RnoINT0064020 @ rn6
Intron Retention
Gene
ENSRNOG00000057044 | Garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:RGD Symbol;Acc:1564019]
Coordinates
chr3:12086243-12092621:-
Coord C1 exon
chr3:12092595-12092621
Coord A exon
chr3:12086319-12092594
Coord C2 exon
chr3:12086243-12086318
Length
6276 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TTTTGCTGTCTCCTTGTAAGGGC
3' ss Score
6.99
Exon sequences
Seq C1 exon
GACTTGCTGGTTCTGGAAGAGCAAGAG
Seq A exon
GTAAGTGGTTTATGAACATATTTATTCTCTGTCACCTTCACTGTGAGCACAGCCTTCTCTCTGAGTCAGACTTCTGTGCATTTGCAGTATGAGCTCGTTCTCACAAAGAGGTTTGGCTAAATGGGCTTTCCAAGGTCTCCTGAAGAATTTTCCATACAGTCATCTATAAATAGAAAAATTTACTTAAATCTGCATACATCTATGAATGTATTGTACAGAGGGGCTCATTTCCATCTAGTAGGATGCCTATGCATTAGATGTCTGCAGGCTTCGTTCTGTTACTCCCGTTTTAAGTGTGTGCGAGTAGGTGTGTGCATGTGACTGTGCACCTGTGTGTGTGAGAGAGAGATATACAGCATGTTATCACCAGATAACTGAGTATATTACCCACAGCAGAAATGGAAATATCATTTATCTAGTTGTTTGGGTCAAACTTGGTAAAATCCTGACTCCTCCATTTCCCTGATACCCCAAGCCTAATCTGTCACCTCACCTAGCTGACGCATCTTTATAAAATGCCCTGAATTCAAATGTGTTGCAGTGCACTTGTTAGGAGCACTCCAATGTGGTGGCAGCATCTGGTTCATTTCTGGCCTACACTGTACAGGCCAGATCTCAATTTTGTCTCTTTACTAAGGGACTGTTTACTTGAAGAGGCAAATGTCCCTTGTTGATAACTTGGGAAGGGGTGAGCAGAGGTCATCATTCATGGGAGCTTTCTGAGAGATGAGTGTCCCAAGCGTTCCCATTTAATCCCACAGCTAGAATCAGTTGGGAGCATTGACCTTAACTCTAGTCCATTCTAGTGGTAAACCGTGAGTTGTGATGATGGGCGGGGGAAGCCTAGTAAGGAGCAGTGGTGATGTTCCTGAGAGATTAGCTACTTAGTAAAGTGAAGCTGGTGGCGTGGTGCCCGTGTTTTGTGTGTTCATGACTGCACAGACTGGCGTCCCCACGGGAGATTCAGTGTCTTGTGCTACAGTACACACCAGGTAAACCAGTGAGCTGTGAGCAGGCAGAACCCCATGCCTACAAAAGGCCGTCTGTCTTGGCTAGTGATAAACACGATGACCAGAGGTTGGCAAGGAAAGGGTTTACCTCTCATGCATCACTGACCATCACTGAAGGATGTCAGGGCGGGGACTCAGAGAGAGCAGGGGCTGATGTATAAGCCATGGAGGGTTGCTGATTATTACTGGCCTGCCTAGCATGGCTTGCTCAGCATGGCTTGCTCAGCATGGCCTGCCTAGCATGGCTTGCTCAGCCTGCTTTCTTTATACAACTCAGGACCAACAGCCCACGGGTGGCGCCACCCACAGTGAGATGGGCCCTCTCCCACAATCGCTAATTAAGAAAATGACTTACAGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCTGGAAAAAAAAAAAGAAAGAAAAAGAAAGAAAATGACTTACAGCCAAATCTTATGGATGTCCTTTCTCAATGAAGGCTCCCTCCTTTCAGGTGACTCTGGCTGTGTTATAATACAAGCCAAGTATCAAGGACCAAGCAACAGTATCAAGGACCCAGCCATGCTGTCTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTCTTTTTTTTTTTTGGTCTTTTTTTGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCCAAATCCCCAGCCCCCCAGCCATGCTGTCTTAAATAAGGCCATCCTTCCTCAGTTCCAATGGTTCTTCTGGATTCATTAGAACTTTCTGCTCAGATTTCACTTTTCTAAAAAGGAATATAATTTGGAGTATTAATTCCATAGATAAAATTAGAAGTAGGGGCTGGAGAGGTGGGTCAGCAGTTAAGAGCACTGGCTGCTTTTACAGAAGACTTGAGTCCACAGTTCCTGGCACCCACACAGTGACTTACAACCATCTGTGAATCCAGTTCCAGGGACACCACAGGTACAAAGCACACATGTAGTACACATATAGGCAGGCAAACAAATATATGCATAAAATAAAAATAAATATTTTAACTTTTAAATAAATATAAATGACAAATGTGGCCTGTTTGTGTGTCTGAGCAGGACTGTGACCTGAGAAAATCAGTACCTTAACTCTCCAATAGGCAGCTTCCTCTGGTGGCCCAGACTGAACTTGGGACCTAGAAAGCTCCCTATATCCCTCCAAATCCAGAGCTCATGAAGCGCTGATGTGAATAGTGGCTTCTTCCAAAGTAGTCCATTGGGGGCTAGAGCTCAGTGGTAGAGTATATGCCTAGCATGCATGGTAAAGCCATGTTCAGTACCCAGAGCCAGAGGATGACAACTCAAAATGGCCTGTTATGATCAGGTAGTCCCAGATCAAACTACCTCTCCTAAAGTATAAGACAGCTCACTATGTTGACCCTGGTTTCTGAAAACAGATGAGTGCTTTCTAGTCAACGTGGGCATCATCTGAGAAGCCTCAGGCACCAGGTTATTTCAAGAGATCCTGTCTTAGTTAGGGTTTCCATTGCTGTGGAGAGACACCATGACCAAGGCAACTCATATTGGGACATTTGATTGGGGCTGGCTTACAGTGTCAGAGGTTCAGTCCATTATCATCATAGCAGGACGCATAGCGGCTTCCAGGCAGAAATGGTGCTAGAGAAGGAGCTCAGAGTTCTACACCTTGATCCAGCTATAACCAGGAGAAGACTGGATGGATCCTTAGGCAGCTAGGAGGAGGCTCTCAAAGCCCGCCCCTACAGTGACACACTTCCACCAACAAGGCCACACCTATCCAGCAAAGCCACACCCACTCCAACAAGGCCACACCTCCTAATAGTGCCACTCCCTGAACCAAGCATATTTAAAGTACCAGAGAACCCTATGACAACATTCCTGAAATGTCCACCTGAAGCAGAAGGTTCTGTGTAATTTCTAATTTAAACTGGGGCTCTTTATGGAGTATTAACAGCTGGACAGTGGATAAAAAGAGATGCAGGCCAGGTTCATCATGGCAAACCTGGAATCATGCTCTTGTCCCTATAGGTGACCTCGAAGAAGGAAAATCTTATATTCCAGGGTACCTAGATAATCCCCATCCTGCATCCTCCTTGCCCAGTGACCTTGTAGTGCTTCAGCCTGACCCAATAACACATTTCCACACTCCATCCCTCCAAGGCCTCAGCCAGGGTACTGGTATCATGCTGCAATCTCGAAATATCCCCATGAAGTTTCATAGAGGTTGGCCACTGACATCTCTGCCTGTGATCTCAGCTTTGCTCAGTGCAGACCTGCCCTGTGAATACTGTCATGCTATTGGAAAAGAGTCAAAAGACCTAGATCCCAGGTCTGCCTGCTGTTCATTTACGGCCAAATCTCCTTGTTCCTGGACTTCGCTGCCTGTGGCCTGTGGGTCCTTTCTGGTCCTGAGCTGCTAGTATATATACCTAATCCCCTGCCCTATCCTTACTGTCTGCTGGCTCCGTTGGACCCAATCCCAGGCTTCCTGGAAGCCTCCCAGTCAGTTCTTTTTGTTCACTGGTTCTTAGAGTCTGTTTCCAGGACCAGCAGTGAGAACATCTCAGGGAAATCTTTTTGATGCAAACTTCACAGCCAGATGCCAGACCTACTTCCTGAGCTTGGAACACTGGGCTGGGAGCCAGTTGTCTCCTAGCAACCCTCCAGGGCTCCTGATGCTGTCAAGCTGGACACAAGTATAGAGGGCCATTGCCTACATGCTTCAGTCCTCTCGTTGTTACTCCAAAAGGGTCTGGCTGTCTGCTAGACTACACATTGCTGTGACTGCTTTTTATGAGGGTTCAGAAACAAGAAGAGGTGCCAGCATCTTAGAGAGTGTGACTGCTGTCATCGCTCCAAAAAAGAAGAAACATGATGGCCATAGAAACCCAAAGAGGTCAAAGTCCTGACAAAAACTACAGAAATTGGGGCTGGAGAGATGACTTGGGGTTAAGACTGTTATGCTGTCCTCACAGGACCTGAGTTACATTCCCAGCTCACAGAACCTCCTCTAACTCCAGCTTCAGGGGATCCAACAACACCCTCTAGCCCCACAGGCATCTGTGCTCATGTACACACACACACACACACACACACACACACCCACACACACACACACAATTTAAAATAATAAAATATAAAAATAAGCCTTTAAAAAATCTACAAAAAAACAAAGCATTGAAACCTGAGCAGCTGATAAAAAGCAAGTGCTTCTGTCCAGCTTGGCTGTTTTTCTTGCTGCTTATAACAGCTACTGAGTCACACCTGTCTGTCTTCCTCACTGCCCAGCCTTTTGCTCTGCCCTGCAGATTCAGTAGTAAAATGTGTGTGATCCTAGAGGGAAACAGATACATACATGTACCTGTTCAAGGTCAGAATTACAGAGGGGATGGTGGTGTAAAGAGTGAGTGGTGCTGTGGTAGAGCGGCAGGGAGAGGTGGCCTGTCTGAAAGTTGTCAGTGGAACTGAGGCTTGCCTAGGAGGAAGAACATCACCCCCAAGAACTGGGGAGAGTTCCAGTATCCAGTATTCAATATTCAGGCGGAAATGCCCACCCTGCTTATGTGTCTATCTAGAAAGCCACTGTTACAGAAGGACGTGAATCTGTCTCCCAGGTGTACTGGGGACAGAGGAGAATTTAGAAGCACAAACCTCAGATCTGAGTTTTTAGATCCTTCTCTTCATATGCTGTATGTGTATATGCTGTGTGTGCATGTGTGGCTTCACATACTCACACATATGGATGCCTTGGGTTGATGTCAGGACTCTTCCACTATCCCTCTTCTACCTTATTCATTGAGGCAGGATCTCCTAATCAAATGCAGAGCTCCCTGATATGTCCACTTTTGTTAGCTAGCTTGTTCTGCCCCTCTCTCTGCCTTCCTAAACTAGAATGCCAGGCACCTTACCAAACGTACCAGGCATTTCTGTGGGTTCTAGGGATCCGAATCCCTGTTCTTGGCAGCTGTGGTGAGTACTTTAGTCACTGAGCCACCAGCTCAGGCTGGGCTTCCAGAGCCTTACTTTTAGCATTCAACCTCCGAATCCCAACACCCTTGCCTTGACCTCTCACCTCTGACCCCACTGACCACCGACACCTTAACTACCAACATCCAGAACCCTTCATTTAGTGATGGGTCAGATGGCCTTGTGGTATTGATATTCTTCCAACAATGGACTCTTTCTTTGTTAACTAATTCAGGCATCCACAGAGAATAGAGGATAATATACAAATCCCCTGCCCAGATTAAGGGCAAAGTCATTAAAACCATAGAGTTGAGGGGCTGGAGTGATGCCTCAGTAACTAAGAACATGCGCTGCTCTTACAGAGAACCCAGATTTGGAACCCACCACTCACATCCAGTAATCCATAACTGCCTGTAACCCCAGTTCCAAGGGATCCAGTACTGTCTTCTGGCCTCTGAGGGTACATGCACTTGCATGGTGACTATAACCTCCACATAATACAGTGTGATAATGAATTATGGTAATACAAACACATAAATAATAACCAAGTCTTCAAAAAGTAACAGTTTGAGACCCTATTTCCTGCTCCCTGACTCCTTCCCTCTGTCTACCTCTCTTCCCTGAAGCTACTGTCTTCCATTGGTGTTTGTCATTTCCACAGGCTCAGATTGTATCAGTCATCCACATAGTGGAGAATTAGAAACTCAGACTGGGAATAGCCGCTGCTTGCTTTGGCTTCATTGGCACATCTGGACTTGTTCAGAGTAAATGTCTGCAGGAATGGGGGAGTGAGCTCTTAGTATAAATTGCCCACAATTTCCATATCTATTTCTAGAAGAGCCTACCAGACGTCAGCCTAAGATTGTTATGTTTGGCTCTCAGTTACAATTAGCTCCCTGCTCTTCTTGGAACTGCTGCTGATGCGTAGGTCAGAACATTGTACAGACCTTGGGTGCCTGGGGCCATTTGTCAGAAGCACCACAATGCCCCTGCACTGATGCTGTCAGTAGTGAAATTACAATTGGATTAAGTGAAACAAACACGGATCACCTCACCTGTACACTATTGTTTAACCTACAAAAAATGAGTGACTCGTGTTAACATCGGTCAGTACTGGGGCCAATGGGAGGAAAGGATCCCCCAAGTGCCCACTCCAGTGACTACAGTGATCCTAAATGGCAAACACTGGCTTACAACTAGGTGCGCTTTAGCGGTGAAACTAACTGGGGTATCTTTTGCTGTCTCCTTGTAAG
Seq C2 exon
GGCTCTGTGAATTTCAAATTTGGGGTTCTTTTTGCCAAAGATGGGCAGCTCACAGACGACGAGATGTTCAGCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000057044:ENSRNOT00000082696:9
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:
PF0214510=Rap_GAP=PU(2.2=15.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]