RetrogeneDB ID:

retro_rnor_884

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:12:5642470..5643077(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSRNOG00000028352
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Ranbp1
Ensembl ID:ENSRNOG00000001884
Aliases:None
Description:ran-specific GTPase-activating protein [Source:RefSeq peptide;Acc:NP_001101794]


Retrocopy-Parental alignment summary:






>retro_rnor_884
ATGGCGGCCGCCAAGGACAGTCACAAGGACCACGATACTTCCACAGAGAATACAGATGAGTCCAACCAAGACCCCCAGTT
TGAGCCAATAGGTTCTCTTCCTGAGCAAGAAATTAAAACTGGAGGAAGATGAAGAGGAACTTTTTAAGATGCGTGCAAAG
CTGTTCTGGTTTGCTTCAGAGAATGACCTCCCAGAATGGAAGGAGCGAGGCACTGGAGACGTCAAGCTTCTGAAGCATAA
GGAGAAAGGGACCATCCGCCTTCTCATGAAGAGGGACAAAACCTTGAAGATATGCGCCAACCACTATATCACACCAATGA
TGGCGCTGAAGCCAAATGCTGGCAGTGACCGCGCCTGGGTCTGGAATACCCACGCCGACTTTGCTGATGAGTGCCCCAAG
CCTGAGCTGCTCGCCATCCGCTTCCTAAATGCTGAGAACACACAAAAGTTCAAAACAAAGTTCGAAGAATGCAGGAAAGA
AATTGAAGAGAGAGAAAAGAAAGGACCAGGCAAAACTGATAATGCTGAAAAGGTGGCTGAGAAGCTGGAAGCCCTTTCAG
TGAGGGAGGCCAGAGACGAGGCTGAAGAGAAGTCTGAGGAGAAGCAA

ORF - retro_rnor_884 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.14 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAAAKDSHEDHDTSTENAEESNHDPQFEPIVSLPEQ-EIKTLEEDEEELFKMRAKLFRFASENDLPEWKE
MAAAKDSH.DHDTSTEN..ESN.DPQFEPI.SLPEQ...K.LEEDEEELFKMRAKLF.FASENDLPEWKE
RetrocopyMAAAKDSHKDHDTSTENTDESNQDPQFEPIGSLPEQ>KLK-LEEDEEELFKMRAKLFWFASENDLPEWKE
ParentalRGTGDVKLLKHKEKGTIRLLMRRDKTLKICANHYITPMMELKPNAGSDRAWVWNTHADFADECPKPELLA
RGTGDVKLLKHKEKGTIRLLM.RDKTLKICANHYITPMM.LKPNAGSDRAWVWNTHADFADECPKPELLA
RetrocopyRGTGDVKLLKHKEKGTIRLLMKRDKTLKICANHYITPMMALKPNAGSDRAWVWNTHADFADECPKPELLA
ParentalIRFLNAENAQKFKTKFEECRKEIEEREKKGPGKNDNAEKVAEKLEALSVREARDEAEEKSEEKQ
IRFLNAEN.QKFKTKFEECRKEIEEREKKGPGK.DNAEKVAEKLEALSVREARDEAEEKSEEKQ
RetrocopyIRFLNAENTQKFKTKFEECRKEIEEREKKGPGKTDNAEKVAEKLEALSVREARDEAEEKSEEKQ

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .00 RPM 30 .27 RPM
SRP017611_kidney 0 .00 RPM 19 .54 RPM
SRP017611_liver 0 .00 RPM 9 .01 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_884 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_884 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_884 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 17 parental genes, and 40 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000107491 retrocopy
Cavia porcellus ENSCPOG000000029621 retrocopy
Dipodomys ordii ENSDORG000000113172 retrocopies
Echinops telfairi ENSETEG000000159962 retrocopies
Homo sapiens ENSG000000999012 retrocopies
Gorilla gorilla ENSGGOG000000007841 retrocopy
Macropus eugenii ENSMEUG000000166208 retrocopies
Myotis lucifugus ENSMLUG000000175351 retrocopy
Macaca mulatta ENSMMUG000000201001 retrocopy
Monodelphis domestica ENSMODG000000103125 retrocopies
Mus musculus ENSMUSG000000057321 retrocopy
Nomascus leucogenys ENSNLEG000000056842 retrocopies
Otolemur garnettii ENSOGAG000000343332 retrocopies
Pongo abelii ENSPPYG000000115934 retrocopies
Rattus norvegicus ENSRNOG00000001884 4 retrocopies
Sarcophilus harrisii ENSSHAG000000068731 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000268402 retrocopies



Copyright © RetrogeneDB 2014-2017