RnoINT0064415 @ rn6
Intron Retention
Gene
ENSRNOG00000005498 | Gcg
Description
glucagon [Source:RGD Symbol;Acc:2668]
Coordinates
chr3:48444927-48446794:-
Coord C1 exon
chr3:48446633-48446794
Coord A exon
chr3:48445065-48446632
Coord C2 exon
chr3:48444927-48445064
Length
1568 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGA
5' ss Score
8.18
3' ss Seq
AACTCCCACATTTCTTTCAGGAA
3' ss Score
8.67
Exon sequences
Seq C1 exon
ATCATTCCCAGCTTCCCAGACAGAACCACTTGAAGACCCTAATCAGATAAACGAAGACAAACGCCATTCACAGGGCACATTCACCAGTGACTACAGCAAATACCTGGACTCCCGCCGTGCTCAAGATTTTGTGCAGTGGTTGATGAACACCAAGAGGAACCG
Seq A exon
GTAGGAGTCTGAAGTTGTTGTACACAAATGCACATTAAGAAATTCTCCTGACTCTCCTAGGTTATCATGCTCACCAAACAGGCTTATTCATTTTGGGTGTTCGTGAGGTTGTGCATGCTACCTTTGTCTCAGCTCTACCAAATTCCTCATCCACACACTGCTGTGACAAAGACTTTCTTATATTTTAAGCAGCAGTATTCTTAGTAATTTTTTTAAACTGGAAACTGAGTTTTGGAGACCTGTTAGCTCTAGAGTGTAATTCTTACCAAAAGTTAGAGCAAATTCGCAACATGCCATTGAGGGGGTTCAAGTCAATGACTGTGAACCCATGAGGATTATACCTTAGCTGTGTTAACCATTAGTAAAGTATGAAAAACAGATGCACCCATCCTCTTGTAAAAGAAAATTCAAGAAATGCATTTAAAAATCACAGCCCAACTAGTTGCAGAGCATAAAGAAAGAAGGCGGCAAACAGGAACACAAACCCATCATAAGGCATACATTTTAATGTTGGATTTTGTTTGAGGAGTGTTGGGGGCTTTGCTACTTCTAGGCTACTGGAGGAAATTATCCACAAGAGTTTCACAGAGATGGTGGAATTTCACAATTTCTTTGGAGGATAGCCCACATGGGAAAGGGAGTTATGCATACCAAATAGCTGAAGAAATCTAAAAATCAGGAAAAGGACATAGATGTGTCTGGGTGGAACGAAAAGAGGAGGAAGAGGGGATGAGAAGAGTAGACAGGATGCACACATATCCTTGGAGTGAAGAGTACAGCAGCAAAGAAGTGGTCAGAGCAGACCTGAGGATTGACAGCGTCCCTGATAGTGATTTATAGGTAAGGCACCCGAATTGTGTGAAAACACAAATTTATAGACTTGACAACAATTGTTCTGATTTTCTGGAGTGGATATCATACAATCTGGGCAAACTAACACTAGGCGACCGACCCATAACTCAGCTATTTGATGTCTGTTTAAGATGAACCTTCCAAAATGGCAATGTACAGCGTGGGACTCTGCAGGCTACTTGTTCTGTTGCCTGAGCTCTTCCACACGCTTACAGCTGATAAGAGCCCACTTTGCTTCTCTACTGCTAGAGCATTTACTTTCTTTAACCCGTTATCATGCGGTTCTTCTCATAATAATTCAAGGCGGTCCTTCGCTTTCCCTCAAATCAGTTAACTGACTCTGAGCAGACGTTCATTCATAACAAGTACCTACTCTGACTGTGAGAAACATGGCAGAGCCAGACAGCTTTCCTGTCCTGAGATAAAGCCTAAATGAAGCTTTAACGACCACAGCAGGAGGAAGCCCAGGTGGAAATGGCCCCTGGAAAAGGAAAGAATGGTTTAGTCTCTTTTAAAATGGCATTAGCCTCTCTCCACAAAGTTTCAAGCCAGATCATTAACGGAACTCAAAATAACTTTATAAGCACTCTCACCTCCCAAACTTTTTAGCGCTCTTGCCGTTCAGTCCTGAGCCTGAGGTCTTCACGCTTGTCAGGGAGAAACACATTAACAAAGAGATGAAGCTTCATTCAACACAACTCCCACATTTCTTTCAG
Seq C2 exon
GAACAACATTGCCAAACGTCATGATGAATTTGAGAGGCATGCTGAAGGGACCTTTACCAGTGATGTGAGTTCTTACTTGGAGGGCCAGGCAGCAAAGGAATTCATTGCTTGGCTGGTGAAAGGCCGAGGAAGGCGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005498:ENSRNOT00000007356:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.473 A=NA C2=0.213
Domain overlap (PFAM):
C1:
PF0012315=Hormone_2=WD(100=50.9)
A:
NA
C2:
PF0012315=Hormone_2=WD(100=59.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATTCCCAGCTTCCCAGACA
R:
CCTTCCTCGGCCTTTCACCAG
Band lengths:
294-1862
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]