RnoINT0143754 @ rn6
Intron Retention
Gene
ENSRNOG00000007998 | Ssb
Description
Sjogren syndrome antigen B [Source:RGD Symbol;Acc:620804]
Coordinates
chr3:56092501-56094167:+
Coord C1 exon
chr3:56092501-56092576
Coord A exon
chr3:56092577-56094075
Coord C2 exon
chr3:56094076-56094167
Length
1499 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TAATAACCTTTTCCTACCAGTGT
3' ss Score
5.79
Exon sequences
Seq C1 exon
CGCCGGCGCTCGGAAGTAGAGGCGCTTCTGTCGTTGTTCGTGAAGCCGTGGTGACTGCGGGATCAGAATCTTTGAG
Seq A exon
GTGAGCTTCTTGGAGACTGAGGAGAAGGTACAAAGGATTGTGCTTTGCGCAGGCCTCACCTTCCTCTCCGCGCCGCGTGGGCCGCGCGGCCCGTGGCGCTGTGCTGGACTGCGGCCCGAGGGGGCGCGGGCCTCGGTGGGGTCACGGAGCGGGCCCCGGTCAGAAATGCGGGCACCCGGGGCTTTCCACGTGGCAGGGATCCCGGCGGGCCGGTGTGGGAGGATGCGGCTCTCGCGGGGCCTTTGGGTAGAGGCTGGCCGCATCACGGCGTCCTTTCGGTTTATTACTTGCACCCCTTTCCTGGCTGGCTACAGGCAGATGTTTCAGACCTTTTAAGTCTCTAGGATGGTCGGTGCAGGGATGGTTAAACGCTGCAGGGTTCTGTGGTGGCCGCAATTATATTCCCAGCGTCGCTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAAGAACTGCCATTGCCATTCTCTTCAGTCTGAAACAGTTCCTGAATTGGGTAGGCCGCAGAAGTCTTGCAGGGGCTAAATAGGTCGTTATTGACCTATATGTCTTTAGTAATGAGAAATAGAGCGTTGATGGTGGTAGACAAACCAGTGCCTGGGACAGTAAATTCTGAAGTGGGATGTATACTGCGTAGATTTACCATTACAAGACCAGTGTCTCAACAGCAGCCTCCAGCATTTTGAACAGTGTCTCTTAAATGCACCAACAGTACTCATCACTATATTCAACTGCTGCAGATAATCTTGATGAGCTTGTACACTTTTGTACAATATGATTGGGTGGTTTAGTAAAGCGCAGAAAGCTAGTGAGACAGAAGGTCTGGTTTGTAATTTCTAGCACACCAGTATCACAGTCCCTCTTTATTCTGGGATTGCTGTCAGGCTGTGAAACAGGAAACTGGCTATAGAGTTAACCAGTGTATTAGTGCATTAAGCACATCCTTCCCTTCCAGCGCCTCCAGTTTAAAATTTTTGTGTATCCATGCTCTCCAGTTCCCATTTTTCCTGTATTCTAATATATAGTGTCTGAACACCCATAACTTCATATCTGAATTCTTTTTTCATTTTTGCCAGTAATAAGTTTTTGGTAATTCAGCTGTGACTAATTTGAAAAGAAACGTGAATAAGTGGCATTGGGAGCTGTAGAAATATACTGGCAGACTATAATGCTGATACTTTTAAAGCTAGAAATGATTAAGGAGTGGTTAAGTGGAAGGTTTTTTCTTTTTTCTCTGAATCTTGCTTTACCATTTACATGAAAAGTTTGGTTACAAAGTAGGCATGCGATTTTTTGAGGGAAGTAGCAGGTTGTTGACCTTTAGTTTTCCATCCATAATCCAAAGTGTTGTTTTGTTGAGATGTATGAGAGAAAATTCACAGGGAAACAGTATGTAAGGTTAGGAATTCTTGAAATTGAAAAAAAAAAGTGACATAATTTTTATTCATTTTCTTGTCTTGACTATTATATTAAAATAATAACCTTTTCCTACCAG
Seq C2 exon
TGTGAGAAACTTTACAGATAGCCACAATGGCTGAAAATGGAGATAACGAAAAAATGGCTGCTCTGGAGGCCAAAATCTGTCATCAAATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007998:ENSRNOT00000011174:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.273
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0538312=La=PU(8.5=22.7)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]