DreINT0124239 @ danRer10
Intron Retention
Gene
ENSDARG00000068370 | ralgps1
Description
Ral GEF with PH domain and SH3 binding motif 1 [Source:ZFIN;Acc:ZDB-GENE-070720-16]
Coordinates
chr8:32921526-32923546:-
Coord C1 exon
chr8:32923420-32923546
Coord A exon
chr8:32921681-32923419
Coord C2 exon
chr8:32921526-32921680
Length
1739 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAAT
5' ss Score
1.48
3' ss Seq
ATTTCTCTCTTTTTTCTCAGTAT
3' ss Score
9.02
Exon sequences
Seq C1 exon
GTCCCTCAGAAGTGTCCATGTCAGTGAGATATAACAGGAGGCCGACCTGTCCAGATACATCAGTGGTTGCCCACCTCCCAACACCACCTCCTGCTCGACACAGGAAGAGCCACAGCCTAGGAAATAA
Seq A exon
GTAAATACCTTTCTACTCACCCGCACATAAATACACACACGTTTTGGTTTTTACTTCTACTTCAATTTGTTTTCCTTGTTTCATAGTTTTTGTTACTTATGTAATTTAAGTTAAAACTTATAAATACTACAAATAATATAAATACTGCAGGCATATATGATCAACAAAAAGTAGGAGTTAAATATATTTAAATGTTGCAAATATATTTTTGTAATGATGAAAATGCAATTAAGTAATCTAATCTAAATTAAGTAAAATATTCAATGTAAAAGAATAGTGATTTTTTTATCCAATATTAATTTAAAATACAGTTGCAGTTATGAATCGGTAATGATCAAGTTGTAATTTAATGCTTGTTAAATTATAAATAAAATAAACAGAATATTGAATAACTTTTTAAATTATAATTATTATTATCATAATCACAGTGCTCAGTGAGAGTAATATATTTTTACATATACGTTCAATTAATCAGTACCAAATCCAAAACTGGAACTAATCTAACAAAAAAAGTAAGATCACAGTTAAAAAAATTGTAAGGCCAAATTATTATGTCAGGAGAAAATATTAAATCTAATTTTTATAAATAGGAAAAATTAAGAGAACATACAAATATACATAAAAGATTGTTGCAATTTTTTTTTTTTTTTTGCAGTAGCTCATTTGAAAAAAATGTTTACTAAAACTACTGTACTACTGTATATTCTCTGATAAATGATGTCTGAAAAGCCATCCACAGATGTCTAAAATACGTCAGAAAAACATCCTGAAGTCATCCACTGACATTCAAAAGTTGTCCACTGACATCTGAAAAACATCCACTGACATCTTAAAGTGGTCCAGTGATGTCCAAAAAATGTCCACGGACATCCAAAAGGAGTCCACTCACATCTGAAATAGCCATATCATCCTGCAGCCCAAGACTGGTTACTCACTGAAGCTGAGCAAGGCTGAGACTGGTTGGTACCTGGATAGGAGACCACATGGCAAAACTAGGTTGCTGGTGGAGGTAGTGTTAGTGAGGCCAGCAGTTGGCACTCAACCTGCAGTCTGTGTGAGTCCTAATGCCCCAGTAAAAGTGAAGGCGATGTCATACTTTCAGTGGGTGATGGCTTTTGAATGCGATGTTATACTGAGGTCCTGACTCTCTGTGGTCATCAAAAATCCAAAAACCCGGTGTCCTGGCCAAATTCCCTCCATTTACTCCTTACCCATCATGGCCGCCCAATCATCCCTATTCACCAAATTGTCTGCATCACTGTCTCTACACTCCATATATAGCTGGTGTGTGGTGAGTGCACTGGCGTCTTAATCCTGTGGTTGCTGTCGCATCATCCAAGTGGATGCTGCACACTGGTGGCAGTGAGGAGAAACCCCCCTCAGATTGTGAAGCGCTTTGGGTGTATGACCACACACAATAAATGTGCTAAATAAATACACACATTATATTACATTAAATTACTGAAAGATGTCCACTGATGTATGATAGGTGACCGAAAGTGGTCCACTGACATTTTCATATGTCTGAAAGATGTCCAACATTTTCAATATTTCCTGATCTGACATTTATTTTTTATTCATTTGACAGGCAAATTGGTTATACTGTAAATTTAAATGAATATACTGACAAGTTTTGAAGTACACTAGAAATGTCATTTTAATAGTTCACTAGTTTTACAAGGAAATGCATTGCATTGTGGAACTGGCTGATTGTGTTTCATTTCTCTCTTTTTTCTCAG
Seq C2 exon
TATGATGTGTCAGTTTGGTGTTGTGGAGAGTAAAAGTGCAACATTTCCTGAAAAGGAAAAGGCTCGACACCTACTGGATGACAGCTTCTTAGAGTCTCACAGTCCTGTCAGAAACCATACACATGATTCAGTATTCACCAACGGCATATCACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068370:ENSDART00000098840:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.767 A=NA C2=0.415
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCTCAGAAGTGTCCATGTCA
R:
CCAGTGATATGCCGTTGGTGA
Band lengths:
281-2020
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]