RetrogeneDB ID:

retro_ggor_2457

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:6:109400323..109401060(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL7L1
Ensembl ID:ENSGGOG00000009958
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2457
ATGGCAGAGCAAGAGCAAAGAAAAATCCCTTTGGTTCCAGAAAATCTCCTGAAAAAGAGGAAGGCTTATCAAGCTCTCAA
AGCCACCCAGGCAAAGCAGGCACTTTTGGAAAAGAAGGAGCAGAGGAAAGGAAAAGGGCTCAGGTTTAAATGACTGGAAT
CATTCCTGCATGGTTCCTGGTGGCAGAAACGTGACAAGGTGCATCTCAGATGACTAGAAGTGAAACTTCACACTTTGGAA
TTGCCAGATAAACATCCCTTGGCCTTTGTTGAACGCATTGAAAGGATTAATGGTGTGAGTTTACTGGTGCAGAGAACCAT
TGCAACACTTCACCTAAAGAAAATTTTTAGTGGTGCCTTGTAAAAGTAACCCCCTAGAACCTAAAAATGCTGCGTATAGT
GGAACCTTATGTTACCTTTGGATTTCCAAATCTGAAGTCTGTCTGGCAACTCATTTTGAAACATGGAGAATCTGAGATCA
AGAATAAGACCATCCCTCTGACAGACAACACAGTGACTGAGGAGCACCTGGGGAAGTTTGGCATCATTTGCTTGGAAGAC
CTCATTCATGAAATTGCCTCCCCAGGGAAGCATTTCCAGGAGATGCCATGGTTCTTGCACCCTTTCCACCTCTCAGTGGC
CTGTCATGCTACCAAAAATAGAGTGGGCTTCCTCAAGGAGATGGGCACACCTGGCTATCGGGGTGAACGCATCAATCAGC
TTATCCGCCAGCTGAAC

ORF - retro_ggor_2457 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.04 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 3
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMAEQEQRKIPLVPENLLKKRKAYQALKATQAKQALLAKKEQKKGKGLRFKRLESFLHDSWRQKRDKVRLR
MAEQEQRKIPLVPENLLKKRKAYQALKATQAKQALL.KKEQ.KGKGLRFK.LESFLH.SW.QKRDKV.LR
RetrocopyMAEQEQRKIPLVPENLLKKRKAYQALKATQAKQALLEKKEQRKGKGLRFK*LESFLHGSWWQKRDKVHLR
ParentalRLEVKPHALELPDKHSLAFVVRIERIDGVSLLVQRTIARLRLKKIFSGVF-VKVTPQNLKMLRIVEPYVT
.LEVK.H.LELPDKH.LAFV.RIERI.GVSLLVQRTIA.L.LKKIFSG...VKVTP.NLKMLRIVEPYVT
Retrocopy*LEVKLHTLELPDKHPLAFVERIERINGVSLLVQRTIATLHLKKIFSGAL<VKVTP*NLKMLRIVEPYVT
ParentalWGFPNLKSVRELILKHGQAKVKNKTIPLTDNTVIEEHLGKFGVICLEDLIHEIAFPGKHFQEISWFLRPF
.GFPNLKSV..LILKHG....KNKTIPLTDNTV.EEHLGKFG.ICLEDLIHEIA.PGKHFQE..WFL.PF
RetrocopyFGFPNLKSVWQLILKHGESEIKNKTIPLTDNTVTEEHLGKFGIICLEDLIHEIASPGKHFQEMPWFLHPF
ParentalHLSVARHATKNRVGFLKEMGTPGYRGERINQLIRQLN
HLSVA.HATKNRVGFLKEMGTPGYRGERINQLIRQLN
RetrocopyHLSVACHATKNRVGFLKEMGTPGYRGERINQLIRQLN

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






RNA-Seq - click to see more details

(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 37 .69 RPM
SRP007412_cerebellum 0 .04 RPM 31 .64 RPM
SRP007412_heart 0 .03 RPM 9 .07 RPM
SRP007412_kidney 0 .04 RPM 48 .41 RPM
SRP007412_liver 0 .03 RPM 36 .48 RPM
SRP007412_testis 0 .21 RPM 33 .77 RPM

ChIP-Seq - click to see more details

Gorilla gorilla was not studied using ChIP-Seq data.

EST - click to see more details

Gorilla gorilla was not studied using EST data.

TSS - click to see more details

Gorilla gorilla was not studied using FANTOM5 data.

