RnoINT0065850 @ rn6
Intron Retention
Gene
ENSRNOG00000027257 | Gmip
Description
Gem-interacting protein [Source:RGD Symbol;Acc:1565577]
Coordinates
chr16:21356026-21357212:-
Coord C1 exon
chr16:21357016-21357212
Coord A exon
chr16:21356133-21357015
Coord C2 exon
chr16:21356026-21356132
Length
883 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCAACCCTCTCTTCTCCCAGTTT
3' ss Score
8.48
Exon sequences
Seq C1 exon
GTGACGTTGGGCCTGTTTGAGCTGCGTGGAGCGCAAGCAGAGCGAGGACCCCGCTCCTTCTCTGCTCTGGCTGAGTGCTGTGTGCCCTTTGAACCTGGTCAGCGCTACCAGGAGTTTGTGCGGTCACTGCAACCTGGGGCCCCACCACCGCCATCTCCCGCCTTCTGCTTCCAGGAGTTCGCGCCTGTGGTACACAG
Seq A exon
GTGAGCCCAGAAACCCCGTGCCATGTTTTAATATATGAATATGCTATACTTTGATTATGGTCACTTCAGTTACCCTCTCGTCATGCTCCTACCCCAGCTAAACCCCTTACTTTCCTAACTAGTCTCCATTTACTTCAATGTTTTGGAGATGTTTGTTTGTTTGTTTGTTTGTTTGTTTGGGAGACAAGATTTCTCTATATAGCCCTGCTGTCCTGGAACTCGATCTGTAGACCAGGCTGGCCTCAAACTCAGAGAGATCCTCCTCCTACCTCTGCCTCCCAAGTGCTGGGATCAAAGGTGTGCACCGTGACTGCCTGACCCTGGGATGTATTTGAAACAGGGTATCTTTAGGTGATCCTGGCTGTCCTGGAATTCGCTTAGTGTCTTTTTCTTTAAAGAATTATTTTGGCCCTGGGTTTGGTCCTCAGCTCCGGAAAAAAAAGAAAAAAAATATTTTTATTGACAAGTATGTGTGTATGCCACCTGTGTGCAGGTATTCTCAGAGGCCAGAAGAGGGGGGACGAGTTACAGGCAGTTGAGAGCCACCAATGTGTATTCTGGGAACTGAATTGTGGGTCCTGGAAGAGCAGCCATGAGCTCATAACCACTGAGCCACCTCTCCAGTCCCTCATGTGTTTGTTTGTTTGTTTGCTTTTAAATAACTCAATGATTTTCATTAGGGATGCTTACAGGATCCTGGGGAACTTTTGATGAGTTATCCCAGTCCTAGGATGGTGGGGCTAGGACACTTAAGAGACCGAAATGGTCCTGGACACCAGAGCTTTCAGACCTATATCCTTGGAGTTAGGACTCAGACCATACCCATTTGCTGTCACCCACGCCAATTCCTGGGGATCAAGCCTTCAACCCTCTCTTCTCCCAG
Seq C2 exon
TTTCCCTCAGGACACAAAAAAGAAGTTTTCAGGGCCTCTACCTACAAGGCTGGAGGAGGGTCCCTCTGAGCCTGGCCCTTGGGAGGTTGCCAGCTTAGGCAGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027257:ENSRNOT00000039607:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.303 A=NA C2=0.919
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
GTGACGTTGGGCCTGTTTGAG
R:
CTAAGCTGGCAACCTCCCAAG
Band lengths:
295-1178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]