DreINT0124479 @ danRer10
Intron Retention
Gene
ENSDARG00000043593 | rapgef1a
Description
Rap guanine nucleotide exchange factor (GEF) 1a [Source:ZFIN;Acc:ZDB-GENE-081105-26]
Coordinates
chr8:11751980-11754049:-
Coord C1 exon
chr8:11753974-11754049
Coord A exon
chr8:11752065-11753973
Coord C2 exon
chr8:11751980-11752064
Length
1909 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCCTGTGTGCTCTCTTGTAGATC
3' ss Score
11.93
Exon sequences
Seq C1 exon
AACGACGACGGCCCTGATGTTAGAGCGGGATCAGGCGATATTTTATTAGTTCATGCCACTGAAACCGACCGCAAAG
Seq A exon
GTAAGAATAATCTCTTCTAATCTGGGCCAGTCAGATATATTGTGTTGAATGTTTATTTAAAAAACAACACATGTGCTAAACAATATAGAAGATTTCAAATGTGATGTTAAACTGACATTTAAAAGTTTGGGGTTGGAGAGATTTATTTTATTACAATTTACAATAGTTTCATTCAGCAAAGATGCAGTAAATTGGTCAAAATTAATTATATGATAGTAATCATTTAATGTTACTGAGGCTGCATTTACACTGCATGGTTCAAGTGACTCAATTCTGATTTTATTTCTCTCATGTGGCACAGATTTGGCCCGTGTACGTGTAAGCAGGAAAAAATCACATGGATTCCGATTTACTCAAATCAGATTTAGTTCTAGTTCATTAGTGGAAATGTATCTGATATGAATCGGATCCATGTCCTCGTGTCCGCAGTGTTAGCAGGGAGATCGAATTTTCACCTGCCAATTCGAGTCACATGTCATTAAAAACCATATTGAATGATGTCATCTCTGACGCTTTCATTTAAAAACAGACTTCAGCAGAGTTGCAAACCTTAAATCTCATACACAGGAGCTAAAAAAGCTTTTATATTGTCATGTAGCACAAGTATTTAATGTTAACGAGAGAGAGAGAGAGAAAGAGAGCTCGAAAGAGCGTAATATTCGCCACGTAACCAATATAACCTAATATAAAACTATTGCATACATTACGTGCAATAATCCCCCCACGGACATTATATTAAGATGCCTACTGGTTTAAAAAATTAAAAGTGTCACACACCAGATGCACACATTCGCATGGTATTTAAAATAAAACTATTCAGATGACGCTCTGTGGCGCAGCAGAAATATGAACAGTGTCCTGAGTCATAGCTGGGCGCCGCTGACAGCCGTCGACTTGCGGCACAGGTTTGTGTACCCTGATAGAAACCTATGTTTAGAATTCTAAAATGCATAGCGCTCCGTGGCGCTATGCGGCATGGCGCTTCTGGTGTGCGACCTGCTTTAGGCGCCACATCAGCGTATTATATTGATTCCTAAAGGATCATGTCACTAGCTATGTATCCACTCAAAGATGCGCATACATTTTTTTTGTGCATTTTCAAAATTGATTTGCATCTTGGCGTTTCCGTCAACCGTTTTTTGTGCACATATCAAAAATGCGCATAAAAATAGGTGGATGGATACATAGCTACTGAGATAAAAACTGAAATAACAATGCTGAAAATTCAGGTGTCATTACAGAAATAATTTACATTTTAAAATAAATGACAATATTTTAACTGTAATAATATTTTAGCGCGTCTCAGTACTGGGTTGCAGCTGGAAAGGCATCTGCTGTGTAAAACATATGCTAAATAAGTTGACCCCTGATAAAAACGGGACAAAGCCGAAGGAAAATGAATGAATAATATTTTAGAATATTTGACTTTACAGCAAGAAGGTCGCTGGGTTAAGCCTTGACTGAGTCAGTTGACATTTCTATGTAGAGTTTGCATGTTCTCCATGTGTTGGCGTGGGTTTCCTCCTCCGGTTTTCCCCACAAGTCCAAAGACATGATGTTTAGGTGAATTGGGCAAGCTAAACTTGCCCGTAGTGTATGTGTTTGTGAATGACAGTATATGGGTATTTCCTAGTGATGGGTTGCAGCTGAAAGGGCATCCGCTGCATAAAACATATGCTGGATAAGTTGACGGTTCATTCCGCTGCGGTGACCCCTGATTAATAAAGGGACTAAGCCGAAAAGAAAATGAATGAATGAATATTGCTGCTTTTTTAACTTCGATTTTGACCCCAGACCTTTGAATGTCAAATGAATTCATTTCTAACAATGTTTTCACATTTATGTCGCATTGTTAACTCTTGATCTATAATTCTGATTAAATAAATGTACCCTGTGTGCTCTCTTGTAG
Seq C2 exon
ATCGGGTTTTATACTGTGAAGCTTTCTTGACCACGTACAGAACATTTCTAACCCCAGAGGACCTCATTAAAAAGCTCCGCTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000043593:ENSDART00000139947:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(29.4=76.9)
A:
NA
C2:
PF0061815=RasGEF_N=FE(24.8=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]