GgaINT0049912 @ galGal3
Intron Retention
Gene
ENSGALG00000009357 | RAPGEF4
Description
NA
Coordinates
chr7:18753689-18755371:-
Coord C1 exon
chr7:18755317-18755371
Coord A exon
chr7:18753817-18755316
Coord C2 exon
chr7:18753689-18753816
Length
1500 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
CATCATTTCTCTTTCACTAGATC
3' ss Score
8.73
Exon sequences
Seq C1 exon
CGCATGATTGCCAACACTGTCAGGACGGTGAAGTTCTGCCGAAGTCAATCCTTCA
Seq A exon
GTAAGTGTATTACAACATCTGCACAGTCAGCATTGCCATCAGTAGCTACAGTAATTACAGTCTGTGTGTAACAGAATTGAAAGAGCCTGGTTTCCAATTAATCTTCCCTGTTTGGATCCTCTAATGTTTCACAGGGTGAACTGTCCTTCTGAAAGTTCCAATAAGCTCATTCTCCTCCATCTCTTTGCAAAGAATGCAAAGGAGCTAAGTTTCTGTGGGGTCTCTACAAAGCCCTCCAATTAAACAGGTTGAAATTAGCCACTGGGCTCAGAAGCAGTTGAAGTGAGGTCAGCAGACAGAAGCATGTAGATAGATGCAAGATGCTCGCTTGCATAAACCCTGCTTTTGTAGGAAACCAGGCCAGAAAGATGACATTATGGATGACATAACTGCCTAAGGTGATGAATTTAAAACTTGTTTGTCAGTGTAATTATCTGAACCTATGTGGGGCCAGGTAAGATGATGGCGCTGCGTGATTGCCAGGCTTGCTCTGCAGGCCTTGTCCCATCTTGGACTCACTGGCGCTGTGTTTCTCAGTGCTTTGTTTGCTTTGCCTCACAGCAGCCCTTCTCCTTCTCAAAGAACAGAATAGATAGTCTAAAAAGTACATTTTTATTCTTTCTATCTGTATCAAAGCATAACTCTTGAATATCGAGGGAGCTTTTTTTCCAGCCCAAGTTTTTTCTGGCTGTATGTCTTTTAATTTCCATATATTAAGCACTAGTGAGACCTCCACCTCACAAGTTATTGAGAAATTGAAATGGATTTTTGCTATACTTGATACAACAAAATGTCAGTAGTTAGATGTACCATATCTAAGTCTTGTGCTTGGCAGGTATTTATGTAGTGGATGCTTCGGTATCTTTCTATTGGAGAAGTTTGTTAAGTTACCTACCACATATTTCATTAAATTGTAAGCTGTCCACTGGGAGGCTGAAGATACTCAAACTGGGAGTTAGTGGTATTTCATAATGTTGTAGGAGTACTTTCAATGCAGCTATACTAAGTACTGTAAATAGGTGGTAAACTTTGAGTCTTGAATGGGACAGCCACTAAGCAGCCACTAAGTGTTACAAGGATTTAATACTGAGATAGAAATGGGAATATTTCATGAAAGGACGCTTAAATCTATTATATGTTTTTGAACCAGTGTGAACACTGCTGGTTCAAAAGCAAACAAGAAGCTTTAAATCATGCTAGTTAGTTTTTGAATTTATAGTTGTTGACAGGTAAGCTGATGTATAAAACCGTAACCAAGAGCCACCAATTCGAGTAAATGTAGCCACAGATATCTGGGAGGAAAAGTTAATTTGTAGGGGCAGTAACCAGAAAGACTATCAGATATGAAGGAAAGGTTTCAAAGAGAGAGATTTCTAAATATTTTCTTTTTAACTCACCAGGATCTGGTGCTTCCTGTGACAGCTTGTAATGAGTTATGCATTCTGTTCAGGCATTTGTTCATTTAAGTGTATCAATCCTACATCATTTCTCTTTCACTAG
Seq C2 exon
ATCCTGACGCAGCCCTAGCTAATAAGAACCATCAGGATGTTCGGAGCTATGTGAGGCAATTAAATGTGATTGACAACCAGAGAACTTTATCACAGATGTCTCACCGACTAGAGCCGCGTCGGGCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009357:ENSGALT00000015238:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.381
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCATGATTGCCAACACTGTC
R:
TTATGCCCGACGCGGCTC
Band lengths:
183-1683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]