BtaINT0122296 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020791 | RAPGEF1
Description
Rap guanine nucleotide exchange factor (GEF) 1 [Source:HGNC Symbol;Acc:HGNC:4568]
Coordinates
chr11:101744409-101747829:-
Coord C1 exon
chr11:101747557-101747829
Coord A exon
chr11:101744498-101747556
Coord C2 exon
chr11:101744409-101744497
Length
3059 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
3' ss Seq
GCTCTGCCTTCTCTTCCCAGGAG
3' ss Score
10.54
Exon sequences
Seq C1 exon
TACAAGTCCGTGTTTAGGTCCTACTCGCAGGATTTCGTGCCTCACAGCCAAGCTTCCGTCCAGCCTTTCCTTCCGTCTACCTCCTCTTCCTCTCCACACTTCCCACCTGTCCACCAGTATCAGAGCTCTGACTTAGCCGTGCCGCCCGTGGCCAGTCTGCCTCCCAGCACCCTGGACGGGCCTCTCTCATCTTCTCAGGAGAGCAGCTTTCACGGGAACACTGTCTGCCTTCCTTCCGAAACCTCTTTCACTGACTCGCCCCAGACGCCTTCG
Seq A exon
GTGAGAACTCAACACACACACCTCCACGCGGGGCTGCACATTCTGAGAAAGCCTCCGCCCACTCTCGCTGTCAAGGCCATTGCTGACATTGGCCCCGTCGCAGTGTGGCTGGGCTGAGGGGTGCACAGGGCCCCCTGGTGAGATGGTAGCCCATCAGCTTCCAGAACAGAAATGAATTCCCTGTGGATTCCCAGCAAACTAGGATCTGATTTTCCACAGATGGTCAGTGGCTACTTAGAGACGATCTGTTGTCCTAATCGTCAGGTGTAAATCCTGCTGGTCTTCCGTGCGGTTGGGAGATTCTAGAGAAGTGCAAAGAGGCCTCTGATGGCCCAGAGGCAATTGCGTGTAGAGTTGCTGTGGCACTGGGGGTGGGGGCCTGCTTGCCGTGTGGCCAGGCGGCCCGCAGTGCCTCCTCCGGGCTCAGGGCAAGGCTGCTGTGCCCGGGGACGGGGACAGGGCAGGACAAGTGCAGGCGCCTGCAGCCAGCCCTCCAGCGTCTCCTTCCCTCCGTGACTGCCCCCCATCCTGCGTGCCCTGCCCTCCATGATTGCCCCCCATCCTGCATGATTGCCCCCCCCCCATGATTGCCCCCCGTCCTCCGTGACTACCCCTGTCCTCCGTGACTGTCCCCTGTACCCTATCCCCTGCCCTCCATGATTGCCTCCCATCCCCCATCCCTCGTCCTCTGTGATTGCCCCCCACTCCTGTGATTGCCCCCCGCCCCCCATGATTGCCCCGTCCTCCATGACTGCCCCCCGTCCCCTATCCCCCATCCTCCATGATTGCCCCCGTCCCCTATCCCCCGCCCTCCATGATTGCTCCTCGTCCTCTGTGACTGTCCCCTGTCCCCCGTCCTCCATGATTGCACCCATCCCCCATCCCCATCTTCGGTGATTGCCCCCGCCCTCCATGATTGCCCCCCATTCCCTGTGATTGCCCCCCGTCCCCTATCCCCCGCCCTCCGTGATTGCCCCCTGTTCTCTGTGACTGCCCCCCGTCCCCTGCCCTCCATGACTGCCCACCGTCCCACATTCTCCTGCCCTCTGTGACTGCCCCCTGTGCCATGCTGTGGCCCCTGCTGTCCCTGCTACAGCAGAGACGGAGGAGTATGCCTCCTCCAGGGCACTTTGAGGGCTAAAGTGCCCTTGACATCTTTGGAGAAGCTCCAGCAGGAAATCTGAGTCCCCTCTGACAGAGGCAGGGAGTGGAAAAACAGCTTTGTCCCCTGACCCTGGGAAGATCCCCAGGGAATGGAGGGCACCATCTTCCCCTCCTTGAGAAAGAACGTCCCAGTCAGGGCCAGCCTGGCGGGGCCATCACAGGTGGGTATCTCTCATCCTGTCTCCCCCAGAGTGAGCACGCCTGTGAGGGGGACTACGTCAGTCTGTATTGCTCTGGCCAGAGCAGCGAGGAGCTGGCCCGCCCTCGAGGAGTAAGTAACCTCGGGCTGCCTCGTGCATGCGGCCAGGCCTGCGGCTCGGCCCTGCTCCCATCGGCCTGAGGCTCCCGTCGGCCTGAGCCTCCTACTCAAGAGCTGCCGGGCCCGGGGCCGACCTGGCTCTCAGAGAGGACGGGGCTTCCAGTGCAGCCTTCTTTGCTTTTGCTTCCGCGTATGGGTCCCCTGCAGCCTGACCGGCTGGCCTGCTGGGAATCACAGAGCAGCTGGCTCGGCCCCGGTTGGCTACTCTCAGGGATTTCTTCCCACCCCATCTTCCGGTGTTGAGGCCTGTCTCCTGTCCATCCTCTGAGGCGGGGAATTCTCCCTCTCCCGCACTGAGCTCTCCAAACCAACACCCCTCCACCAGCATGCTCCACGACCACGCCCCTGCTCCCAGGGCAGCTGGTGAGACTCCCAGGCCTCACACCGTCGTGGTCGCCCTGGTCTTCTGCTGTGCCAGTGCCAGGCAGTTGAGGGGCCGTGATTCAGCTGAGCAGTCAGCTGTCCAGGTTTTGCTGCAGCAAAACATGAGCAAGTGCAGAACCTTCCAGAATAACTCTCCCACCCTGAGCCAGGCCCAGTCTCTAGAGGGGGTACCCTGAGGGTACTCCGTCCTCCTCTGGGGTCAGCTCAAAGGGCCCAGCCGTTGAAAGCATGGTCACTCTTATTATGATGACCCCGTAGCACCTCAGATATCCACACAAGCAGGCCCCACTTCAGGCATTAGCAAGCTGTAGAATGAGGTGGAGTTCCCACTCTGGTGGAATCCAGCCTGGTCCCCGAGAGCTGTTTTTCCCCAGGTGTCCCCTTCATCTTCCAGGTCAGCCTCTGTACACGGAGCCCGTCCCAGGCTGACATTCCTGGGCTCCCCTCCCCCTGTGACCCTCCATGAGGACGTTTCTGCATCTTTGTGTCCCGCCCCCCAGGTCCCCCCTTCTCTGTTGCAGCCCGGGCAGCAGACCAGGGGTGCCAGGGCCGTGTGGTCACTGAGAGGGGTGGGCCAGGTTCCTGGGAAGAAGCCAGGGTGCTGGAGGAGGGGAAGGGCTGCCTTGTGCTCCTGAGCAACGAGGCCCTTGGGAAGCGTGATGGGGTCAGGTGAGCACTGTGGTGCTGAGGGCGTCAGTGACTAGGAGGTCAGCAGAGGTGTGCTGCACACCCCAAGGCACAGCGGGCAGGGCCGTAGCTTTCAGCTCTGGCGTCAGGGGCAGGGCTGTGTCCCTCCCCACAGCCTCTGTTTCTCTGTGTGCCCGGGCACGTGGATGACCGCCAGCTGGTAGGGTGTTGGTCAGGGCCACGGAGGAAGGGCATGCACTGGCTGAGCTTGGCTGTGTGGTAGGTAGCCCCTGGGGCGGCCCTTTCTGCCGGGAGGTGATGGGATGGCTCCGTCTAGGCCGGCAGCTGACAGAGGCTCTGGGTAGTGGAGCCTTCACTCTCCCTGAAGGCAGGGTACTGGTCGGAAGAGGCCGTGCTTCCTGTGTGCCGGTCGCGGTGGACGCGTTTATATCTCAGGCCACTCCCTGGGAAGTCGCGCTCCGAAGCCGCATGCAGGCAGGTGCTCTGCGGAGAGCAGCCCAACAGGGGCGGCTGTCACACACCCAGCTCTGCCTTCTCTTCCCAG
Seq C2 exon
GAGTCACCCGCGGCGAAGGATGGACACTCCAGAGACGCCACATCGGCCAGCTGTGTGCCCGGGAAGGAGGGCAGGGACAGCGGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020791:ENSBTAT00000032663:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.802 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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