DreINT0017714 @ danRer10
Intron Retention
Gene
ENSDARG00000075924 | RAPGEF4 (1 of 2)
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:HGNC Symbol;Acc:HGNC:16626]
Coordinates
chr6:6757403-6759154:+
Coord C1 exon
chr6:6757403-6757493
Coord A exon
chr6:6757494-6759103
Coord C2 exon
chr6:6759104-6759154
Length
1610 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
TCCTATTTTTTTTTTTTCAGAAA
3' ss Score
11
Exon sequences
Seq C1 exon
CTGTCGAGAGTTTAAAAATCTGAACTCTTTCTTCGCCATTATCATGGGCATGTGCAACCCAGCTGTGAGCAGACTCATCCAGACATGGGAG
Seq A exon
GTCAGTGTCGTAGCACATATATAACTCACATATAATGAGTCTCTGAGTCAAATCTCTAATCTGAGTCTGGCTTAAAGGTACAATTAGAGATCTTGGAAAAGGCTAACGTTAGCTTGATAGCACTGAAAACCTAAATGCATAAACGCGCACTAGACAGCATCAATAAAACAAATCACGAAACATTCAACAGAGAAAAAAAATTGTAATATATTAATTACGATTAGTAATTACAATACCAAACTTAAAATAAGTTGTTGATGTTTTCCTGCTGTACTCTGTCTGAACCGTGGCTGTGAACACACCGATGATGTAATTCTTTCTACACGAACAGGCTTCTGGAATTATTACATTTTGTAATGGGCAAGTAGGGCAGCCTGTCATAATGTTTATACTGAATGTTTTGATTGGACGAACTTTTCTTGGTCGTACACCTTTCATAGAATATTAAAATACATATAAATACATTTGGACTACATAGTTTAATAATTGCTATTAGGGTGTGAAGACACTTTCAACCAGCATAATAAAATTGATCAAAACGTACCCGAAAAACGCAAAAGCATACCTACGTATACATTTCTGGAGAGCGCAAAGTATGTAGCCAGAGCTACGTATGGCTGCATTTTGTCTTAAAAAAATTTATACGGGGTGGTATGACACCGCAAGCGGCTTTTGTTTCTTTTCGTGCTACTAGCTAACCGCTTACTATTGTACGGACGGCTTTACCGCTGATTACCAGTTTGCCCAGTGGCTCGCCATGTGCGTTGGTGGACTTAAGACCTTAATGACGGGATTGGAATTCGATGAAGAACGTTTCCAGAAAGCAGGTAAAACAAAAACAAAATGCAAAAAGATAAATAAGTAAATAACAGGGTGAGAATGTAGTAATATCTGAAAACATAGTAAAAATCAAGGGACCATGAGGGCTTTTCTTTTTCTGGATTGCTTTTGAAAACACTATCGGTTGGATTTAGGGAAGTGGGTGGTCACTGATCAATTGGTGCTGTTGAAAACACAATTGGTTGGGTTTAGGAAAGGAGGAAGGTGGGTCAGTCATTCAATCAGTCGACAGCAGCCCCTCGTGTATTTATGTGAGAACAGCAGGCGCAAATAGTACTCATGAGAGAAATTGGAAATTGGAAAAATTGTGAAAACAAAAAACGGCAAAAAAGTACCTCCTGGGACGTATTTCGCACCAGAAATGTATACAGGGGTATGTATCCATAATGAGCCTCGGTTAAAATTGTTTGTGAAGACAATCATCTATTGTACCTTTAACATATAGTGCTTGCGCATGACGTACAATTAAATAAGGAGAGCTTTGGTAATAACTAAGCAAATATTTCATTACAACTATAGAAATTACATCAAACCCTCATCAAAAATGTACACATTTACACACAAACTGACCGCTTTGTGGAGCTGTTGTTTTTATTAGACAAATTGTAAACTTAACATTAAAACCACAGAAGAGGTTTATTCATGGCTGTTTTGATTAAAAAAATAATCACAATACATTGTTAAATTCTGACTTTCTGCATTATGGGTGAACGAATATAAAAATGAGTAATTCGTGAGCATGCATATTTATCCTATTTTTTTTTTTTCAG
Seq C2 exon
AAACTGCCTAGTAAATTTAAGAAGTTCTACGCAGAGTTTGAGAGTTTACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075924:ENSDART00000166607:25
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:
PF0061714=RasGEF=FE(16.2=100)
A:
NA
C2:
PF0061714=RasGEF=FE(8.6=100)
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:
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]