RnoALTD0034711-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000015071 | Zim1
Description
zinc finger, imprinted 1 [Source:RGD Symbol;Acc:1310930]
Coordinates
chr1:70260099-70265524:+
Coord C1 exon
chr1:70260099-70260194
Coord A exon
chr1:70260195-70260230
Coord C2 exon
chr1:70264191-70265524
Length
36 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
AACCTTTAAATCTCCTACAGGGA
3' ss Score
8.16
Exon sequences
Seq C1 exon
AATATTATATTTTTAAGCCAAAGTTGATCACCAGATTGGAGCAAGGAATTGACCTTTTTGCCAAAGAGAATGATACTCCTGGAGACCCCCAGCAAG
Seq A exon
GTGAGGCGGGAGTCAGCAGAAGTGACACCTCTGCAG
Seq C2 exon
GGAAGAAGACGGGGAATAATTCCACAAAGGCAGAAACCCGGAAGCCAGATAACTCTAAGAACGTGTCACAGGAGAAGCTGAAGAAGGCAGATCAAGGGGGTGGTTCCCAGAATTTGAGAGCAGAAAAGACCTCAAAAAGTGATGACAGGCCATCTCAAAATAAGGAGAAGAGTGACTCAACTTCGACTACAGAAGCAGGCAAAACCACCAATCCTGGCAATCAGGAGAATGAATCTGCAGCCCCGGGGACATCTTCGAGTCAAACACCATCAACTACAGCACCACAGAGCACTCCTCCAGAAAAGTCGACATCAGGGAAAGATGGTCAAGGAAAATCACCTAACACCAGCAGTTCCACAAACCCAAAGCGCAAGCCTGCCCGACAAGGTAAAAACCACTTTAAATGCAAGGAATGTGGGAAAACCTTCAACCAGACCCTCCACCTCGTGGAGCATGAGCGAATCCACACGGGAGAGAAACCCCACAAGTGCGACACGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015071-7-11,8-11-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.577 A=NA C2=0.374
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.8),PF079757=C1_4=WD(100=10.6),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8),PF134651=zf-H2C2_2=WD(100=5.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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:
TGATACTCCTGGAGACCCCCA
R:
ACCCCCTTGATCTGCCTTCTT
Band lengths:
127-163
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]