RnoINT0124287 @ rn6
Intron Retention
Gene
ENSRNOG00000005271 | Rapgef5
Description
Rap guanine nucleotide exchange factor 5 [Source:RGD Symbol;Acc:1561668]
Coordinates
chr6:145619030-145625236:+
Coord C1 exon
chr6:145619030-145619084
Coord A exon
chr6:145619085-145621518
Coord C2 exon
chr6:145621519-145625236
Length
2434 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
ATTTTCCCTCTAAAACACAGGAA
3' ss Score
5.34
Exon sequences
Seq C1 exon
CACATGATCGCAGATACTGTCCGAACCCTGAGACACTGCAGGACTAACCAGTTTG
Seq A exon
GTAAGTAATTGGGTTTGGGGCACCACACACACCGGCATTGCAGTGGTGTTGACTATGAATTTAGCCCCTGCCTCCAGTTTCCTTGCTCGGAGAGCTTCCTGGGATAGAAATGTGGTTCCTTAGGTTCCTGAAGCTTCCTTCCACTGTTTTCTTCTCTTCAACCCAAGTTTCCTATCTGCAGGCTCCTGTCAAAACTCAGAGAGCCTGTTGTCAAATCGAATGTCCTGGCTTCCTTTCCCAGCCCATTTTTTTGCCCTGTGCTGATTGTATAAATAGAAATAGTAATTAAGGGAGGGGGGAGAGAGGGAGAGGAAGAAGAAGAAGAGGTTGAGACAGTGGAAAGGGCTAGAGATACAACATCTGGAAGTTAAGAGTGCTTGCTGCTCTTTCAGGGACCATGGTTCAGTTCCCAGCACCCATGTGGCAGCTTACAGCCATCTGTACCTCTAGGTCCAGGGGATTAGACACCTCTTATGTCTGAAGGCTCCTGCATACACACAGTGGACATAGATACACTTCGGCACACACAGAGATACATGAAATAAAATGCAGTTCAAAGATTCCAGGGCAAAGATGGGCAACCTGGTGTTAAGTAGAACTTAAGTAATACATCTTTGTTACATTTAAAAAAAATACATTGTATATAGAGAATCAGAACTCCTCCTACCAAAGAAGGTACTCCTAACTGGTGTGCATTCTTTAAATGTTTTTTCTCTAATGTTCTACTCACAGCTATCTACAGTATCCAATTAGGATCTGAAGCTTCTATATGTGTTACAAAGTAGAAAGTGGGAATGCCAAAATACAAAACCTAATAATCTAAACGTTCGTGTTATTTGATACCGCTCAATATGTTCCTATGTAATACTGACATATGTAACATTCCTCTGTGGGCATTTCATTGAGCCCACAAGCACAATGCAGTCATCATAGAAAGAGTGACACTGTTGCTACCAAGGGTCCTCCAGATGTGTCACTGACAAGTCTGCGTCCATATTTCTCCCATCAGCCAAAGTGATCACCAAATATTCAGCTAATTGTAAAACTACTGTTCTGATTCATCAACGGTCTGCTCACAGTATGGGGACGAGGGTCCTATTGGCTTGGCTTGAACCTACCTACCACTCACCAGAAAGACTCCGCACAGACCGAGACAGAAGAGAAATTTAGCTGCCAGCTGTGTATGTTCTTAAATTGCATTGTAACTAAATCATCTGCCTTGCTCTTAACCGTTCCTTTCGATGAGCCTCACTAGCCAACATCAGTATGTGGGATAAAACAGGAAAATGTCACTCGAGACAGTTCCGTACTACAAAGTGCCACACAAGGCTTGACTGCGATTGCCAGGACTGCCTATCAGGGTGTCTTTTGAATGCTTGCTAATGACAAACTTATCTGTATAGCCAGCTAGTGTTTACAAAACTAAAAGCAATTCCATAATGTCTTCCAGAGAAGTATTCTAGAACAATAGATCCTCAGTCATGGTTAACTTCTGGTGTTTACTGCTGAGACCAGGAAGTCCAAGAGTTACAAGCTACCTGTGACACATAACCCTTAAATTAATTTTTCTTGTTAAATATGTTCTTCATGGGCCTGCTTCCTGTAAGACTCTGTGAACCCAGTCAGCTCTTCCCTTCCCTAATGTGGGTTTTTGTTTCTTTCTCCCTTTCTTTCTTTCTTCCTTTCTTTCTTCCTTTCTTTTTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCTTCCTTTCTCCTGTGGTATTAGGCTTGTCTATTATCCAAGTGCTTTATCCCAGGACCTTTATGAAAACTGTCCCTAGCATGCCACACACATAGAGTCAGATCACTAACGTCTCTCTTGTGGCCTTTGGCTTTTTATCTTCTGGGATTGCTCTATCCCTGGTTCACTGTAGCCTACATGCATACTTTGAGAAGCTGCTTTTTCTGTACCCATTCCTTAGGATCTATTCTGTGGTGTGTGCTTTTTTTTGTTTTGTTTTGTTTTGTTTTTTTTCCACCCAAAAAGTAAGGACACAGAAGCGTACTAGATCTTAAATGGAGATAAACAGCTGAATAAATTATTTAGTAAGCCGTTATCTTCAAATGCTGATGCCTCACAGTCTTAAGCTGATTTTATAAACCAGGGCATGGGAACTTTCGCTCAGGAACCACTGGGGCCCGGATTCTCATCCTGGCTCTACCATTATGAGACTTCCGGGTTTTCTCATCTGTAAAGGGATAGTAGTGTGACTTCTAAATAGTCTCTCCAGTAAAAATACTACAAATGCCTTGCCAGTCAGCCCGCCTGATCTGACCTGTAGTTGTCTTTCTTGGGACACAGAACCCGTCGTAAAGCTAACCTACTCTAAGCCATCATCACTGCTTTTAAGAGTAACATCTCCGCTTGTATAACGTTCATCATTCATTTTCCCTCTAAAACACAG
Seq C2 exon
GAAGCGACATGTCTCCAAAGGAGCAGCAAGAGCTGAAGTCCTATGTCAACCACCTGTATGTCATCGACAGCCAGCAAGCCCTGTTCGAGCTCTCTCACAGGCTGGAGCCTCGAGCCTGAGCTGCGCCAGTCCGTCCTGCATCTGCAACACTTTAGAGCAAGGGAAGGCTCCATTGAGCATGTTGCTTCCTGTAAGAAAAGAGGTCGCTGAGTTTTATCAGCAAACCATGAGACAAGTGCAGGAAAGCCAGCCAATGCACTTTCAGGAAGTGACACGTCAGCCACCAGAGGCGGGAGAGCTCCCCCACTGCTGTCAGGGAGAAGACAGGAGACAGAGCATCCTTGGAACAGGGTCCTCCTTGGGACGGCTATTTCATTCCAGTCCAAGTTTCAGCTTACGACGTGCCAGCATCAGGAGGAGATTGTTCATATGGCGGGAAGGACTGTCACTCTGTCTGCCCACCCTACTGCTGATTGGCTGCCTGCTCACCTTGTTGCCGATTGGCTGTTCAGAGACCGGAACACCCCTGAACCAGCAAGGGCATCTCCAAATGTCCCAGGAAGAGGAGAGGCCTCTGTTGCTATAAACTTAGCATCACCCTGGAGGGCACGTCCTTCTGTGCAAATGAGAAATGCCTGGCACACACTTCCTTTGCATCCACAATCATTGACCAACGTATACACAGATGAACTAGTTCACGCTCCACTGACGCACTTCTGTAAGCAAGGTAGCCTGGGTTTCTCATCCAATAAGGAGCTTGGCGTCGTTCAGTTTCTATGAACTTTCTTTACGTATATCGTCATTTGTTGTTGAGTGCAATTTTCAGAAAAACACAGGGCCAGGACTGTGGGGTGCTCAGTGTTAGCTTACTGGGGTGACGGAATTTCCAGTGTCTGCACTCTGGTGTCTGATGGAGCCTTGGCGTCCGACACTAACTACTCCGCCAGGCTCCCTGCCTACAGGATGCAGAACATCAGCCCACGAGGGAGGTGAGTGAGTGAAGCTGAGTATCTGAAGCTTAACAGTTAGCTTGCTAGACTCAGTGATTGAAAAGTATCCAGAGATGCCTAAAGTCTCACTTACATGGGGAGTCAGAGCCCCGTAGTCTACTTCCCAAGTAAAGCCAGAGTCTTTCTGCAATTTGCCTTTCACCTTCTTATTCTTTGTTTTTATAAATTGGGCCTCATATACCAAATAAGGCCTCTTGGAATTCTGAAGGACTCGTTAGAGGATCTCCCTGAATCCTCGAGTAAGAGAAAAGCTTGCGGTTAAAACAAGCCCACTCTCCCACCAGCTAGATACTAGTTCCTTCGCTGTGCGCAAATCCCCATCTGAGTATTTGGTCTGTGCATCTCTAGTCTTGAGTATGGGTATGCCATTCACATCCCTGGGAATCGGGGGGCAGGGACTGGGTCCACCCAGACCTGCTTCCTACTCTCCTCAGCACCTGGTTCTCATTCTCATTACTAAGGTCTGAGCTATGCCCGTTGCCACCTGACTTCCTGAGAGCTATGCTGTTCCCTGGTCTTGGGACCAGTGAGCCTGAGACACTGCTAAAAGGAACCATATGCTTTCAGAGAGATTGCATCCGATCTAGCATGTAAAATTTTAGCTCTATAAACTTACAGGGGGTTATAGAAACACTCCAACTGAGGGTGATTCACTCAGAAAATGTTTCTCGGGTCTGAGGGCTGGTGCATGAGACCAGAGCCACAGAACCAGGGAGAGCAAGCTGTCTTGATGTGTAGACAAGCACAACCTCTGAGGACAGTACACACTTACAGCACAAACACGCGTGTCTTCCCTCCAAGCTAGCAACTGAGAGCGGGGCTAGTGTATCATAGCAGCTCATTTTGACATTGTCTGTATTAACTCTACATTGCCTCAAGCAGAGCCTTACCTTTAGAGCTCATTGTAGATGGAGATCTGTTTCAGTGGAACACTGTCTGTCTAGACTCCAGCTCAGCTGGGCTGCACAAGTCACATCTGCATCGTGCTTAGCACACTTAAGAGAACTCTGCAGGGCACGAATGGGAATAGCCCTGGAGAACATGGGGTGAGGCTGCTTGTCCCTCCAAAGCAAAAAGCCGGATGGGATTTATTTTCCCATCCTGTATACGGAATATCTAAAAAATCTCTAAATCCTTCTCAACTTTAACACCTGTTGCTAGGGATTTCTCAGTCAGCAGATTTAGGAACTTCAGACGCTTCACAGTCTCTTAAATCTAAAATAGGAAAAGTTCAGGATGGTCAGACCCTGTTTTCACAGGAAGCGCTTCTGAAGGAAGCCAAGCCCTGTATAGGTGTCCACAGGGGTGGACACTCCCATGCATGGGATGACTCCCTTCCTTCTCCAAAGCCTCCCGGGTGTCTAACTAAGGTCTCTTCCAGTTCTCCTTTGGGTTTTTGTGATTTCATGGGTCTCCATTCCCTCCCTCGATCCCATATAATTAGCATCTCCATCAGTGAGTGATACCTGGCCCTCGAGGGGTTCTTTGGGTCTTTGGATTCTGTTCCTGCAAAGCAGATTTGCTTGCAAGTTCCTACCCGAGTCAGAACACAGGTCCATCTAGGGAAAGTCATGGAGTTTCCAAACATTTCAAAGGATTTGCCTCCAAGTGTGAACTTGCCGAATGAATGGTTGCCATAGCACACGGTGTAACCCACACTCTACCTTTTCTGGTATCCTTAGTTGCGTTGAGAATAAATACCTTTTCCTACTCCAGTATCTACACGCGGGCAGTGTGGCACATACTTTGAATTTAGAGGCATGAGCATAAAGTCCCACCCTCTGAGTCTGTAGGGAGGTATTTCACAGTTGGGCCGTCGTTTTGAGTGAGGAAGTGGGGTATGGCCCCGTGGCTGCTTATGTAGACTTTTTATCCCAGAGCTCCTGTGGCTGCCTGAGCACCAGCCCTGTGGTTTTGTACACACAAAACCTGAAAACACAAAAACACGTGCACAGCAAAGCCTGAACCAAATGGCACAACCCACACAAGCTTATCAGAATTGGGCAAAACCCATTAAGCTTAGAAGACAAGGGCCACTGTAGCTGTCCAGCGTAGAACTTCTTCTCAACTTCAAAGACATGTCCTTGAAATTTCAGCCCACTCATTACTGAGTGGGCCCGTTTTGCTCTAGGGAAAACACATTTTGAAAATTGCCAAAAAGTCGGAAGAAATGTACTACTGTATAAAGCAAAGCTGTATATACTAAGTAAGCATTTTTAGCAGAGGAATATTTATTTGCATAGCCTATTTATTTGTATTCGTATCACGCTGTTATTAAACATCAGGATGAAATCAATGACCAGAAGCAAGGACTCTTGCCTTTGGACGTCTCATTGCTTAGGACTGCCATGATGCTGTCAGCTTGGGATAACAATTAGAAGATAGAAAGCCCACAGGCCGGGCATCTACCTAACTTCTCAGGGACTACACCTCGTAGTTTTCCACCATTATAAGAGCTGGTAAATATGAAACATTCGTTGACTTACCAGACTGCCATTGACAGTGTTTGATTTTTTTTTCTCATAGTTCATGCTCTCTGCCTCTGTGTATATGACTGTGCTGTGTATTTATCAAAGTAGGAAGCAATAATTTATATGTAAAAAAAATGGCCAAGCAATATAAGGTTAAAACTTACGTAAGTAACCATTACCTTATCTTGTATTTTCAAGTGTTTTTTAAATCTGCTTTTCCAAATATAACACTATGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005271:ENSRNOT00000007112:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.211 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
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]