RnoINT0162962 @ rn6
Intron Retention
Gene
ENSRNOG00000004706 | Vit
Description
vitrin [Source:RGD Symbol;Acc:1564128]
Coordinates
chr6:1179118-1180882:+
Coord C1 exon
chr6:1179118-1179162
Coord A exon
chr6:1179163-1180819
Coord C2 exon
chr6:1180820-1180882
Length
1657 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GTTTTTACTTCTCTTTCCAGGAT
3' ss Score
11.38
Exon sequences
Seq C1 exon
AAGAGATGGCGACATGGAAGCCTGAACCAGTCCTTTTAGATTCAG
Seq A exon
GTAAGCATCCGCTGACCTCTGAACACCGATCAGACCAGATGCACCGCACCGAAGGAACAGAGGGCTTAACAGTTCAGCCAGTGGCTCAGGTGATACAGCCAGAGTAGCCTTTCTGAAGGATGTCTCCTGGAACTTTCAGGTCCAGGGGTGGGGCCATTCAAACTTTCCTGGAGATGCCTGGTTTTCCAAAGGGGAGGGAGAAGGCCTGGAGACAAAGGCTGGAGTGAGCGAGTTCACTGTGAGGTGGGTTCAGACCCTTCTTCTGGTAGCACACACTGGAGTTCAGTCTGCTTCTGGGAAAATGGTATTCAGGAGGGCTGCCTGGTGGCTGTGCAATCCTTTAGTCCCAGCACTCAGGTGGCTGATGCAGGTGAATTTCTGTGAGTTTGGGGCCAGGCTGGTCTACATAGTGATCTCTAGACCAAACAAGGATACATAGTAAGACCTTGTCTTAAAAAGTAAAATTAAATAAAATTTTTTAAAAAAGAAAATGATATGAGATTTACCATTCTCATCAGGGTATAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGATTCACTGAATGCAACATTAAATATTTGACCCTTTAACAGAGTCTTCCAATTCTTGGTAAGAAGCAAGATTTTACTGGCAAGGTAAGACAGGGATACAAAGACCCAACCTCTGAACTTAACACACACACACACACACACACACACACACACACGCGCGCGCGCAGTGTAGAGCATTGATACATGTCCTGCAGAGCACCTGGTGGAGAAATACTGTTGAACACCCAAAACAGTATCTCCAAGTGATGTGAGGAAGAGAGGTGAGCTGTCTGACCTTTAACAGGAAGATGAAATCATGTGCTTTGCACACGGGGGTTGGGGCGGGGAGCTCACTGCAGCTAAGAGCAGAGACAGACCACAGACCTCCACACCTGCCTCCACACTGCCAGAAACTTCCAGAACTCGGCATCCCGAAAAACTGGGAGACCTGTTTCCTGCACACGTTTGCTGCCTCTGAGAAACCCGCTGGTCACAGCCATCCTAATAGATCCATGCTTATTGTGTTTGCAGCTTATTGTCACTCTCTGTGTACCTAATAAGCCGCCCCACCCCTACCTAGCTGAACCCCACCCTCATACAACCTCTCCAAACGCTGTGGGCGAGAGGCTGTCTTCTCTGCCCTTTTATTTGAACTGTGTTCCCCTCTGGTACACACAACCTTTTCCAGATTGCCCCGCACATGTCTAACTCGGCTTTGTCCAGTGCCTACATCACCAAAATTTGGCCAAGGACCCGTATGTACCCAGCATAGGAAAGGTTTGAATGAGACAGACCTCAAATTTTTTTCAGAATTTTAGAGAATGGTAATTTATACCGACACATCCGCAATGTTTTTACGTAAATAAACCAGGACTCAAATCGAACTAGTTAAAATGAGAGCAGCACAGGGCCCCCGAATATCCAACAGAGCACCCTTGGGCAGGCTGTCGCAACTTCTTTTTCTCAGGATGGGCCCCGGCGTAGGGAAGAGGCAGCTCTAAGCCAAGCCCAGAGCTGGGTATGAATGTCCGCTCTGTCCCGTTCTCTGGGGTAAGGCCAGGTGCTTCCTATGCTTGGAAATCACAACAGTTTTTACTTCTCTTTCCAG
Seq C2 exon
GATTTGTGCCAAAAGAAGAACTCAGCACACAGTCTTCGGAGCCAGTGTTGCAGGGAGACCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004706:ENSRNOT00000006360:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.562 A=NA C2=0.682
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]