCCACTTGATGAGCTGTCCTCCCATCCCACCATGGTGGTAATTGCTCAGGCTTAGAAGGGAAGAGTATTTTTGCCTCTCTTTTATTTTTTTGACCTGGTTGTTCTCTGTGACTTTAAAAAATGTCCATAACAATACCTGTTTCTTTACTGAGCCTTCCACTTAGATATTGCACTGAGATTGTGTTATAGATCTCTGCGGTTTTCACTTGTGATCATTTACTGTGTGCAGTTGTTCAGAGGCTGGCTTTTGTTCTATAAAACTGTTTTAATTGTAAATGCAAATGCTCCTATTCAGCAGAACTGTTTGAAGATGCCAATGAGTTCCTCACACTAATGATTAAATGTTAGTTTATTTTTAGACTCAGAGTCAAATGGCTGTTATGTATATACATGGGGAAATTGCTTTCTCTTTGGTATCTATTGAATTCTTCTCAAATTAAAAATAAGTTGCACTTTTAGAACTTCGGTAATTATACAGCAATTTTAGAGGCATTAATAACTGGGTTTGGATGGACAAATCTCAGTTGTGTTTGCTTTTGGAAATATAAGTTGTCAGCAGAAAATGCTAAAAGCAGCAGTTACTCTGTTTTCTCTTTACTGTGAAACGTAAATAAACCATTGTATGAACAGGAGTTCTGAGAGTTTATTTCTGGCCACAACATGGGAACTCATAGAAATTTATATTTCTGTGTGTCTGATACTAAGCATGAGCAGTATGTCACTTGTTATGCCCTGGTGATCGATTCTATTTACACTGAAACAAACATGTACAGACATAGAAGTTCTCTGTCAGAGCTGTGCCCATGTGAGGAGTTCACATTTGTTTTGTTTGTTTTAGGCAGTTCTAAATCTATCTAAAATAGTTCTGTTTTATCCATGTGTGTATGTTGCGTGTATATAAATATATATATAAACATGTGTATACATAAATATGTATATAAATAGAGATACATATATCAATACATATACCAGTATGTATACATATATGCATGTACTGACTGCTTGGCCAAGTGTTTGATAGAGTGAATGAGTACAAGTGTGTCTGGTACATAGGAGACAGTGAATATAAATATGTTGAAAGAATGTATGTGTGTTTGTGAATTAGGGAGTCTATTTCTGATCCTTACAACTCCACTACAG
Seq C2 exon
AGGTGGGGAAGCAGATGGTAGAATCCTGGCATTTCATGTTGGCAACCATCATTTAACATGCCTCTGTGGATTCTGGATAATTGGCACTCAACAATTAAAAAAATGAACTTTGAAGAATTGGAGAACCTGCTTCTTGGAGAGGCAGAAACACTGCTGTGGAAAGAAATTGAAAGGCACCTGGTTGCAAGCATTTTTCATAACTGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027809:ENSBTAT00000019777:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064018=PID=FE(53.7=100)
A:
NA
C2:
PF0064018=PID=PD(0.1=0.0)
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:
TCCAACAATATGGAGATAGCATCT
R:
TGCAACCAGGTGCCTTTCAAT
Band lengths:
348-1796
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development