DreINT0071456 @ danRer10
Intron Retention
Gene
ENSDARG00000060631 | garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 (garnl3), mRNA [Source:RefSeq mRNA;Acc:NM_001128527]
Coordinates
chr5:32785310-32787270:-
Coord C1 exon
chr5:32787225-32787270
Coord A exon
chr5:32785417-32787224
Coord C2 exon
chr5:32785310-32785416
Length
1808 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
ATCATTTTGTCATGTTGCAGGTT
3' ss Score
9.13
Exon sequences
Seq C1 exon
ATATTTTTGCCTTAGTTCGATATAATAGCCAGAATGATAGTTATAG
Seq A exon
GTATGTATGTATGTATGTTTTACTGTTTGTACATAGTGAATATGTGGAATTATTTGTTATAAATATAGATTAAATGTTAATACACTGGAAGTGTATGTCTTTAACCATTTGGGGCTAGTAAGTTAAGAAATTTAGAAAGTTACGTAAAGAAATGGATTTTTTTATCCTGTAAATTTATCTTTAATGACTGTTAAGAAATGTACACTCTTCCAAAGGATTTAAGATTTAGAAGTTCTTCTAAACTTTCTATTTATCACTGTATCCTGTAAAAATATATCACACTTTGCACAATTGTTAAAAATGACAAGAATTTTGCTGACCATTTGCATATGTTTTGACCTGCCCACAGCTGGCCACCTTTTGGTCAGGCGTTTTTAATACATTCAATAAAGCCCTCTAATATCAATATATAACCTGATCCTTTGCGACCCCTTATTGGAGTATCCCTTGAACCTGATTTAACAGTCCATGACAGAAAGGTTGTTGCCTTTACCACAGTTTTAGCCAGACGTGCCATACTTCTAAAGTGGAAACACACTTTCCCCCACACATAATATATTATAAGGGATTACTTTCTTGACTACATCAAAGGCCTGCCTATTACACCTGGTACTGGCAACCTGTAACATTTACCATTTTATTAGAAGGGGTTTGTTTGTATTTTTTTCGATCTGTATCCAGTCATGTACTTACTTAAGGTACTTAATTTGTTATTTATGTATTTTTTTTATTATTTATTGTTGTTCTGTTAATTGAGTTAATGAATAAGAGGTTAGGGAATGGGATTAACAATGCACAATTACTGTTTACCTCTCAATATTTAATTTGCATTGTCATACAAAAGACCAATAAAAAGATTGAAATATAGATTCGAAGACTTAAAAGAAATGACAAGAATAAAATAAATTTTACAATATACTCAAAAACAAAACAGTTACTTTACTTAACCCCTTAACTGTAACTGTCCACACGTGTGATGAATTTTCTATACTTAATTATTACATAATTTTGTCAAATCCTGAACTTGTCTTGACAAACTGTATATCAGTTTAGAGTTAAACGAAAGATTAAGGGATCCAGTACATTCAGACCAATTATTATACAGCTTTTCTCAAAATAAATAATTGTATGAGTATGTTATATTAGTGAAACGTTCACCTGTTTGTATCTTATAATCCAGTGTTTCTCAACCATGTTCCTGGAGGACCACCAGCACTGCATGTTTTGGATATCTCCTTTGTCTGTAACACCTATTACAGGTCTTTCAGTCTCAGCTAATGAGCTGATGGTCTGAATCAAGTGTGTTTGGTCAAGGTCCAGGAGACATGGAATATGTTCAGAGCTGGTGATTCATCCAGGAATGTGGTTGAGAAACACGGTTGTAGTCCATTGCGGGGTATGAAACACAATCATTCAATTTGAGCACAACAAAACTACAGTACTAACATTAGAGATATCCTTATGTTTACAATGTTGTCAATAACTGTAACAGAGCAGCTTAGTTTGTATATGATGTTAAAGAGAATGAATCTGCAATACAAACGATGAATGTGGAGAATAACACAGCTCAGAATGTCACAAGAGACTATTAACTAATTACAATCAAGTAATCGGGCCCATGTATTAAATGATCATATTAATTAACACTATCACTTCAATATTAAAATAATTACTATTTCACTGTTTTTGATCAAATAAATGCAGCTTGCTAAATGTAAGAGTCTCCTGTCAAAACTTTTTTTAAAGTTCACCAACTTCAAATGTTTAGTGTATGTTTTCCATCAGTGAATCATTTTGTCATGTTGCAG
Seq C2 exon
GTTGAAGATTTTCTCAGAGGAAAGTGTGCCACTTTTTGGTCCCCCTCTCCCTTCCCCACCAGTGTTCACGGACCATCAGGAGTTCAGGGACTTTTTACTAGTTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060631:ENSDART00000085636:13
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=0.081
Domain overlap (PFAM):
C1:
PF0214510=Rap_GAP=FE(8.0=100)
A:
NA
C2:
PF0214510=Rap_GAP=FE(19.1=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]