DreINT0124630 @ danRer10
Intron Retention
Gene
ENSDARG00000079912 | rapgefl1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:ZFIN;Acc:ZDB-GENE-131121-404]
Coordinates
chr3:23229114-23232668:-
Coord C1 exon
chr3:23232571-23232668
Coord A exon
chr3:23229227-23232570
Coord C2 exon
chr3:23229114-23229226
Length
3344 bp
Sequences
Splice sites
5' ss Seq
CCCGTAAGC
5' ss Score
4.37
3' ss Seq
CTTTGCCTCCTATCTGACAGAGC
3' ss Score
8.03
Exon sequences
Seq C1 exon
GAGCTGTATTTGTGTGCGGTTGACGAGCTCAACCGCTTTCCTGAACTGGTGGAAGACGTGCTGAAACTGCAGCGCTGGACTGAGATATTACACAGCCC
Seq A exon
GTAAGCATCAAATCCCTCTTCGTCTGTATAAGCTGCAAATGTTTTTATGGGTTTAATGGCTGCAGAAATCATAGAGAAAGAGGAAATTATATAGTGCATGAAGACTCACAGCCTCTTAGTTTGTGAAGTACAACATGAGTTGTAAAGTATTAAACGAAGCACATGTAGTTGCCCATTAAGAGCTTTAGAACCAGATGAAGAATTAATGTGGGGAGATTAACTTTTTAATGTGTTGTTTGATTCCGATTGTGCCATTAAAAGCCTCTCAACTGAGCAGCAGTCATTTTATAAACTCTCAAACAGTTTCTTCTGTAACCCAGTTTATTTTTCTGGTTGACATTAAACGGGGATGGTTTATCCAAAAATGAAAATAATGTCATCATTTGGGGATCATCATTCTTGTCCATATAATAGCAGTGAACAGTTATGGCATTAAGCTTTAAAAGAGATGCAAAAAAGGTATAATAATCCAAGTGATACATATTCTGAGTGGCCTGATGTACACAATAGGGTTTGGTGAAAAACATTGGAAACTACATTATATTATTATTATTATTATTAATGAAATGAATACTACAAATGCATGACTACAATCTCACGAGAAACAAACTCCACCATAGTTTAAGTACAGCACCAAATAGTATCCATGTATGTTCTCATTGCAAGTAAATATGTTTGTCACAGCAATATGTTTTTATTTACACTTGTCAGCTGTCATTTTGACTTTCATCTTACTTATTGTGGAGAGAGATTTCCACTTTTTGGGATCTCTAGGTGTTGGGATTACTATTAGATGTTTTATTGATGTTGAATTATAAATAGTGCTTGTAAAAATCAGAATGAACTGTTGCACTAATGTAGTTTGTGCATAAAGACAAATGATAATTAAATATGGGGTTGTTTTTCACCAAAATTACGTAACTTATTACGTACCCTTGAATTTTTTTATTATATGGCATCTCTCACATAAGACCATTCTTTGATAATTTTGCATCAGTGCTGTTTCCACTGTCTGCTCATCTTGGATTTGCAGTCATAACAAACAGTTTAAGAGACTGCCAATACTGGTCTTCAAATTCCTTGCCCATGCATGGACCATTTCTTTCTATCCTTGATGCCATTACTAAACAAATGTTAGCTTAAATAGTTACAGTCTTATGCAAAAGTTTGGCCACCAAATCAACAATTTCATTTGGGCATATCGTATATTGTTTCAGGTTTGTACCTCTATGATGACATTGTTTTACAAACAATTTATTAAATCTGTTTTATCTTTCTGCATTGTAGCTTGGTACAGTAATCTGAGTGTGTTAAACAAGAACAGGTTAAGTAGCCTAGTGAAGGTGGCAGGCAAGATCATTGATTTTAACTAAACTTGTCCAATGGTAATTTACCATACTGATGTTCTAAAGAGAGCTCAGGGTATCCTATGCACCCTGGATCACCCATTGTACCGTGTGTTTCAGCTGTTGCCATTAGGACGTCGTTTTTTAGTTCCTATTAGCAGGACAAATAGAGTTAGAAATTCCTTTATAATGGTGGCCATTAGGTCATTAAAAGAGTCCAGGGAGAAGGGAGATGCACCGACAATGTGATGTATTTGAATGTTGTGGGGTAATATTTTTTCTTATGTACAAGGAACTTCATCTGTGTTACAGCACCTTGCTGCAATTTTAGTTTCCCTAAACGGGATAATAAAGTTGAGTCTGTATATCTTATGGAAGAGCTACATTTTAGTTCAGACATAACATTTATTTAATCAACAGATACAATGCAATTTAATACATAACAAAAACAGACAGATGATAAAATTTGGGCACCCCAACATAATAATGACATCGATCTTTTATAGGGCCACATTTTGCTGAAATAACAGCCTGTAGAAGCTTCTAATAGTCAAGGATAAGTCCCTGAATTCTTGCTGAAGGCATTTTGGACCATTCAGTTCAGTCAGATTTGATGGCTGACAAGCATGAACAGTCCTTTTCAAATCAATCCATAGATTTTTCTGTGGACTGGGGAAGTCTGGGGACTGGGATGGCCATTCTAGAACATTGTATCGTGTCTGAGCAAGAATTCCTTGGTAGATCTAGAACTGTGCTTTGGATCATTGTCCTGCTGAAACATCCAAACCTCCCATGACTTCAGCCTCTTGACTGATTCCTGAACATTGCTATTAACTTAAGACCCAGACAACTGGGTGGATTTCATGTAACCTTCAACTCTGACAAGGTTTCCTGTACCTGTGCTTGCCACACATTCACACATCCACACAGAATGATGGACCCTCCACCATATTTACAGTAGGGAGCAGGTTCTACTCCTGGAATGCTTTGTTCTTTTTTGCCATGGAAAGTGTCTATGGTTGTGGGATCTGTCCACAGAATATATTTCCAAAATGATTCAGGCTTGTCCAGATAAGCCTTTGCTTACCTCAAACGACTCTTCTCGATGGCAGAATTCAGAAAAGGCGTCTTCTGCATCACCTTCCATTGAGTTGTTCTTTGTGAAGAGTGTGCTGAACTGTGGAACAATGACATTATTAGCAGCATGATGATCCTGGAAATCTTTGGAGGTGGTCTGTGGTATGTCTGTGACCATTCTAACCATTCTTGGCCTTTGCCTTTCAGTTTTTTTTTTTTTTTTTTGGTCTTTTCTTCTCAAGGACTTTTCCTGTGCCCTATTTTTGGTCTTTTCTTCTCAAGGACTGTTCCTGTGCCCTTCCATTTTCTTACTATATTTCTGACTGTGGAGATAGAGACTTTAAACCTCTGTGATAGCTTTTTGCATTCTTCTCCTAATTCATGTGGGGGAATTATCCTAGTTTTTAAGTCGTTAGGAAGTACCTTTAAGGTTCCCGTGTTGCTACTTTCAGGTTTACAATAAGGAGAAGCACAACTCGCAATCAGCAACCTTAAATATCCATTTTCATGATCGGTTGCACCTCTGTAAAGATTGTTATGGTTCACTGCATTACTCAAATCAATTTTGTGTTGTAATCATTCAGCATTAGGTGGCTACAGGTTTTGAAATCCAACCAAAAGAGAGGGTGCCCAAACTTTTGCTTATACTATTTTTTAGTTTCAATTTAATTTCACACATCTCAATGCTGCAGACAATTTCTGTCTAAAAAACATGACATTATCTAGCTTTCTCTACAAACCGAATAGCATTTCACTGCAATTTTCTCTTATAAAGAGCATATTATTATGCAGCCATGGAGGGGTGTCCATTATTTTGGATATATACTGTATATACTGTATGGATATAAATACTGTATCTACTGGTAACATAACTTTAGGCACTCAAATAGCTACCTGACTTCTTTGCCTCCTATCTGACAG
Seq C2 exon
AGCCGAGGAGGACAAGGAAAGTCGTAAGAAGCAAGTTCGCCCACTCTTCCGACACTTCAGACGCATCGACGCCTGCCTGCAGCCCCGAGAGGCTTTCCGTGGCTCAGACGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079912:ENSDART00000155658:4
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=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]