BtaINT0065571 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006948 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:HGNC:25425]
Coordinates
chr11:98071113-98072934:+
Coord C1 exon
chr11:98071113-98071212
Coord A exon
chr11:98071213-98072815
Coord C2 exon
chr11:98072816-98072934
Length
1603 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TGAATCCTCCTCTTTTCCAGTCC
3' ss Score
8.33
Exon sequences
Seq C1 exon
AACGCAACTGCTCTGCCAGGTACTTGGCGAAGGACAGACGTGCACTTAGAGAACCCAGAATACCACACCAGATGGTATTTCAAGTATTTTTTAGGACAAG
Seq A exon
GTAATTATGCCATTCCAGTGGTTGGGAAGAAAAGATATTCAGAATGAAAATTAGTGCCAGTGTAATTTCTGGTACCCTGTATATGTGAAACTTATTGGATTAGAGGATACTGAGGTTAGGGCAGTTCATTTCAAGGTCAGTTGTAACCTCTATAGATTTGAGGATTCAATTCCGAGTCTCAGCCCTAGCAAATTTTCTCAGTTTTAAATTTATTACTTATATTTTTAATTTTTTAATTTAATTTTTTGCCAGTTGTTTTTGACCCTGGGGAGTTACAGAGGATTAAGTAGTCTGAATAAGTGATTTGCAAGATGAGAAAAATTTGCAGGGCACAAAAAACTTTAGACTCAACAAAGCCTGTACTCAGTCTGCAGTGGGTCTTGAACACTTGATTCAAGGTAATGAGGAGAGAAACGATTCCCTGAGCTCCAGGGCCAGTACAGAACAGAGAGGCATTATGCTATAGGTTCTGGTGACCAGGGTTTATTTGTCACCTGCCATGTGCCAGACACTGTGCTCTGGCAAAGGTAGTTATGATCCCTGCCCTTGGGACTACAGACTGATTCCTGGGTCTGGTATTATCCATATAGGACCCTATACCAGTTACTCCCACTTCTCTGAGTCTTAATCTCCTTATCTTTAAAGCAAAGATGTTACTAATATGTATATGCCTAGGAGGTTTGAACAGAAGTATCAATGAGGCACAGTAAGCCTGGTGCCTGGCACATACCAAGAACTCTGTCATGAATAGTGGTGTACATTTTGACATGAAGGACTCACGTGATGATACATGGAAAGATGAAAATAGGAGCATGGTTAGCAACAGATGGTAGTGAGAATGGAAGAGTAATCACTATGGCAGGATTAGAAATGAGTTGAAGAAATTGCTTGTCAGGCTAACTCGTTAATTTATTTTTATTGATTTATTTGTAGAAGATGTGATACTTGAGCTATTTGATTGGACCCAAATGATATCTTTTTAAAAATCAGACACTGTATTATTCTAAGTTCATATATTTGGCAAGACATATCTCTTTATAAAGAAAGAAATGGAGAGAGAGTTGCTATCTTCCCAATTACTTGAAAGCCTTTGCCTGGAGTAGTGAGAACTTCTGAGAAAAGTGGTGCCATCAGTTTGGATGCCTTCAGTTGCCTCAACTGGCTTAAATTTCAAGGGAGAGAGCAAGAGGCCAGAGATAGGGCTGGCTCTGGGGTTGCTGGAGTCAGAGGCTCAGTGATGTTGTCTGTGCTGGCCCTCCCCAGAGTTACAAGATGGTTGCAGTAATTCCAGGCATCATTTCTAGACACCATCTCCAAGGGAAAAGGGAAGGCCATCTTCAGCAGTGAGGAAGACTTCTCAGAAACCCCTTGACACACTTCTTCCCTTGTCTCACTGGCCAGAATCGGGTCATATGTTCATTCCTGAGCCCATACCTGGAAAGCATGATTAGGATAGAGTCGCCAGGTTCTGTCCTGAGCTGGGCTGGAGATTACCATTCTCTGATCCTGTGGGAAGGGCTAGCTTCCACCTGCAGTGCCCACTGCTCCCAGTGCCCAGAGGAGCCAGCTGCGTTTTCACATTCTGAATCCTCCTCTTTTCCAG
Seq C2 exon
TCCATCAGAACTACATTGGAAACGATGCCGAGAAGAGCCCCTTCTTCCTGTCCGTGACCCTCTCTGACCAAAACAATCAGCGTGTCCCTCAATACCGTGCGATCCTTTGGAGGAAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006948:ENSBTAT00000009123:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGCTCTGCCAGGTACTTG
R:
CTCCAAAGGATCGCACGGTAT
Band lengths:
207-1810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development