BtaINT0065565 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006948 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:HGNC:25425]
Coordinates
chr11:98137744-98139184:+
Coord C1 exon
chr11:98137744-98137851
Coord A exon
chr11:98137852-98139065
Coord C2 exon
chr11:98139066-98139184
Length
1214 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGG
5' ss Score
8.92
3' ss Seq
GACACCCCGCTGCCTTGCAGTCT
3' ss Score
5.79
Exon sequences
Seq C1 exon
ACAGTTGCATCTACAAAAAGGTTTGCCCATTTAATGGTGGCTCTTTTTTGGTTCAACCCTCTGCGTCAGATTTCCAGTTCTGTTGGAACCAGGCTCCCTGTGCGATTG
Seq A exon
GTAAGGAAACCTTTTGTCATCCTGGTCTTCCCCCAGAAAGACTCATCTGAACTGTTCCATCCTATGTGAGCGCTGGCTTACCACTAGATTTTCTATGAATTCTCTGAGTATAATGAGTGTAAACAGTCTTCTTCTTCTGTAACTGTTTTTCATTTTGCTCCCCTTCGGGGACTATTGTCTCTCATTGTTCCTCCCAGGTCTCCTCAGTGCCTGAGGATGTGAGCCTTTGCGAGCAATTAAATATCAGTTTTCAGTACTTGGGTATCTTGCAGTACCCTTTCATTTCTGGGCCTCACTTTCTGACTTCTAAAATATGAGAATTTAGAAAGATTCCATCCTTGAACCTCTGACTGACTTGGGAGAGAAGCATAATGCACTCAAGCAGCCTTCTTATACATTCTGCTTGAAAGTCTAGAGTCACAGAAACCCTGGTACTTGACCTGCCACTGAAATGTCAGGACATGCGTGGTGGTGCTTCGTTTCTGTGGTTCAGGATCCACAGCTGGACAATCTGCCTGGCGAGAGTCAGATCAGAGCCACATATATTAACATTATTGTCCTCAAAGTAGAAGCATTTGTTGATAGGTAAACATGATAGAGTTTTAACTGAAGAGCAGAGGGGTGGAGCCAGGTACTGGGAGGACTGGGTTGGCTCGGGTGCAGATTAGTTATGGTAAGACAGAGAGGGGAGGGTTAGAAATGGGTCTCAGGTCTGAGCCACAGCACTGGGGACCCACTGGACAGATCAAGGCTAGAGGCGTGGGAGCAGTAGGAAGAGTCACAGATGAAACCAGGCGAGCAGGAACAAGACGCAGCCCCCGCCCAGACACACACAGGAGGAGCGTAGGGGAGGGTGACTCAGGGACAGGGAATGAAGGAGTAAAGGCCAGGTTCCTGGACAGAAGGCACGTGGGTAGAGGGCATGTCTGGACCACAGAGGGAAGGTCCTGGGGACCCGGATGGGCAGTGTGCCCAGAAGATGAGGTGGGGAACTGCAGTGGGGGAAGCCGGGACAGTGCACTCCTCCACGGGCAGGTGCTCAGTGGCTGAGGGAGGCTCTCCTAGAACAAGGGGACACGCGCCCCCGAAGGAACAGACACAGCGGAGGAAGGGGAGAGCTGGGCGCCGCCAGAGAAGCGAGCTGGGTGTGAGAGGGCCCCGGCAGCTCCCCAGCCGCAGCCCAGGCTGGGCGCTGACACCCCGCTGCCTTGCAG
Seq C2 exon
TCTGTGCGTTCCCCTACCTGCTGGCCTTCACCACCGACTCCATGGAGATCCGCCTGGTGGTGAACGGGAACCTGGTCCACACGGCCGTCGTGCCTCAGCTACAGCTCGTGGCCTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006948:ENSBTAT00000009123:24
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:
PF0078017=CNH=FE(11.8=100)
A:
NA
C2:
PF0078017=CNH=FE(12.8=100)
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:
TTGCATCTACAAAAAGGTTTGCCC
R:
CTGGAGGCCACGAGCTGTAG
Band lengths:
222-1436
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development