RnoINT0122314 @ rn6
Intron Retention
Gene
ENSRNOG00000030956 | RGD1561114
Description
similar to hypothetical protein 4930474N05 [Source:RGD Symbol;Acc:1561114]
Coordinates
chr18:41896763-41898604:-
Coord C1 exon
chr18:41898408-41898604
Coord A exon
chr18:41897587-41898407
Coord C2 exon
chr18:41896763-41897586
Length
821 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TACTCTTTGGTCGTTTCTAGGTA
3' ss Score
10.77
Exon sequences
Seq C1 exon
GTGGAGAATGCTTCCGCCCAACACGACCAGATGGAGTCCCAGAGAGAGGCCTGCTCCAGGGCAAAGGCTGTGGTTGAGCAGATGAACACCCTGGTGCCTTCTCTGAAGGAATGGGACCCCTTCTCAGTCCTTGCTTTTCTGTCTACATACAGATATTTTGCCACCCCCCTACAGGTGTTGGACCTGGTTTTTGTGAG
Seq A exon
GTGAGTGCCCATCTCCACGTCCATCATTTCTGACCCTCCTGTTGGTTTCAGGAATTCCCATCTGCCCTACTCTGTCTCTCTCACCTTGTCTCTCTGGTCCTCTCCCTTTATGCCCTTCAAGTCTCTATATGTTTGTATGTGTCTCTCCTCTCTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCGATGGCTCTCCCTCTCCCTCTCCCTCATCTCCATCCCCATCTTCCTTTCTCTTCTGTTTCCCTCTCCGTTTCTTCTTCCTCTCCCTCTCTGTCTCACTCTCTATCTCTTGTCTCTATCTCAGGCTCTGGCTCTGTCTAAGTTTCAGTCTCTGTCTCTGTCTCCATCTTTTTCTTGTCTACATAATTGTCAGAACCCATTAGCATGCTTTAAGTAATTCCTTCTCCCATGCTTGGTTCAAGGGATTGGGCTGTCCAGAGCTGAGACCCTAAAATGGTTGTAACCAACCCCTCTACCTTTGAAAAGCTCTTTACCATTCTGGCAATATTTCTGAGGCCTTAGTGAATGCAATTCTCTCATACATAAAGGAGGTACTAGAAATATTGGAGTAGCAGTAGAGATGTGTCCAAAGTAGAGATCCATGAAAGACAATGCAGGAAATCATGTGACCAAGGAGAGGTCTGGATACAGACACCTGTGTTCATCTTTGGCACAGATACATGGAAAGCACCTATTGTGTACATCTGAACAAATATATCTGAGAGCAGCCAGAAGTGACAGTATTAGGTGAGGGGACTGGGACTTTAGAGGTGACATACTCTTTGGTCGTTTCTAG
Seq C2 exon
GTATGCTTACATCAAACCTTATTCTAAAGAGGATGAACAAGTAAAGAACACCCTCTGTAGCTTCCTGGAAACATGGATGGACACGAATCCTGAGGACTTTTGTGACCCAGCAGACCTGTTGCCTCTGAAATACCTGAAGGCCTACTTGAGTGTGTGCATGCCACACTCTGATCTTAGTGTCCGCGTCAAGAGGCTCCTGACCCAGTTGCAGGAAGAACATGCCAAGGATTCACAAACCAAGGATGAGGAAGACTCAGATCTGGGGAGACACACTGCCTCAGATCCGCACATTGAGTGGGTGTAAATCAGCAGGGGAAAGAGCCACTCTGGAGCCAGAATGAACTTGTGCACCAGAGCTGCTGGGCACAAAAACCCCCAGAAGGTTCTGTGATGCATGAGTCCCTGTAGACAGATGTGGCGGCAGCAGCCCAGACAGCACACAGGATAGCAGCTGTGGAAGCTGTTTCTCAGTATGTCTGTACATACGAGGTATCTTTCAGTCATGTCCTGCTTGTTATAGTGGGCCTACCTATTTAGAGGATGGCACTGTCACCTCTGCTCATCAATTGCACTCTGTGCTATATCTGAGCTATTGTTCCTGTAACTCACGATCAGCTGCTGATTTCAATCCAGCAGCAGTTCCAATCCCACAGCCAGACTTCCCTCCCCTGAGAAATAGCCTTTTTACTCCTTCTGATGTATTCAATATTCTGTTTAAGTATTGCTCCTTTTTATTCCTTCTGATGTTTTCAATGTTGTGTTTATTTTAATTATTGGTTTTAATAAATTGTTAGTATTTGGTTTACATAGTCTAAAATGCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030956:ENSRNOT00000057099:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.197 A=NA C2=0.188
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(46.9=69.7)
A:
NA
C2:
PF0061815=RasGEF_N=PD(52.0=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACACGACCAGATGGAGTCC
R:
GATCAGAGTGTGGCATGCACA
Band lengths:
352-1173
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]