DreINT0124590 @ danRer10
Intron Retention
Gene
ENSDARG00000075271 | rapgef5a
Description
Rap guanine nucleotide exchange factor (GEF) 5a [Source:ZFIN;Acc:ZDB-GENE-030131-7681]
Coordinates
chr19:2854720-2856294:+
Coord C1 exon
chr19:2854720-2854810
Coord A exon
chr19:2854811-2856243
Coord C2 exon
chr19:2856244-2856294
Length
1433 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATA
5' ss Score
7.96
3' ss Seq
CTTCTGCCTCTTTCCTGCAGAAA
3' ss Score
12.02
Exon sequences
Seq C1 exon
CTGTAAAGCACAGAGGAACCTCAACTCCTCGTTCGCCATCATCATGGGCTTAAACACAGCCGCCGTCAGCCGACTCAACCAGACATGGGAG
Seq A exon
GTAATAAAAAAAAAACACTGCGCTGATCATAACAATGGCATTTAACATAACACCTCAATGCCACTTCAGAAATCAGTCTAATATTAATTTCTGATTATCAATGGTGAAAGCTTGAAGGTCATACAGGTTAAAATAACCCAGAATCAATTTTTAAGGAAGTACATAATCAGCCTAAGTTCAAAACCATATCCTTGGGCCTGTCACAATAATCAATAAATCGACTTATCGTGCAATGCGTGGACATGATTTTAATAATTTTGGTGTTGTAATTAACATTTAACAATTCACAAATAACATTTAAGCCTTTTTACAGTTATATTTACATTCAACTTCACTCGTTTCAAGGTTTATAATTGGTCCAAGCTCTTTCAAGGTATACAAAAACTTCCAGCCAGGTGTGTTGAAGCAAGTTAGAGCTAAACTGTGCAGGACACCGGCCCCCCAGTTTGGGCACCCCTGCTTCCCTGCTGAAAAATCCAGCTTAACCCTGCCTAGGCTGGTTGGATGGTTTTAGCTGGTCGACCAGGCTGGTTTTAGAAGGGTTTTGGCCATTTCCAGGCTGGTTTCCAGGCATTTCCAGCCTGGTCTTAGCTGGTCAGGCTGGAATATTACCAGCTAAAACCAACTTGACCAGCCTAGCCAAGCTGGGAGTCCAGCCAAAACCAGCTATATCCAGCTTAAACCAGGCTGGTCAAGCTGGTTTTAGCTGGATTTCGCTGGTCATTTTCCATTGGAAATGGCTGAAAACCAGCCTGGAATGTATTCGAATGTAGTATTAGAATAATAGAGAATGGTTTTCACAGGTTTTTGTTTCCAAAAAATAAAAAAATAAATAACAATAAAACCTAATTTTATTAAAACATATTTTTATTATTATTATTATTATTATTATTTGTTATTATTATATTATAATTATATTATTATTATTATTATTGTATTAGAATTATTATTATTATTATTATTATTATTATATTAGAAGCATTATTATTATTATTATTATTATTATTATTATTATATTAGTAGCATTATTATTATTATTGTTGTTGTTTTAGAATTATTATTATTATTATTATTATTATATTAGAAGCATTATTATTATTATTGTTATATTAGAAGCATTATTATTATTATTATTATTATTATATTAGAATTATTATTAATATATAGCTGAAACCAGGCTGGTCAAGCTGGTTTTAGCTGGATTTTGCTGGTAATTTTCCATTGGAAATGGCTGGAAACCAGCCTGGAAGTGGCCAAAACCCCTCTAAAACCAGGCTGGTCGACCAGCTAAAACCAGCCAACCAGCCTAGGCTGGTTTAAGCTGGATTCTTCAGCAGGGTTTATATGTATTTTGAATAGTGTGGCAATTAAAGATGAGATTATAGACAAATCTCCAGGTAAAGCTAATACACACTTCTGCCTCTTTCCTGCAG
Seq C2 exon
AAAGTTCCTGGAAAGTTCAAGAAGCTTTTCTCTGAGCTCGAGCTGTTGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075271:ENSDART00000112414:12
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
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]