RetrogeneDB ID:

retro_ggor_1690

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:2a:66195224..66195642(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL11
Ensembl ID:ENSGGOG00000014628
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1690
AAGCAGCTCACAGGCCAGACCCCTGTGTTTTCCAAAGCCAAGTACAGCATCAGATCCTTCAGCATCAGGAGAAATGAAGA
GATTGCCGTCCACTGCACACTCTGAGGGGCCAAGGCAGAAACAATCCTGGAGAAAGGTCTAAAGGTGCAGGAATATGAGT
TAAGAAAAGAAAAAAATAATCCCTCAGATACTAGAAACTTTGGTTTTGGGATCCAGAAACACACCGATATAGGTATCAAA
TATGACTCAAGCACTGGTATCTATGACCTGGACTTCAATGTGGTGCTGGACAGGTGAGGTTTTAGCATCGCAGACAAGAA
GTGTGGGACAGACTGCACTGGGGACAAACAGAGTCAGCAAAGAGGAGGCCATGTGCTGGTTCCAGCGGAAGTGTGATAGG
ATTATTCTTCCTGGTAAA

ORF - retro_ggor_1690 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.47 %
Parental protein coverage: 77.53 %
Number of stop codons detected: 2
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalEQLTGQTPVFSKARYTVRSFGIRRNEKIAVHCTVRGAKAEEILEKGLKVREYELRK--NNFSDTGNFGFG
.QLTGQTPVFSKA.Y..RSF.IRRNE.IAVHCT..GAKAE.ILEKGLKV.EYELRK..NN.SDT.NFGFG
RetrocopyKQLTGQTPVFSKAKYSIRSFSIRRNEEIAVHCTL*GAKAETILEKGLKVQEYELRKEKNNPSDTRNFGFG
ParentalIQEHIDLGIKYDPSIGIYGLDFYVVLGRPGFSIADKKRRTGC-IGAKHRISKEEAMRWFQQKYDGIILPG
IQ.H.D.GIKYD.S.GIY.LDF.VVL.R.GFSIADKK..T.C..G...R.SKEEAM.WFQ.K.D.IILPG
RetrocopyIQKHTDIGIKYDSSTGIYDLDFNVVLDR*GFSIADKKCGTDC>LGT-NRVSKEEAMCWFQRKCDRIILPG
ParentalK
K
RetrocopyK

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 .05 RPM 74 .28 RPM
SRP007412_cerebellum 0 .51 RPM 94 .71 RPM
SRP007412_heart 0 .00 RPM 75 .55 RPM
SRP007412_kidney 0 .04 RPM 246 .40 RPM
SRP007412_liver 0 .03 RPM 235 .40 RPM
SRP007412_testis 0 .00 RPM 131 .57 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_1690 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1690 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2272
Pongo abelii retro_pabe_1946
Parental genes homology:
Parental genes homology involve 30 parental genes, and 97 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000050581 retrocopy
retro_acar_165,
Ailuropoda melanoleuca ENSAMEG000000097043 retrocopies
retro_amel_1123, retro_amel_1754, retro_amel_234,
Bos taurus ENSBTAG000000209051 retrocopy
retro_btau_267,
Canis familiaris ENSCAFG000000132322 retrocopies
retro_cfam_1059, retro_cfam_543,
Callithrix jacchus ENSCJAG000000209531 retrocopy
retro_cjac_790,
Cavia porcellus ENSCPOG000000084322 retrocopies
retro_cpor_261, retro_cpor_788,
Dasypus novemcinctus ENSDNOG000000112302 retrocopies
retro_dnov_1453, retro_dnov_605,
Dipodomys ordii ENSDORG000000124961 retrocopy
retro_dord_143,
Equus caballus ENSECAG000000211363 retrocopies
retro_ecab_471, retro_ecab_669, retro_ecab_926,
Echinops telfairi ENSETEG000000148258 retrocopies
retro_etel_1054, retro_etel_136, retro_etel_1452, retro_etel_1893, retro_etel_2018, retro_etel_500, retro_etel_62, retro_etel_948,
Felis catus ENSFCAG000000286512 retrocopies
retro_fcat_1069, retro_fcat_1877,
Homo sapiens ENSG000001426766 retrocopies
retro_hsap_1159, retro_hsap_1801, retro_hsap_2272, retro_hsap_3238, retro_hsap_606, retro_hsap_712,
Gorilla gorilla ENSGGOG00000014628 6 retrocopies
retro_ggor_1192, retro_ggor_1325, retro_ggor_1690 , retro_ggor_2204, retro_ggor_533, retro_ggor_603,
Loxodonta africana ENSLAFG000000308532 retrocopies
retro_lafr_371, retro_lafr_434,
Macropus eugenii ENSMEUG000000137383 retrocopies
retro_meug_488, retro_meug_517, retro_meug_633,
Myotis lucifugus ENSMLUG000000088683 retrocopies
retro_mluc_1271, retro_mluc_1345, retro_mluc_2321,
Macaca mulatta ENSMMUG000000024453 retrocopies
retro_mmul_2039, retro_mmul_2415, retro_mmul_2462,
Monodelphis domestica ENSMODG000000128281 retrocopy
retro_mdom_641,
Mus musculus ENSMUSG000000592913 retrocopies
retro_mmus_144, retro_mmus_146, retro_mmus_78,
Ornithorhynchus anatinus ENSOANG000000003211 retrocopy
retro_oana_49,
Oryctolagus cuniculus ENSOCUG000000229281 retrocopy
retro_ocun_1387,
Otolemur garnettii ENSOGAG000000327416 retrocopies
retro_ogar_1325, retro_ogar_1935, retro_ogar_1963, retro_ogar_2322, retro_ogar_2630, retro_ogar_569,
Pongo abelii ENSPPYG000000017366 retrocopies
retro_pabe_1478, retro_pabe_1946, retro_pabe_2686, retro_pabe_612, retro_pabe_615, retro_pabe_964,
Pteropus vampyrus ENSPVAG000000042821 retrocopy
retro_pvam_1068,
Rattus norvegicus ENSRNOG000000262609 retrocopies
retro_rnor_1735, retro_rnor_2287, retro_rnor_2314, retro_rnor_2690, retro_rnor_271, retro_rnor_2725, retro_rnor_668, retro_rnor_795, retro_rnor_919,
Sarcophilus harrisii ENSSHAG000000067671 retrocopy
retro_shar_638,
Sus scrofa ENSSSCG000000242604 retrocopies
retro_sscr_1048, retro_sscr_1049, retro_sscr_1074, retro_sscr_819,
Tupaia belangeri ENSTBEG000000078385 retrocopies
retro_tbel_2850, retro_tbel_3023, retro_tbel_3273, retro_tbel_4736, retro_tbel_596,
Tarsius syrichta ENSTSYG000000013496 retrocopies
retro_tsyr_1138, retro_tsyr_127, retro_tsyr_1583, retro_tsyr_1605, retro_tsyr_516, retro_tsyr_520,
Tursiops truncatus ENSTTRG000000161154 retrocopies
retro_ttru_1525, retro_ttru_1779, retro_ttru_476, retro_ttru_911,


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