Lab - click to see more details

retro_ggor_2457 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2457 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 27 parental genes, and 109 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000127912 retrocopies
retro_amel_1260, retro_amel_243,
Bos taurus ENSBTAG000000184782 retrocopies
retro_btau_588, retro_btau_816,
Canis familiaris ENSCAFG000000017284 retrocopies
retro_cfam_1180, retro_cfam_1464, retro_cfam_1638, retro_cfam_330,
Choloepus hoffmanni ENSCHOG000000003064 retrocopies
retro_chof_1168, retro_chof_1404, retro_chof_388, retro_chof_478,
Cavia porcellus ENSCPOG000000211892 retrocopies
retro_cpor_1134, retro_cpor_653,
Dasypus novemcinctus ENSDNOG000000134851 retrocopy
retro_dnov_689,
Equus caballus ENSECAG000000031131 retrocopy
retro_ecab_998,
Erinaceus europaeus ENSEEUG000000104311 retrocopy
retro_eeur_90,
Echinops telfairi ENSETEG000000024193 retrocopies
retro_etel_1151, retro_etel_1823, retro_etel_542,
Felis catus ENSFCAG000000097071 retrocopy
retro_fcat_143,
Gorilla gorilla ENSGGOG00000009958 15 retrocopies
retro_ggor_1009, retro_ggor_1013, retro_ggor_1253, retro_ggor_1261, retro_ggor_1904, retro_ggor_2099, retro_ggor_2108, retro_ggor_2113, retro_ggor_2162, retro_ggor_2282, retro_ggor_2457 , retro_ggor_2524, retro_ggor_2591, retro_ggor_2659, retro_ggor_2973,
Macaca mulatta ENSMMUG000000213131 retrocopy
retro_mmul_11,
Monodelphis domestica ENSMODG000000190281 retrocopy
retro_mdom_1708,
Mustela putorius furoENSMPUG000000132961 retrocopy
retro_mputfur_1577,
Mus musculus ENSMUSG000000638884 retrocopies
retro_mmus_2359, retro_mmus_3172, retro_mmus_3626, retro_mmus_777,
Oryctolagus cuniculus ENSOCUG000000038446 retrocopies
retro_ocun_1393, retro_ocun_1604, retro_ocun_1818, retro_ocun_278, retro_ocun_509, retro_ocun_598,
Otolemur garnettii ENSOGAG000000126713 retrocopies
retro_ogar_1380, retro_ogar_3358, retro_ogar_3428,
Pongo abelii ENSPPYG0000001661921 retrocopies
retro_pabe_1064, retro_pabe_1069, retro_pabe_1315, retro_pabe_1341, retro_pabe_1370, retro_pabe_1379, retro_pabe_1457, retro_pabe_2078, retro_pabe_2154, retro_pabe_2354, retro_pabe_2527, retro_pabe_2543, retro_pabe_2598, retro_pabe_2609, retro_pabe_2644, retro_pabe_2988, retro_pabe_3053, retro_pabe_3259, retro_pabe_3410, retro_pabe_3714, retro_pabe_3753,
Pteropus vampyrus ENSPVAG000000086963 retrocopies
retro_pvam_1179, retro_pvam_1482, retro_pvam_975,
Rattus norvegicus ENSRNOG000000162691 retrocopy
retro_rnor_2795,
Sorex araneus ENSSARG000000052862 retrocopies
retro_sara_100, retro_sara_211,
Sarcophilus harrisii ENSSHAG000000112191 retrocopy
retro_shar_216,
Sus scrofa ENSSSCG000000264723 retrocopies
retro_sscr_198, retro_sscr_756, retro_sscr_807,
Ictidomys tridecemlineatus ENSSTOG000000098412 retrocopies
retro_itri_1233, retro_itri_417,
Tarsius syrichta ENSTSYG0000000484816 retrocopies
retro_tsyr_1312, retro_tsyr_1340, retro_tsyr_1380, retro_tsyr_1399, retro_tsyr_1729, retro_tsyr_1914, retro_tsyr_1933, retro_tsyr_2161, retro_tsyr_357, retro_tsyr_455, retro_tsyr_469, retro_tsyr_581, retro_tsyr_606, retro_tsyr_642, retro_tsyr_703, retro_tsyr_856,
Tursiops truncatus ENSTTRG000000069716 retrocopies
retro_ttru_1194, retro_ttru_171, retro_ttru_361, retro_ttru_498, retro_ttru_528, retro_ttru_915,
Vicugna pacos ENSVPAG000000088942 retrocopies
retro_vpac_386, retro_vpac_584,


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