RetrogeneDB ID:

retro_ggor_925

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:13:12397760..12398897(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ENSG00000175354
Ensembl ID:ENSGGOG00000010259
Aliases:None
Description:Tyrosine-protein phosphatase non-receptor type [Source:UniProtKB/TrEMBL;Acc:G3R421]


Retrocopy-Parental alignment summary:






>retro_ggor_925
ATGCCCACCATCATTGAGCGGGAGTTCGAGGAGTTGGATGCTCAGCATCGCTGGCAGCTGCCGTACTTGGAAATTCGAAA
TGAGTCCCATGACTATCTTCATAGAGTGGCCAAGTTTCCAGAAAACAGAAATCGAAATAGATACAGAGATGTAAGCCCAT
ATGATCACAGTCGTGTTAAACTGCAAAATACTGAGAATGATTATATTAATGCCAGCTTAGTTGACACAGAAGAGGCACGA
AGGAGTTACATCTGAACACAGGGTCCACTTCCTAACATGTGCTGCCATTTCTGGCTTACGGTTTGGCAGCAGAAGACCAA
AGCAGTTGTTGTGCTGAACCGCATTGCGGAGAAAGAATCGGTTAAATGTGCGCAGTACTGGCCAACAGATGACCAAAAGA
TGCTGTTTAAAGAAACGGGATTCAATGTGAAGCTCTTTCAGAAGATGTGAAGTCATATCACACAGTACATCTACTACGAT
TAGAAAATATCAATAGTGGTGAAACCAGAACAATATCTCACTTGTATTATACGACCTGGCCAGATTTTGGAGTCCCTGAA
TCAACAGCTTCATTTCTCAATTTCTTGTTGAAAGTGAGAGAATCTGGCTCCTTGAACCCTGACCACGGGCCTGCAGTGAT
CCATTGTAGTGAAGGCACTGGGTGCTCGGGCACCTGCTCTCTGGTAGACGCTTGTCTTGTTTTGATGGGAAAAGGAGATT
ATATTAACATTAAACAAGTGTTATTGAACAGGAGAAAATACTGAATGGGTCTTATTCAGACCCCAGATCAACTGACATTC
TCATACATGGCTATAATAGAAGGAGCAAAATGTATAAAGGTAGATTCTAGTATACAGAAACGGTGGAAAGAATTTTCTAA
GGAAAACTTAGCTCCCGCTTTTGATCATTCGCCAAACAAAATAATGACTGAAAAATACAATGGGAACAGAATTGGTCTAG
AAGAAGAAAAACTGACAGGTGACCGATGTACAGTAAATGCAAGATACAATGGAAGAGAACAGTGAGAATGCTCTACGGAA
ACATATTCTGGAGGAGAGAAAGGCCACCACAGCTCAGAAGGTGCAGCAGATGAAACAGAGGCTAAATGAGAACGAACAAA
AAAGAAAAAGGCCAAGA

ORF - retro_ggor_925 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.98 %
Parental protein coverage: 91.81 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMPTTIEREFEELDTQRRWQPLYLEIRNESHDYPHRVAKFPENRNRNRYRDVSPYDHSRVKLQNAENDYIN
MPT.IEREFEELD.Q.RWQ..YLEIRNESHDY.HRVAKFPENRNRNRYRDVSPYDHSRVKLQN.ENDYIN
RetrocopyMPTIIEREFEELDAQHRWQLPYLEIRNESHDYLHRVAKFPENRNRNRYRDVSPYDHSRVKLQNTENDYIN
ParentalASLVDIEEAQRSYILTQGPLPNTCCHFWLMVWQQKTKAVVMLNRIVEKESVKCAQYWPTDDQEMLFKETG
ASLVD.EEA.RSYI.TQGPLPN.CCHFWL.V................KESVKCAQYWPTDDQ.MLFKETG
RetrocopyASLVDTEEARRSYI*TQGPLPNMCCHFWLTVXXXXXXXXXXXXXXXXKESVKCAQYWPTDDQKMLFKETG
ParentalFSVKL-LSEDVKSYYTVHLLQLENINSGETRTISHFHYTTWPDFGVPESPASFLNFLFKVRESGSLNPDH
F.VKL.LSEDVKSY.TVHLL.LENINSGETRTISH..YTTWPDFGVPES.ASFLNFL.KVRESGSLNPDH
RetrocopyFNVKL<LSEDVKSYHTVHLLRLENINSGETRTISHLYYTTWPDFGVPESTASFLNFLLKVRESGSLNPDH
ParentalGPAVIHCSAGIGRSGTFSLVDTCLVLMEKGDDINIKQVLLNMRKYRMGLIQTPDQLRFSYMAIIEGAKCI
GPAVIHCS.G.G.SGT.SLVD.CLVLM.KGD.INIKQVLLN.RKY.MGLIQTPDQL.FSYMAIIEGAKCI
RetrocopyGPAVIHCSEGTGCSGTCSLVDACLVLMGKGDYINIKQVLLNRRKY*MGLIQTPDQLTFSYMAIIEGAKCI
ParentalKGDSSIQKRWKELSKEDLSPAFDHSPNKIMTEKYNGNRIGLEEEKLTGDRCTG-LSSKMQDTMEENSESA
K.DSSIQKRWKE.SKE.L.PAFDHSPNKIMTEKYNGNRIGLEEEKLTGDRCT......M....E......
RetrocopyKVDSSIQKRWKEFSKENLAPAFDHSPNKIMTEKYNGNRIGLEEEKLTGDRCTV>MQDTMEENSENALRKH
ParentalLRKRIREDRKATTAQKVQQMKQRLNENERKRKR
..............Q..Q......NE..RKR.R
RetrocopyILEERKATTAQKVQQMKQRLNE--NEQKRKRPR

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
SRP007412_brain_prefrontal_cortex 0 .00 RPM 3 .55 RPM
SRP007412_cerebellum 0 .08 RPM 5 .44 RPM
SRP007412_heart 0 .06 RPM 0 .66 RPM
SRP007412_kidney 0 .04 RPM 6 .87 RPM
SRP007412_liver 0 .03 RPM 4 .01 RPM
SRP007412_testis 0 .00 RPM 9 .22 RPM
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_925 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_925 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 15 parental genes, and 23 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000008671 retrocopy
Callithrix jacchus ENSCJAG000000051021 retrocopy
Dasypus novemcinctus ENSDNOG000000165881 retrocopy
Erinaceus europaeus ENSEEUG000000056361 retrocopy
Echinops telfairi ENSETEG000000055772 retrocopies
Homo sapiens ENSG000001753542 retrocopies
Gorilla gorilla ENSGGOG00000010259 2 retrocopies
retro_ggor_453, retro_ggor_925 ,
Gorilla gorilla ENSGGOG000000106891 retrocopy
Loxodonta africana ENSLAFG000000118181 retrocopy
Macropus eugenii ENSMEUG000000051561 retrocopy
Monodelphis domestica ENSMODG000000214221 retrocopy
Nomascus leucogenys ENSNLEG000000090743 retrocopies
Otolemur garnettii ENSOGAG000000286051 retrocopy
Pongo abelii ENSPPYG000000089833 retrocopies
Pan troglodytes ENSPTRG000000098842 retrocopies



Copyright © RetrogeneDB 2014-2017