RnoINT0063975 @ rn6
Intron Retention
Gene
ENSRNOG00000017925 | Gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:RGD Symbol;Acc:1307479]
Coordinates
chr3:13798032-13802492:-
Coord C1 exon
chr3:13801649-13802492
Coord A exon
chr3:13798119-13801648
Coord C2 exon
chr3:13798032-13798118
Length
3530 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
ATCTCTGCTTTCGTTTGCAGGTT
3' ss Score
12.76
Exon sequences
Seq C1 exon
CGCTGAAGCTTCCCCTGCTGAGTGTTGCCAGCATGCTAAGATTTTGGAAGACACACAGTTTGTTGATGGATATAAGCAACTGGGATTTCAGGAAACAGCCTATGGAGAATTCCTGAGTCGGTTAAGAGAGAATCCGCGTCTTATTGCCTCCTCTTTGGTTGCTGGAGAAAAACTCAATCAGGAGAACACACAAAGTGTTATCTACACTGTTTTTACCTCCTTGTATGGCAACTGTATTATGCAAGAAGATGAAAGCTACCTCCTTCAGGTTTTACGATACTTGATTGAATTCGAACTTAAAGAAAGTGACAACCCCAGGCGCCTTTTGAGGAGAGGAACCTGTGCCTTCAGCATCTTATTTAAACTTTTTTCTGAAGGACTGTTTTCTGCCAAACTTTTCCTTACGGCTACTTTACATGAGCCAATCATGCAGCTCCTTGTAGAAGATGAGGACCACCTGGAGACAGATCCAAACAAGCTAATCGAGAGGTTCTCTCCAGCCCAGCAGGAAAAACTCTTTGGAGAGAAAGGCTCAGATAGATTTAGGCAAAAGGTTCAAGAAATGGTAGATTCCAATGAGGCTAAACTAGTGGCTTTGGTGAACAAATTTATTGGTTACCTTAAGCAAAATACGTACTGCTTTCCACATAGTTTGAGGTGGATTGTATCACAGATGTACAAAACTCTTTCTTGTGTAGACAGATTGGAGGTTGGGGAGGTCAGAGCAATGTGTACGGATCTTCTGTTGGCTTGCTTCATTTGTCCCGCAGTTGTCAATCCAGAACAGTATGGAATAATATCTGATGCTCCTATTAATGAGGTGGCAAGATTTAACCTGATGCAG
Seq A exon
GTATGATTTTGCTATTATTATTATTATTATTATTATTATTATTATTATTTATGAGTGCTGAATTTACATGTGTTCCTGCATGACAGAAGAGGATATTAGATCCCATTACAGATGGTTGTTAGCCAAAATGTGGTTTCTGGGAATCAAACACAGGTCCTCTGGAGGAACAGCCAGTGCATTTAACCGCTAAGCTGTCTCTCCAGCCTGCTTTAGCTATTGTTAATGTAGCATTTAGTTTAAGACCAGCTGATCTTTATGTAGTGGAGTGGTAATGGAAATAATGACGTTCATATGTTCTTACCATTTCTTTTCTGAAAAGAAATGCTCCTCATGAAACAGAAGCAATTACATTAGGATTTTGAGATATTATAATCATAAATGTTTTTGCATTGTTTTTCAAATGAAATCCTTGAACTCTTGGACATAGAGTTGTCTAGGTTTTCTAGAACAAGCTCATCATCCCTATTCTATAATTTCAGAGTTCAGACTGATTGGAAATTGAGAGTGTCCTTTGTACTTCAAAACTGAAATTGAAGCTAGGCAGTGGTGCTTGCCTTTAATCCAGACAGAGGCAGAGGCGGAGGTAGAGGCAGAGGCATCTGTGTAAGACCAGCCTGGTCTACAGAGCAAGTCCCAAGACAGCCAGGGCTACACAGAGAAACACTGTTTGGAAAAAAACAAAACAAAACAATCAGCATTAAAGGGGGCTGGAGAAATGACTCAGCGGTTTAGAGTACTAACTGCTCTTCCAGAGGACAGGCTTCAAATCCCAGCAACCACATGGTGGCTCACAACTGTAACTCTAGTTCCAGGGGACCCAACACCTTCACAAGGACATACATGCAGCCTGAACACTCATGCATATAAAAACAAGACCCCCAAATCCCTGAAACCGAATAGGAAGCCACTTACAGTTAGTACTCCTTGGAGCGCTTAGGTTTTCTTGCAGAAATGTTCATGTTTTTGAAAGTAGACACCAACCTGTGAAGATTGTACACACATACACACACACACACACACACACACACACACTCTCACACACATACACACACACTCTCACACTCACATACACTCACACACACACATATAAACACTCACACACAAACACACACATACACACACTCACACACATATACACACACATACACACACACTCACACACACATACATAAACACACACAGTCACACACACACTCACACAAACATACACACATATACACACACACACTCACACACATACACACCCATATACACACACACTCACACAAACATACATATACACACACACACTCACATACACTCACATACACTCTCACACACATACACACACATATATACACATACTCACACACACATTCACACACATATATACACATTCACACACTCAAACACATATACACACTCACACACTCAAACACACATATACACACATTCACACACATATACACACACATACACACACATACATACACACACACACACGGTTATCCTCTTAAAAATTTGGAGTTCTGGGCAAAGGAGTTGGCTCATTGGGTTAAAGTCCTTCCTTGAGGAATTTGATAACTTGAGTTCATTCCCTGGGACCCATGTTGGTAGAAGACTAACAAGTAACAACTCAAAGTTGTCCTCATACATGTGGAGACATGTATGTCATAGGGGAGCCCAGAGCCTCACATGTGCTAAGCACATGCTCTACCTTTAAGTCACACTCACAATCTTATTTATTTTATGTGTGTGGATGTTTTACCCAAAGTCTTATTATTTATTTCAACTAATTATTTATATAATTTATTTTATGTGGGGGTGTTTTGCCTGTATGTGTATTTGTACAGTGTCTGCAGAAGACAGCACTGGGTCCCCTGGAACTGGAACTAGAGGCAGCTGTTAGTCTGCCAAGCAGGGGCTGGAGGAGTGACTAGTGGCCGTAACTTCAGAGCAGTCTCACTGGCCTCCTTGCCTAGTCTTTTTTAAAATTAAAAAAAAAAAACAATCCTTTTTCCTGGCTGGTGAGATGGTTCAGTGGTTAAGAGTACATTTTGCTCTTCCTGAGGATCTGGGTTCAGTTCTCAGCACCCACATGGTGGATCGCAACCATCCCTAGCACCAGTTCCAGGGATCTGATACCTTCTGACCTCCATGGGCTCCAGGCATGTAGGTGGGACATACACATATCTGCGGGCAAACCATTATATGCATAAAATTAGACAAACCTTAAAAAGTCAACATTTTCTTTTTGGGGTGTGGGGGGTGTTGAGACATGGTTTCTCTGTATAGTTGTGGTACTCACTTTGTAGACCAGGCTGGCCTCAAATCTACAGAAAATTGTCTGCCTCTGCCTCTGCCTCCCAAATGCTGAGATTAAAGGCATACACCACCACTGCTTGGCTTATTTAAATTAGAGGCTTGTGTGTGAGTGTGCTGTGTGCACATGTATGTGTAGGTTCATGTGCCATGTGGAGTTTCTTCCACTTTTGTGTTATTCTTCATTCTTCTGAAGTAGGGTTTCTCACTGAACAGAAAACTCACCATTTTGGCTAGGCTGCCCGGCTATTGAGCTCATAGTATCTAATTACCACATGGTTATGCCTAACTTTTATGTAGGTGCTGAGGATTTGAACTTCGGTCCTCATGCTTGCATGTCATGTGCTCTTACCCACAGAATCATCGCCCAAGTCCATACAATCCTCAAGCCTTTTAATCATATCTTATTCTCCTAAGGTACCATAAAGAGAAGATTGGGTTAATTTAAAATAGACCGTCTTATAATTTTTTAAAATATTGATAGCCAAAGTCATCAGCCGAGCAGTAGTGGTGCACACCTGTAATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATCTCTGTGAGTTTGAGGCCAGCCTGGTTTACAGAGCAAGTTCCAGGGCAGCCAGGGCCACACAGATCCTGTCTTAAAAAGCAACTGAAAACTATAAAGAGAATGCTTTACCCTGGACTTTATGTTATACTTGAAACCATTGACCATGTGAGTTAGCCTTTGCAGATAATTTAAAATTTTTCTTGGGCCAAAGGTAGTTTGGAGGTAAAAATGCTATATGTAAACTTGACAGTTTGAATTTCATATCCAGAACCTATGATAAAAGGAGAGAACCAGCTCCTAAACATTGTCCTCTGATCTGCACATGTGCACTGTGACATGCATGCACCTCCCTGATTATGCACACACATAGATAAAGTGTTAAATAGTGTTAAGCACGCAGTAAGTGCAGCACCAGAAATAAATACATTGTACTTTCAGTTTCCTAATGTCGCTGTCATATGTTAACAAGAAATTACAGCAAAGTTTTTTACTTCCTCTAACTCGTAATCTGAAAATAGCAAAAGCTGACATAGACAAGACACACATTTTATTGGGCATTTTACTTTGTTTTCCTGATCAGATGGATGTGAAAATTATTGTGAAACCAGATTCTTCCGCTGGAATGGAAGTGCTTTCATGGACCAGTGCTGGTGTGTGCAGCCTTCATCTGCTTATCTCTGCTTTCGTTTGCAG
Seq C2 exon
GTTGGCCGCCTTTTGCAGCAGTTAGCAATGACTGGCACTGAGGAAGGAGATCCCCGGACCAAAAATAGCCTTGGGAAATTTGACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017925:ENSRNOT00000066961:3
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=0.241
Domain overlap (PFAM):
C1:
PF0061614=RasGAP=PU(94.6=67.7)
A:
NA
C2:
PF0061614=RasGAP=PD(4.5=31.0)
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]