DreINT0174206 @ danRer10
Intron Retention
Gene
ENSDARG00000017119 | vps37a
Description
vacuolar protein sorting 37A [Source:ZFIN;Acc:ZDB-GENE-030131-8312]
Coordinates
chr1:15786598-15787276:+
Coord C1 exon
chr1:15786598-15786696
Coord A exon
chr1:15786697-15786791
Coord C2 exon
chr1:15786792-15787276
Length
95 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
TATTATATGATTTATCGCAGGTT
3' ss Score
6.94
Exon sequences
Seq C1 exon
CTATGTCATAGCAGAAGAGCCAAAGAGGAGAAACTCCAGCAATGTATGAACACACACGGACAGTTTCCCGCCACACTTTAGATTTAATATCCCAAGAAG
Seq A exon
GTAATGTCCAGTTACTTCACTCATTTGCTTGTTCTACAAATATGTTTTCAACTCTTGCATTATTAATAAACAGTATATTATATGATTTATCGCAG
Seq C2 exon
GTTTGGGATCAATCTACCAGCAGACCGGTGGGTTTGAGACAAGCAGCGCATCTTGGGGTTTACAGTCTGGATTGGGCAAATATAAAATGCACACGACACAGATTTTGGCACCATTCTATAATGAAATAACAATTATTTGTTTTGCACAGAATTCCTAAAAAGTGTTACGCTCACGCTGGTTAATTAGAACAGATGTGAGCACGGCCCACACTTGACTGTGAACCAAAGGCTGTAATCAGAAGAGGGCGATCTGTTCTTAATAGTGTTCAGAAGCAGAAACCGAGTTCTAAGCTTATTAGTTGTGACAAATGGGATTGGGCCTTGTAAGCACTTGAAGATGATTCTCAACAATGTTAATGCTGCCGTAAACGTGCGACAAAAAACATACTGTATTTAATAATGTTGATAAAAAAAGCCTTTATTATAATTAGACATTGTATTATATGTTTATTTAATTTGATAGGTTAATAAAACATTTAGAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017119:ENSDART00000078675:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF072008=Mod_r=PD(7.3=40.7)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACACACGGACAGTTTCCC
R:
GAATGGTGCCAAAATCTGTGTCG
Band lengths:
167-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]