DreINT0124579 @ danRer10
Intron Retention
Gene
ENSDARG00000079872 | rapgef4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:ZFIN;Acc:ZDB-GENE-070912-385]
Coordinates
chr9:2943252-2947489:-
Coord C1 exon
chr9:2947435-2947489
Coord A exon
chr9:2943712-2947434
Coord C2 exon
chr9:2943252-2943711
Length
3723 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TCTTTTATTCTCCTCTACAGATC
3' ss Score
11.84
Exon sequences
Seq C1 exon
AGAATGATTGCAAACACAGTCAGAATCATAAGATACTGCAGAAGTCAACCATTTG
Seq A exon
GTAAGAAAACAATTCAATTCATCTTCATTTCTATTCTAACCTCTTACATTGTAATCTGAGGGTGCTTTCACACCTGTGAATTGATTCAGTTGTTCCGAAACAGAGATTACAATTGTTACATTGTTGCTCTTTGCTCTTGGAGCGGTTCGCTTTCACACTGCAAAGTTTCTAATCGGACCAAAAGAGCTAAAACAAGTCACGTGCGAGTAAACTGTCCTTACATTGGTCAGAGTGTCAGGGTTTATTTTGCAGCGTCCCGCTCAGCTGTCAGGAGAGGTGGTGGTTTGGTGGGGATTGACAGGGTGCGTGCGCGCGACATGTTTGAGGAGAGACGCGGTGGGGAGGGGTGAGAAGTGTGCGCGACGATGCCTATTTGAGGGAGGGAGATGCAAGATTACCGGGAGATCATCACTCGTTTGTGGGCATCCGGAGACTCGCGAAACTTCCCGCCCTACTCATAATTCTCTCTTCATATAGCCGTAAGCCTATTACATATCCAAAAACACTGTGATATGACCGCACTCGGATCGGATCGCTTTCTCACTGCAATCGAACCGCTCCAGGGTTCGTTTCAATCGAGCCGAGACCACCTCACTCAAGCGATCTCGGAGCGAATACTTTGGCGCGGAACAGAGCGTGATTGCCCTGTCCACATATGCCAAACGAACCGCGCTAACTGGGCAAACGAGACACGTTCCGAAACAAAAGTGTAGGTGTGAAAGCACGCTCAGAGTGCTTTCACACCTAGACCACCACCTCTCCTGACAGCTGAGCGGGACTCTGCTAAGGCCGTACTCACACTAGGTACAGTTGCCTCAAACCGGGCCAAAGCACGCTTGTCCCCCCTCCCGTCTCCCCCAACGGCCCGGACTCACACCACAAGTGGGCCTCGGCAAGCTTACGTCATCGCTGCTGCGCTGTTCAGTGAGAAGCGCTCTCTCACTCAGCAGCACAGCGGAGATTTCTCTAGTTATATCGTTTCAGTCGTTTGTTATGCAGTGACATGCAGTCAAATATTTCGCCAAACAGTCCTTAGGGATGCGGTGACACGCAGTCAGATATTTCGCCGCAGATCCGCCACTTTTGGCGCTCATAAACAATCATAAAGCTCTCGTGCTGCAGGAATGAGGAGGTCTGCTGAAGCCGTGCAGCTGACGTGCAGTGAGGAGATCTCGTCTTTAATAAACTACGGCAGTTTGCGTTCACTGAACAGTAAGAATGATTAATAAATCCATATGAAACAGCCCCTTTAAAAGTCCCGTCTCGCTTTCAGTTTCTGGCTTTGGCGCGTTTTGCACTCACACACAAGCGTACCGCACCAAAGCCCAAGTGATCCGCGCTCTGGCACACCTCTTCCAACCGGGCCAGGGCCGGCCAAGTGAACCGTGCTTGAGCCCGATTCAGCGCACTCACACTTCTCAAACAATCCGGGAAACGGGCCTGGGCACGGTATGGATGGCAAAGTGTGAGCAGGCCCTTAATAAGCCATTTAACTCTGACCAATGTGAGGAGAGTTTACTCACACGTGACTTGTTTTAGCTCTTTTGGTCCATTTAGAAACTTTGCAGTGTGAAAGCGAACCACACCAAGAACAAAGAGCAACAATGTAACAGTTTTAATCTCTGTTTTGTAACAACTGAATCGATTCACAGGTGTGAAAGCACTCTCAGACAATGTAGTCGTATCGTCATATCTGTAATACACTTTGTTAACATTTGTTTTAACTACCTGCGAAAAGCAGCAGATTTAAATATGCGTGCAATAGTAATAATAAAAATAGCTATAAATGTAAGTTTTCTGAAGAAAACGTGAGCGGCGCAACATCACAATATCTCTGCTTCTGAACATCATAGAGACCTGGGAATTGTCGTTTTTGACTAGCTACAAGCTAATATCGAATAACTAAACACTAAAACATGCTGCAAATCCATATAAAGTATGCTAAGTTACTTTAAAACATGTTATAAACTTTGTCAAAGGTTAAACTATTACTAAAAATGTCCTAACTGTTACGTTTGCCCGATTAGTATATTGCTATAATCAAGCTAGTACCAGATTTAAAAAGGCATGCAATTATAATAATAATAACTATAAATGTATGTTTTCTGAAGAAAATGTGAGCGGCGCAACATCAATATTTCTGCTTCAGAACATTATAGACTTCTTTTGACTCATCAGTGTAGCATTGACTAGCTACAAGCTAATAATGAATACTTGATTGGACATGATTTGAAAAGGCTTACACCAGTCTATATAAGGTCCCAGGGTTGACAGTGCATGTCAAAGCAAAAACCAAGCATGAAGACAAAGGAACTGTCTGTAGACCTCCGAGACAGGATTGTTTCCAGGCACAAGGCTGGGGAAGGTTACAGAAACCTTTCTGCTGCTCTAAAAGTTCTAATGAGCACAGCTGCCTCCATCATCCATAAGTGGAAGATGCTTGGAACCACCAGGACTCTTCCTAGAGCTGGCCGGCCATCTAAGCTGAGTGATCTCGGGAGAAGGGCCTGACTCAGGGAGGTGATCAATAACCCGATAGTCACTCTGTCTGAGCTCCAGCATTCTTCTGTGGAGAGAGGAGAACCTTACAGAACCATCTGTGCAGCAATCCACCAATCAGGCCTGTATGGCCAGATGGAAGCCACTTCCCACCTGGATGTTGCCAAAGGGCATCTAAATGACTCTCAGACCATAAGAAACTTAACTCTCTGGTCTGATGAGACTCAAATTGAACTCTTTGGAGTGAATGCCAGGTGTTAAGTTTTGGAGAAAAGCAGGCAGCGCTCATCACCAGGCTAACAGCATCCCTACAGTGAAGCATGTTGGTGGCAGCATCATGCTGTGGCGGTGTTTTTCAGCAGCAGGAACTGGAAGACTAGTCAGGATAGAGGGAAAGATGAATGCAGCAATGTACAGAGACATCCTGAATCAAAACCTGCATCAGAGTGTTCTTGATCTTAGACTAGGCCGACGGTTCATCTTCCAGCAGGACAGTGACCCAAAGCACAACGCCAAAGTATCAATGGAGTGGTTTCAGAACAACTCGGTAAATGTCCTTGAGTGGCCCAGCCAGAGCCCAGACCTAAATCCTATTGAACACCTCTGGAGAGATCTGAAAATGGCTGTACACCGTCACTTCCCATCAAACCTGATAGAGCTTGAGAGGTACTGCAAAGAGGAACTGGCAACAATTCCCAAAGACAGGTGTGCCAAGCTTGTGGCATCATATTCAAAAAGACTTGAGGCTGTATTTGCTGCCAAAGGAGCATTAACAAAGTATTGAGTGAAGGCTGTGAATACTAATGTGCATGTGATTTTACAGCTTTTTTATAGCTAATAAATTTGCAACAATTTCAAAAACTCTTCTTTCACATTGTCATTATGTGAATAAAGTAAAGAGCTATGAATACTTACCGGACGCACTGTAATCTAAATTGGCTGTAGTGTATGAGTGGGTGTGTGTGTGTGTGCGTGTGTGTGAATGCGAGACAGTTTGGGTGTTTTCCAGTACTGGGTTTCGGCTGGAAGGGCATCCGCTGCATAAAACATATGCCAGAATAGTTGGTGGTTCATTCCACTGTGGCGACCTCTGATAAATAAGGGACTAAGTTGAAGGAAAACGAATGAATGAATGAATTAATAATCTATTTGTGTCGCGACAACATGAAGGAGTTGTGTGGAACCCAGCTCAAGCTGAAGTGATTCTTTTATTCTCCTCTACAG
Seq C2 exon
ATCAGGAAGCTCCGCAGGCGACGGGTAAAAGCCATCAGGACGTGCGCACTTACGTCCGCCACATCAGCGTGATCGATAACCAGCGCAGTCTATCACAGCTGTCCCACCGTCTAGAGCCCCGGCGGACATGAAAACCCCACAGCTTCACCTCCACCTCAGCCAGAAGATAAGCTAGAGCAACACAGCAGCCAAACACAAGGGCTTTTCCCCCCCGCGCCGGCTTGTCTCAAAGTGTGGCTTCGTCTCGGTGTGCGGATCTGCAGGCTTTCTCATATTCTGCCACGAAAGACGAAGAAGACGATGCTGATTCGAGATGCTGCTTCTCTTTATTTACAGGTTTCTGAACAGTTTGACACCATACACTAATATTGGCATCCTTGGTAAATAAGAGGAAAGAATGATTTGGAAAATGTTGTTTTATGTTTAATGATCTTTTCAACGCAGGCTCATTCTGAAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079872:ENSDART00000144046:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.535
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]