RnoINT0169484 @ rn6
Intron Retention
Gene
ENSRNOG00000042213 | Zscan25
Description
zinc finger and SCAN domain containing 25 [Source:RGD Symbol;Acc:1308619]
Coordinates
chr12:11778969-11779980:-
Coord C1 exon
chr12:11779779-11779980
Coord A exon
chr12:11779061-11779778
Coord C2 exon
chr12:11778969-11779060
Length
718 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TGTGTTTTGTTTCTGCTCAGCAT
3' ss Score
7.47
Exon sequences
Seq C1 exon
GTTCCATGCCATGCCCAGGGAGAACAGCTGGTCACAGCCCTGGGCGGAGGATCTTGGCAATCAGGTATCCACTTGGGGCCAGTAGAAGTCAAGCCTGAGTGGGGGATCCCTCAGGGTGAAGGAGTTCAGAGCTTAGGCCCAAGCACCGCAGAACAGCTGAGCCAGGGCCCTGGAGATGGGACACAGGCCTTCCAGGAGCAAG
Seq A exon
GTAAGACTCAGATAATTTCTGAGGCTGGAGGGCCCCTCCCACCCACAGTTCCTTCAGAAACTCAGTGCTGGTCTAAGTAGTTATGAGCAAGATAGAATTCTGAGTTTTCCAAGCTACCTCCCCTACCCCAGTAGAAGGCAGATGAAGTGTTTTTTTTTAACACCTTGACCAGTTTTTTTTTTTTTTTTTTTTTTTGGTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCTAAATCCCCAGAACACCTTGACCAGTTTTACAGGGTACATGTAGAGTCGTGTTCTCCTGTCATTTCTTCTCCCTCCTTCTCCCTTCTCCTTACACCCTTCTAGAACCACTGGGCACTGTGCTGATGATAGGGGAGAGGTGCCAAATATTAAGTGGGGAAACAAACCTCACCCACCCGAGAGAAAGCTGTCCTCACGAGGGACTCAGGGGTGTGCCTAACTCTGAGGGGACAGGGCTGGGACAATCTCAGCCAGCACAGGCAGAACTGGCTGTGGGTCACTGTGGTACTGAGGTAATTCTCTGTGGGTTCTGAGGTTGTGTGTGTTGGGTGGGTGGGTCACTGTGGTACTGAGGTAATTCTCTGTGGGTTCTGAGGTTGTGTGTGTTGGGTGGGTGCCGTTGAGCTGGCAGACGACAGCCCTGATCCCTCAGTGTGTTTTGTTTCTGCTCAG
Seq C2 exon
CATTGCCCATTCTTCACGTGGGTTCAGGGCTTCCCACTGTGAGTGCCAGAGACCAAGAGATTGCAGCTGGGTTCCTTGCAGCCACGTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000042213:ENSRNOT00000039687:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.476 A=NA C2=0.161
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PD(1.1=1.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCCATGCCATGCCCAGG
R:
CTGGGACGTGGCTGCAAG
Band lengths:
294-1012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]