RnoINT0146218 @ rn6
Intron Retention
Gene
ENSRNOG00000033389 | Susd2
Description
sushi domain containing 2 [Source:RGD Symbol;Acc:1308595]
Coordinates
chr20:13969676-13970759:+
Coord C1 exon
chr20:13969676-13969834
Coord A exon
chr20:13969835-13970510
Coord C2 exon
chr20:13970511-13970759
Length
676 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CCGTCTTTACTTGTGGTCAGGCA
3' ss Score
4.76
Exon sequences
Seq C1 exon
GCACCCAGGCCCGTGGCACAGGGCTGACCGCAGTGGCTGTCCAAGAAGATAAGTCCGATGTGATAGAGGTGAGGGTAGCTGACGGCTCCCAGGTCTTGGAAGTATTGCTGAATCAAAAACTCCTCAGTTTCACTGAACAAAATTGGATGGACCTGAAGG
Seq A exon
GTAAGTGGGTACAGCCAGGTATGGTCAGCAGGTTCCCTGTGACTTTCACGCTGTCCCTAGTTCTGGCCGTAGGCTGTGGTAGCATCTGGCTCAAACACAAAGGCAAAGCCAAGACCCACGTGGCCAGGTTGGGGAATCTGTACCCTGTTTGTGACTGTTTTAGGCCAGCGAGGGTGGTTGCTCAGCCTGAGGTCTGGTCTCATATCCGCGGGACCATAAGGCCTACACAGAGTCCTGAAAGGCCAAGAGCTAGCAGCTAGTCCTCCACAGAGCCCACAGAAACCCAAAGACCACAGTGATGGAAAGTGGCAGCCAGGAGCCACAGCACAGCTTCCAAACTCCGTCGGCACTGGGCTGTGTTGCTTCAGAGCTGAGAAAAAAAAAATGGCTCCTGGAGGGGATGAGTGAGAGTATCGTATACAAAGACCTTCAGGAAGGGCCAGGCTGCTGGAACCTCGTCAGGGATTAACTCAGCATGGAGGAGACGGAGAGTCTGGGTGCATATAGACTGTAGACGTGAGTTGGGAGTGCTAACACATCTCAGTCAGCAGACAGGTGCATCCTCCTAGTTCCTTACGTGTACCCTCTACCCTACCTCAGGGCTGTGTCAAGGGTTGAGGGGGGCGGAACACAGGGCCCAAGAGAGTAACCCTAAGCCGTCTTTACTTGTGGTCAG
Seq C2 exon
GCATGTTTCTGTCAGTGGCCTCTCAGGATAAGGTATCAATCATGTTGTCATCGGGGGCTGGCCTCGAGGTTGGCGTACAAGGTCCTTTCCTGAGTGTGAGCATCCTGCTTCCTGAGAAGTTTCTGAGCCATACCCGTGGTCTCCTGGGAACACTCAACGATAACCCTGAGGATGACTTCACCCTGCGCAATGGGCATGTCCTGCCCCCGAATGCCACTGCTCAGCAGTTATTCCAGTTTGGAGCCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033389:ENSRNOT00000066773:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.095
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(30.8=100)
A:
NA
C2:
PF0009420=VWD=PD(37.8=77.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGTGGCTGTCCAAGAAGAT
R:
TGCTGAGCAGTGGCATTCG
Band lengths:
356-1032
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]