RnoINT0066496 @ rn6
Intron Retention
Gene
ENSRNOG00000015716 | Gp2
Description
glycoprotein 2 [Source:RGD Symbol;Acc:621695]
Coordinates
chr1:189171297-189173166:-
Coord C1 exon
chr1:189173004-189173166
Coord A exon
chr1:189171382-189173003
Coord C2 exon
chr1:189171297-189171381
Length
1622 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TGAGTTCTATGTCTCTACAGTCT
3' ss Score
7.59
Exon sequences
Seq C1 exon
ATGCCCAAACCAACGTGATTCCACCATCAATGTGGAGGAGAATGGGGTGTCCTCGGAAAGCCGATTTTCAGTGCAGATGTTCATGTTTGCTGGAAATTATGACCTAGTTTTCCTGCATTGTGAGGTTTACCTGTGTGACTCCACTACTGAACAGTGTCAACCA
Seq A exon
GTGAGTGTCTTTTTGGACTGACGCCCAGTAGGTTCTCTATATACATTTATTGGGTTTACAGATGGAGGCATGGATGGAAAGAAGATTGGATAAATGCATAGAGGGAAGGAAGGTAGGAAAGAAGGAGGGGGAGAGAGGGGGAGAAAGAAAAGAGAGGGAGGAAGGAGGGAAGAAATTGGCTGTATAGATGAATAACTGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGCTTGAAGAGGTGGAGAGACAGGTGGATGGGTAGATGACTATAAGAGAAATGGTTAAAGAAGGACGCTGCACAGACTTTGAGTATCCCCAAAGCCTATTTATGAGTAATCGTTGTCTCTTTAGAAGGCAGAACAGCTTTCCTTAGTATAGCAATTATTATGAATAATTATGGTATTATAGATTAAGCATAATTGATACAAAGATCTCAAACCCAAAATTGTTCCAAAAATCTTAAAGTTTTTGAGGACCAAGATGAAGATCAACATGTTTCAGATTTTGGAATATTTGGGTTGCAGAGTCTTGTATTATAGATGAGTAGCTTGTAAAGACTGTGAATATTACCAAAACTGAGAAATTCCCAAATACTGAAGACTTCTTTACCTCAGGCTTTCAGATGAAGGATGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTTGCTGTGGTAAGGCTTTTTTTAGTCCCCCCTCTATGTCAGGCACTTTCCACCACAGTTCTTTCATTGTTACCTAACTGAGCTCTCCCAATGAAGAAATGAAGCCTCACTATGCAGATAAAGAAACCAGGGATCAGAGAAGCTCCTAACTCAAAGCCCCACACAGAACTAGAATATCAGATTTGAATGGTCCCCATCTGAGCCCATGCATTCACCACTACTGGACGCTTTTTTGAATGGCTGATGTTCCTTGAGTGTTTTCAACATGTCTATATGTTGCTACTATTATGGTTTATTTTAATATTTAAAACCAGGTGTGCATAACTCTGTGGTCAAAGGCCTGCTATGCAAGCACAAGAGCCCAAGTTTGGGTACCCAGAATGCATATGAAAACTAGGATTGTGGCATGTATCTATAACCCAAGTCCTGGGAGTGCAGAGACAGAATGATTTTGGGGACTCACTGTATCACCAGCCTAACCAAAATAACAAGCCCTAGGATAACTGAGAAACCATGTATCAAAAAAGTAAGGTGGGCAGCAATGGAGAAAGACAGTTGGTGTTAGTCCTTGACCTTCTTACTTGCTTGTATGCATAAATGAATAAATGAATGTATGAGTAACTGACAAAAGAAAACCAAACATGAACTGTTGATTATAATAGACAGATGAAGACATTTGTCCCAATTGTATAAGAGAGAATAGAGATGAGATTCAAACTCAAGTGTGTTAAGGTTTGACTGAATTCTCACAGTTGACAGAAACCACACCATCAGAAAGAAGGCCATATGATAGGATATCCAAGTGCTTAGGCCATGGGTCCACAGATATCCATATCTATATCTGTGATATGCTGTACATAGGGACCGGGTGTTTGCATTCTAATATAATGAGTTCTATGTCTCTACAG
Seq C2 exon
TCTTGCTCTACAAGTCGACTTCGCAGTAGTGAACCAGCCATCGACTTAACTCGGGTTCTGGATATAGGACCCATCACTAAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015716:ENSRNOT00000021249:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(21.3=100)
A:
NA
C2:
PF0010018=Zona_pellucida=PD(1.6=13.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCAAACCAACGTGATTCC
R:
TTTCTTAGTGATGGGTCCTATATCCA
Band lengths:
246-1868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]