RnoINT0066495 @ rn6
Intron Retention
Gene
ENSRNOG00000015716 | Gp2
Description
glycoprotein 2 [Source:RGD Symbol;Acc:621695]
Coordinates
chr1:189173004-189174370:-
Coord C1 exon
chr1:189174125-189174370
Coord A exon
chr1:189173167-189174124
Coord C2 exon
chr1:189173004-189173166
Length
958 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCG
5' ss Score
9.18
3' ss Seq
TGCCCTTTTCATTTTCCTAGATG
3' ss Score
10.18
Exon sequences
Seq C1 exon
TTCCCTGAATGTTGATGTGGGTGGAGCAGGAGAGTTCACTGTTACGATGGCACTCTTCCAAGACCAAAGCTACACACACCCTTATGAAGGAAGCAAAGTGTTGCTTCCAGTGGAGAATATACTCTACGTGGGCGTCCTCTTGAATAGGGGTGATACCTCCAGGTTCAAACTGTTGCTGACCAACTGCTATGCCACCCCTTCAGGAGACAGGAATGACATTGTGAAGTACTTCATCATCAGGAACAG
Seq A exon
GTATCGGGAGACTCTGCGATTTGTTTGTTTTTGTCATAACTAAGTTTTGGGTAAAACCTTCTCCAGTGTTGGCAGAAGTGTAAATTGGTTCACCCCACTTGGACATAATTTGACATTACATATTGTAAGCATCCTGTTTGATCTTGGAATGTTATTCCTGACATATTAACCTAAAGTATTAAAACAAATTGGGTGAGTCCAGTACAGAAATACCAATCATTTCCCATTTCAGTGTTCTTGATCATTTTCCTGTAAAAGCGTAGCACAATGAAGTGATAATGGACCAGTATATAGATATTTAAATTGATTAAAGTGGACATGATATTACAAACAGTATAGGACAGGATATGATTGGATATTATTTAATGATAAAAACAAAGGAAATGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAAAAACCATGCCTATTTTGAGGTCACAATTCAAATGATATTAATGGTCCTTGGTAATATTTGTCTTTGAGTTCAGATGTATGCCAAGCACTGTGATGAGAAAATGAACACGGCAGCCCCATTGAGTGCTTGTTCATATTAGTCATATGAAATGGACATGATTATCTCTGCTCTACAGTCAAGGGACACATGGAGGAATTGGGGAAATGGAGGGCATGATCACATTTCATATGCATATAATTTTCAGTAATACAGAATTTTTTAAATAATGTGAAAAAAAACCAAATAAACTAGACCATGGAGGGATAACAAGAATAATTAACCAGCCCTGGATTACTTACCTAAAAATGGGGACTTGCCCTAGAAACTGTGAACCCCAAAATTTAAACTACAAAATCTTATTGAGGAATGATGGACTAGAAAAATGTCATCAAAGTATGATGGCAATTTTTCAGTGTTTGGTTAGAAGTTACTCCTTTGCCCTTTTCATTTTCCTAG
Seq C2 exon
ATGCCCAAACCAACGTGATTCCACCATCAATGTGGAGGAGAATGGGGTGTCCTCGGAAAGCCGATTTTCAGTGCAGATGTTCATGTTTGCTGGAAATTATGACCTAGTTTTCCTGCATTGTGAGGTTTACCTGTGTGACTCCACTACTGAACAGTGTCAACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015716:ENSRNOT00000021249:7
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=0.091
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(32.4=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(21.3=100)
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:
CGATGGCACTCTTCCAAGACC
R:
TCAGTAGTGGAGTCACACAGGT
Band lengths:
352-1310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]