DreINT0071473 @ danRer10
Intron Retention
Gene
ENSDARG00000060631 | garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 (garnl3), mRNA [Source:RefSeq mRNA;Acc:NM_001128527]
Coordinates
chr5:32801845-32805503:-
Coord C1 exon
chr5:32805429-32805503
Coord A exon
chr5:32801945-32805428
Coord C2 exon
chr5:32801845-32801944
Length
3484 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGA
5' ss Score
6.42
3' ss Seq
TTGGTGGGGCTTTTCTGCAGATC
3' ss Score
7.17
Exon sequences
Seq C1 exon
CTCATCTCCAGTGATGCAGATGGGGCCATACAGAGAGCTGGCAGATTCAGAGTGGAGAATGGTTCAATCGATGAA
Seq A exon
GTAAGATACTTATCAAATATTTTAGTCTTATATCTGTGAGTGTGTGCACTATATGTGCTGGCTTATGATACACATGTACAGCAAGTGTCATAAAACAATTATGAAAACTGACAAGCTTGAAACGAAAGGCACTGTATGTCATTTTTATCAATAGAGAGTGCATTTTCACAACAAGCAAAGGCATAGTTAGATGACACGTGACTTGAGTGTGGAATCATGGGAGTTATGGTCTCAATTACATCCTATGGGACTCCAGAAATCATGCTCATGGATGAACTAAAGTAGAAGACACTAAAGAAGAACTAAAGTCCAGTCTTACTATCATGGTACTGTAGTTTGAAGCATAGTAAGACTGAAATGTGTCGAAGCAAAATGAGATGTTGAAGCAATTGCTGATAGGAGGCGAATGCTTTTAAGTTGACCACTTCCAGTTCATGATCACAGGCTGTTTTATACTAAGTTTACTTATGCTATATGTAAAACACACAACATATTAAAGTCTTTGGTCATTCCCTGTTTTCTATACAGACAAACTGAAAAGCAAAGGTGTATTATTAGCATATGTGAAAATAAGGGATACTCAACCCCTAAACCCGTCACTTTAAAAATGCACAGATCTATTATGAACGCATTTGATTGTTTTCCTGTATGTTATGCTCATTTAAGACCAAATTTATTGTGTTAAAAGGAAAACCTATCAAGATCGACATGTTTAAATATTATTTTTATTATTGTGTATATGTCTGTTTAAACATCCACCCAAAACCCAGATTGTCCACTTTTACTCCGCGTGTACAGAATTTACTACACGTGTACAGAATCTGTTTGGGAAACAGCATCTATTTATCACTATGGAGCACGTCTGACAGTCACGCACTGCTACATAAACTGCCGTTCTTATATTTATTTCAGTGTTTTCAAGCCTAAATAAAATGAAAGCACAATTCACGATTAACGCCTATTCACACGGGGCGTCAGCTTCAACAATTCCCATTCACTATGAATGGGTGACGTCAGGCGTTGCCGAACTGCATTGTGGATCCATCGGTGCTGCCTCAGAGGCGTTGTTCGCTGCAGATGTTGCGACTTGCTCAACTTTATAAGCGCAGACGAAAGCATCAGCCAATCAGATCGCTGTATGCAAATACACCAGCTCAGACAGTGGCCTATTGCTGACTGATTTCATTAGCTGACCCTGCTATGACGATCGCATCAGCCCCAACTTTAGACACGACCTCTGTCAATCGATGACGCTGAAGCCTCGTTTGAATGGGACGTAAGAGCTAGCGGTGCTCCTTGGTGGTTCAGCGGTATGGGTTGTGTATAGGGAGGATCGGCTCTTTAATGTTTATTGCCACCCTTCCTAAAAAGATTGAAAATACTTAAGAAATACAGGAAACATTCTTTCCAGGATGATAGCAGGATAGAATTGTAAAATACAGGAGAATCCCGGAAAAAATAGGAGGGTTGACAGGAATGATCATTAGCATGGCAGCACAGGATATGGACTGTGTAACTAAAATTGCTTATTTCTCTGAATTTGAACATCCTTTGAAACATTTGGGAAAATGCAAGTATAACTGAAAAAAGTGTTGCATGCAGAACTGTTGCAAACAATTTCTTTGTGTTGAATTTAAACAAACAAATTAAGTTTAATAATGTTCAACTTAATTTGTTTGTTTAAATTCAACACACATAAATTGTTTACAACCACTTAACGTAAAAAATTGAGTAAATCCAAGGAATCATCTTTGAATAATTTTTTTCAGTGTATATATGTCATCAAAAATGTACAAGCATGTGCTCTTTGCTTGTGATTATTTTAATGGGAAAAAATGACATATTGTGCCTTTAAACAGTCAATGGTTGATGTTGTTATGGCCATGGAGAGATTCAGCATGGTTTTGAAGTCATCCATATGCATACTAATGGCTGCGGGTTCAAGTCTGTACAACACTGCAGGCACGGGGGCGATGCAATGTATTTAAATACATGCGCAAAGAATGAAGGTGGACAGAAAGAGGAACACAGATTAAAAGAAGTGGGAGGAAGGATGAAGCAAAGACAGAGAGAGAACAAAAAATGTCTTTTTCTGGCAGGGAGTAACAAACCAAAATGCCAGCTTTTGTGTTTCGTGAGCTTGTCTGTAGGTGTTTCAATGAAACGCACATGCATCAGCAAAAACAACAGTGGAAGCCAAGTGATTCAATCAATCCCCAATGTTCCTGCCCTTATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCACTTGTCCTTTTCATTACAAGCACCAGCCCGTAGCTATGACAACCTCCAATGCTTTATCCCACCAAAACAGACCTCTTGATTGGTAGTTAATGATTTAGGAGGGACTGTAATTTAACATGGTAATTCAGGTTTCTGATGCTATATAAGTAATAACGGTGAGGTTGTTGTTAATGTTGTGTTGTTTACAATTTGCCAGAGTAAAAGTATTAAATGAATTTTGTGCTGGAACATGATTGTATTGATTATTGGGTGAGCAAAGATGTACCAGACATGTTTGTGTACATATTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTCTGCGACAAAGCTCTTTTCAAAAAGAAAAAAAGGTTGTTTGACCTTTTGAGACAAAGCTTTGAAGCTCAAAATATACTTATTTTATTTATTTGCTAAACGATGATGCATTTTACTTTGTTGTGGCAAACTGGGTTGGTCTTTAAGAGTTCTATCCTGTCCCCTTGAGCATGTCTTGGGCAGAAATTATTTAAATTAGGGATGCTGTGATAGAAATGTTCTGAACTGCAAAAAGAGGGTTTGGGTGAGCTGAATGCTTCTGATACAAAGAATAATTCCTTGAGAGTATAGTTTGTTTGCAACTTTGTGCTTGCAACTTATTTTCAAACAACAAGATTACTCACTAACAGTTGATTAAAATGCATAAAAGGGTTGTGTTAGAAATGACATCCTTGATGATGTACAGTCTGTGGCTAACAAAAATCATTCAAAGAGACAGCTATTGGTTTTTATTTGTCTACCATAAGTTGTAATAGTGTTATGTCAGTAAAGAAACAACAAAAAGTATTGAATTCTACAATTCAGACGTGATAAGGTTTTTTCAGCCAGAATATCGTTATGAAGATACATTATCTTTATTCAGTTTTTGTAAATTGTCTTTATGAGGAGAGAAAAAAAAACTATTTATTTATTTCTAACTGAATTTAGAGAACATAAATTTTTAATATATATATATATATATATATATATATATATATATATATATATATATATATGTGTGTGTGTGTTAGAACTATATTATTTCTAACAAACATGTACAGCTAAAAATAGCCATCAGTCATTGCTTTTTGTTAGTGCCAATAAAAATATTGCAGGGCAAGTAAAAATAAACTTGAATCTGATTGGTTAAAGTCTTGGTGGGGCTTTTCTGCAG
Seq C2 exon
ATCTCTGACTACACGCCTGGAACGTGGAGGAGAACTGATGTCCATCTGGAGAACCCAGAGTACCACACCAGATGGTACTTCAAGTACTTCCTGGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060631:ENSDART00000085636:3
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=0.000
Domain overlap (PFAM):
C1:
NO
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]