RnoINT0162965 @ rn6
Intron Retention
Gene
ENSRNOG00000004706 | Vit
Description
vitrin [Source:RGD Symbol;Acc:1564128]
Coordinates
chr6:1201000-1204312:+
Coord C1 exon
chr6:1201000-1201103
Coord A exon
chr6:1201104-1204085
Coord C2 exon
chr6:1204086-1204312
Length
2982 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
TCTTCTTCTTCTTCTTCCAGGCC
3' ss Score
12.11
Exon sequences
Seq C1 exon
AGACAACCCTGCTACCCAGTTTAACCTTAAAACTCACATGAATTCTCAAGATCTGAAGACAGCTATAGAGAAAATTACCCAGAGAGGAGGCCTTTCTAATGTAG
Seq A exon
GTATGTGACCCAGATTCGAGTAATTCTTCCTTGTTACCATGGTGCACCTTCTATGTGGCTGTCTTATAATATTCTATATTGGAGGAGGTGGAAAAAATAACCCATCAAGAAGTGACACACAGCCTCTGTATCTTTCCTAATGTATTACCATGGATTCCGGTACAAAATGGTCAAAACGCTTGGGCCTCAGACTTCCTTCCCATCCAGGTCTTTGGTTGCAGTCACATTCCTCAGGCCAAGCAGGACAGCTGTTGTGGCTACTTCATGGCTGGCCTATAAGCTGCCAACCAGTTAGTACTAAATTTTATCACCAGTTCCACTCAGGAGGTCCTTCAGGGATAGCTAGTTCCCAACAAAGTTGTTGTAGTGGTGTCTTTTCGAAGAGGTGAGTCCCATGTTTGAAAAATGAGTCTCCTGCAGTGTCTGAACTTTCAGAGTGGTGGATACCACTAGAAGTTCAACCTCTAGTCCTCAGTGGAGGACTAGAACAGCTCCAGAGAAGTTCCATTTTACCTGTTTACCCAGAGGAGGCTGGAGCAGGGGGATGTTCCCACACCAGCCAAGCCCAAAGACTGGAAGGAAGGTTGGTTGTGCTTTATGGAACTTCCAACCCCTTAAGGCCAAAGAAATTCAAGTGTAAGTTACAGTAGCTTGTGTAGGGGAAAGCAGTGAGCAGAACTAAATTCCACAGAGCATCCCTGAAGTTAGAGAGAGTCTGGAAAACGAGCGTCTTCCCTCTCCTTACCTCTGGAAGTGACCAGAGGATTTGGCAAATGCATAATCCTTCGCTACAGTGCAATGCGAAGTAGCCACTAACAGTCCCCAGATCCGTGTCTGTAAATCCACATCACCTGCCTCATAAGCACGAGAGGGGACTGCACAACAGTTCATCATTATACACTCGGGTTTTCAATGAGAAGAGCCTGGCAAGGCACTCAGCTCCCCCGATGAGGTCAGAGAGGCTTCCTAACCCAGGTATAACCTTTTCAGAGAGTGAGATGCTCTCCCTCTGCCTCTGGATCCTGCAGGGGTTCAGTGAACGTAGTAACTGAGGCACATGGGGATTTGGTCTGAGGAGGATAGAAAGGACTAAGGAAGCAAATGCAGCAGAGTGTTTAAAACGACCTCTCAAGGCACTGTTATCTTTTCCAAGACCAGAAAACCAGTTTTCAATTTCTGTCAACAAGGCCTTTTCATGAACCTGCTCCATCCCGAGTGCTGCCATGATGCCAGCACACAGCTCCAGCACCACGCCCTACGCTCCCCATTCTCACTAAAAAACAAACAGCAACAACAAAAAAAAAAAAAAAAACGCCTTCAGAACCACCATCCAATCCCAGTGCAGAGACACCAAATACACCACAGTCTCCTCGGCAGAAGTAGTAGCAGAAACAAAGTAACGGTCCTTGCTTGGCTTTCGTCTTCTAAGCCTGGATCAAATGCATCAGCTTAGGGAACTAAAAAGAGGCTGGGAAGCATAAGGCACAAAGGACTATGGGTAGTGCAGCTTTCCAACCTCAGCCTTGAAGGTGAAGGGAATGTGTGCAAGGCTCTGATTCACTCCAGCCTGCCTCCATATTTAAGATTCATGGGCTCGTGTGAAATCATACGGCTTCTTCTTACAACGCATGCATTTTGCTACGGGTGCTTAATATTATCCTGGAGAGACTGCTGGGGACTTTAGAGCCTTGAGTTCTCAACAGCCGTGGTTTTCCATTAACAACGGGATCTCTGCAGCCAGTTCACACGGTTGTCCAAGATGCTTCTGTAGCAGCTTGGAATGTAACCACCTGTTTGTTGCCTTCAATTGACAGTGAAACAGCCAGGGGAGCCAGGATGCTGACCAAACCCGGAAGTGCTGAGTGAAATGATGTTAATGCTAAAGTCTAAACAAGATGAATTGAACTGTAACTGAAATGAGAACCCACCTGGGAATCTCCTGGAAACTGTGGCCTTTTACATATTCTTATAGACAAATGCGCGCGCGCGCGCGCGCACACACACACACACACACACACACACACACACATACACACAAACACCTCATATATATTATACTAGGATTCATAGATTCTCAGTTAAGAGTCATGCTAACTCGAAAGCAGTCAGTCATCATCTCAGTATGCTCAGGAGGACCTAGGACATTCAACAACAACAAAAAAAACAAAACAAAACAAAACAAAACAAAAAACTAGAAGAGCTATTCAAAACTGGAGCAGTAGGTTGAACCCGAGACCCTTACACAGTGTAAAATACACACATGAGAATGCCTGAGACTCCATTACTCTTCATGTCTGTGGCACTCAGACTCGATGAAGGAAACTGTTGGCCTGGAACTCTAGGTCCCAGGACCGTGAGTGACCTACAGAGCTGACCTGTCATAGCTAGGGCTTGAACCCAGCATGTCCCTTCCTAGGAGGGAAATCCTACCCACAGGCAGCCAGACCTGTGTCCTTGCTCTAGGATTGGAGAAAGGACATCACTAGTCATGGATAACAGCCCCTCACTCAACAGCTATAGCACTAGGCCCACTCGGGCTGTGAAGGGCCAGAATGAGGCTAATGTCACTCCAAATCAGCTCCTCCCATCCCTGTTCTCAGACACAGTATGGCCTTGTTTAGGGGCCTAATAAGAAAAGGTCAGCTAAGGGGCCCTTTGGATCTCATGGAAGTCTTTCTCCTCTGGACCCTAAAACGTTCTCTTTCTAAACAAGAGGCAATTAGAAGCTCTGGGCTTAAAAATGAAGTCAAGGAGAGACTGTGATGGCTGTACTGTGTATATGTGATATATATATGTATATGTATATGTATATACACATATATATATATATATATATATATATATATATATATATATATATATCACACACACAACACTTGGGGCTGAATGAGTATGCTTTTCTAGACCTCTTTGTACTGCTGTGACCTGTTACCATTACCACTATCATTTCAAGCACAAATTTTCTTCTTCTTCTTCTTCCAG
Seq C2 exon
GCCGCGCCATCTCCTTTGTAACCAAGAACTTCTTTTCCAAAGCAAATGGAAACAGGGGTGGTGCTCCCAATGTGGCTGTGGTCCTGGTGGATGGCGGGCCCACAGACAAAATAGAAGAGGTGTCACGAGTTGCAAGAGAGTCGGGGATCAATGTCTTCTTTGTCACCGTCGAAGGGGCTGCTGAAAGGGAGAAGCAGCATGTGGTGGAGCCCAATTTTGCCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004706:ENSRNOT00000006360:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.013
Domain overlap (PFAM):
C1:
PF0009223=VWA=FE(19.3=100)
A:
NA
C2:
PF0009223=VWA=FE(41.4=100)
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:
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]