BtaINT0065553 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006948 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:HGNC:25425]
Coordinates
chr11:98103556-98105851:+
Coord C1 exon
chr11:98103556-98103664
Coord A exon
chr11:98103665-98105805
Coord C2 exon
chr11:98105806-98105851
Length
2141 bp
Sequences
Splice sites
5' ss Seq
CACGTATCC
5' ss Score
0.74
3' ss Seq
TTCCTTAACCATCACCACAGATA
3' ss Score
6.63
Exon sequences
Seq C1 exon
GTGGAAAGGAAGCGCCACATTGGAAACGACATCGTCACCATAGTGTTCCAGGAAGGAGAGGAACCTTCTCCTGCCTTCAAGCCTTCCATGATCCGCTCCCACTTCACAC
Seq A exon
GTATCCTGGGCCTGAGTGAACCCTCCCAAGTTAGCCTCGCTGGACCTTAAATGACCCTCAAGCCTGATGTCATGGTGGACTGGCACGTGCTGATTGTTTTGGTTGCTAGACCCTAAGAGCCACTCTCTCTGTCCACTGCAGCGATGAATGGACTTATTTATTCTCAGAGAATTCTTCACTTCACAACTGTTTTTCCTTTCCTCAAGTATCTATGAAATGAAGGGAACTTCCTACCTTCCACTGATAATAAGGGAATTAGAAGAATTATAGGTAGTGAATCCTCTGAGAAATTTGCTTTAGGTATAAAAAACTTGCAAGCTGAGATAAAAAGCCAAAATAATGTGCCTTTGTTGATTCTAAGTCCTGGGAATGGCTGCTGTATTACCATCTCTTAACATTTGAGAAGTGATAGAATTAATCCTATTTTTATTTGCTTTCCCTCCACTTCCTCTCGTGCATCTTTAGCTCACTTTGCCACCAAAGACCTGAAGTTCTCAGTAATGCCCAAGCTCAGTGCACTCAGACAGGCCTGGGGCATGAGCATGGCCAGCCCGACACATCCCCAACCATGGCCCCATTGTCCTGGGCTACTGGCCATGACAGTGAGACCCAGCTGTCATGCTGGCCATAATAAGTAAAGGCAAGTAGTAGTACCTACAGGTGTTTTTCAGAATAAATTCTGGTCTAGTTATTCATATTCCCTGGAGACCCCAGTAAAGATGCTGGGAGCTAGGACCACTGTGACTCATGACATCTACAAGTAGATTGCTCTGCATCCTCTAGCTTGTTCGCTTATGTCCTAACATTATAGAATGTAAGTTTTTCTTTAAATTATTTATCTGGGGGCTTCCCAGGTAGCTCAGTGATAAAGAATCTACCTGCCAATACAGGAGCTGCAGGAGACACGGGTTTGATCCCTGGGTCAGGAAGATCCCTTGGAGGAGGAACTGGCAACCCACTCCAGTATTCTTGCCAAGATAATCCCATGGATAGAGGTGCCTGGAGGGCTACAGTCCATGAGATCGCATGACAGAAGCAACTGAGCACATTTATTTATTTGGCTGCACTGGGTCTTAGTTGTGGAACTCGAGATCTTTGATCCTTGTTGTGGCATGCAGGACCTAGTTCCCTGACCAAGGATTGAACCCAGACCACTTGCATTGCAAGCAGAGTCTTAGCCACTGGACCACCAGGGAAGTCCCAGTATGTAAGTTTTAAAAGCTGAAAATTGCCATGAGGACAGGGAATAAAACAGGTATGCACATACACATTAATAATAAGTGATATCTTATTCTGGTCACTGGCATGGAGGACTAATATTTCCCCTTTTGTGCAGCAGTTCTTCTTACAGAACAGAAAGAAAATTCCAAGAGGGAGAGGGAGGTGACTCAGAGTAACAGAGAGATCATCATTATTTTTAGAATTTCCTTTCATTATGAGTTTTAGATTTGGGACTGGGCTTGTTTGTTTCTCCAAAGGGACAAATCTAAGAGTGGGAGCACTCTGAGGGATTGAGGAGGGTGGTATTTCAACCCTAGCTAAGAGAAGCTAGGGCTGGGAGATGCTGGGGGAAAAGGAGGAATGGGAGAAGAAAAAAAATGCTGGTGGAGGTGGTACTATTTTAGACTCAACATGCCCAACACGAGCAAAGTAGATTCTGCCTAGAGACTGCCGCCAGCTACACTGGTTTGTTTGGGTTTGTTTTGTCTACTAAAAGCCAGAAGGAGAGAGAGGGAAAGTATACAGTGGATACATTTAAACTGCTTTTCCTTTCAAAATGTTTGAGACGACATATCTGGTTAATTTCATTGGGGATCTTGTATATATTTCCAGGCAAGGGAACTGATCTTTTTGCTCTGGTTTTGCTTTGTTGTAGTGGTTTCATAGCATTATTTACATTGCTTTTCTGACAGATTTGGAGGTGAAGCCCTTTCCCAAAAGGACGAGCATGCAGAGGTCAAACCTGTCTCCCCCGGCTGTCTCTTTTATAGAAGACAAAGTTCCATCTCAACCTAAGGGTGACAGGTGCCCTGACCCCAGGAGAGCAGGTCCAAGATGATCCTGTACCCGGGGTTTACCAAACACAAGCTTTTGACTGTGCGCATCGGGTCCTTAATTGATTTCCTTAACCATCACCACAG
Seq C2 exon
ATATTTTTGCCTTAGTGAGGTATGATCAGCAAAAGGACAATTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006948:ENSBTAT00000009123:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0214510=Rap_GAP=FE(19.1=100)
A:
NA
C2:
PF0214510=Rap_GAP=FE(8.0=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:
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