RetrogeneDB ID:

retro_amel_10

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL193785.1:417131..418331(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSAMEG00000019134
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:DDI2
Ensembl ID:ENSAMEG00000011873
Aliases:None
Description:DNA-damage inducible 1 homolog 2 (S. cerevisiae) [Source:HGNC Symbol;Acc:24578]


Retrocopy-Parental alignment summary:






>retro_amel_10
ATGCTGCTCACCGTGTACTGTGTGCGGAGGGACCTGACCGAGGCGACCTTCTCCCTCCAGGTCAGCCCTGACTTCGAGCT
GTACAACTTCCGCCACCTCTGCGAGCTCGAGTCCGGCATCCCCGTGGACGAGATCCAGATCCTGTTCTTGGAGCGGCTCC
TGGCTGACGACCACTGCTCCCTGGGCTCCTACGGCCTCCGAGACGGCGATGTGGTAGTGCTGCTGCAGAAGGAGGCCGTG
GGGCCGTGGCCGCCCAGACGGACATCCAGCCTGCCGCAGCTCGACCTCTCCGGGATAGCCGTGCCCGGGACGTCCGGCAG
CCGCCCGCTGCACCCGCCGCCCCGGGCCCCGCCGGGCCAGCAGTCCCACGGCCTGAACTCCGGAGAGAAGAGGAGGGCCA
CGCGGGGTCTGGACAGCGCCGGGCTGATCCGGAGCATGCTGCTGTCCAACCCCCACGACCTGTCGCTACTCAAGGAGCGC
AACCCGCCCCTGGCCGAGGCCCTGCTCAGCGGCAGCCTCGAGACGTTCTCTCATGTCCTCATGGAGCAGCAGAGGGACAG
GGCCCTGAGGGAGCAGGAGCGGCTGCGGCTCTTCGCGGCCGACCCCTTTGATTTGGAGGCTCAGGCCAAGATAGAGGAAG
AAATCCGGCAGCAGAACGTCGAGGAAAACATGAGCATCGCGATGGAAGAGGCCCCGGAGAGCTTCGGACAAGTAACCATG
CTCTATATCAACTGCAAGGTGAACGGGCATCCGCTGAAGGCTTTCGTGGACTCCGGGGCCCAGATGACCATCATGGGACA
AGCATGCGCCGAGAGATGTAACATAATGCGGCTGGTGGACCGCCGCTGGGCTGGGACTGCCAAGGGGGTGGGCACACAGA
GAATTATTGGCCGGGTCCATCTAGCCCAGATTCAGATAGAAGGCGACTTCCTGCAGTGCTCGTTCTCCATCCTGGAGGAG
CAGCCCATGGACATGCTTCTAGGACTCGACATGCTCAGGAGACACCAGTGCTCCATCGACCTGAAGAAAAACGTGCTGGT
GATCGGCACCACGGGCACGCAGACTCACTTCCTCCCCGAGGGGGAGTTACCCCTGTGTGCCAAGCTGGTGTGCGGGGGTG
GGCAAGACGAGCCTCCAGACAAGGAAGAAGCAGATACTATTAAACATTCGGTCAAGGATTTAGGACGGAAAAAGCGTTGA

ORF - retro_amel_10 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.97 %
Parental protein coverage: 67.92 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalRQPPGAQQSHSSPGDIASSPQGLDNPALLRDMLLANPHELSLLKERNPPLADALLSGDLEKFSRVLVEQQ
R.PPG.Q......G.......GLD...L.R.MLL.NPH.LSLLKERNPPLA.ALLSG.LE.FS.VL.EQQ
RetrocopyRAPPGQQSHGLNSGEKRRATRGLDSAGLIRSMLLSNPHDLSLLKERNPPLAEALLSGSLETFSHVLMEQQ
ParentalQDRARREQERIRLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQVVMLYINCKVNGHPVKA
.DRA.REQER.RLF.ADPFDLEAQAKIEE.IRQQN.EENM.IAMEEAPESFGQV.MLYINCKVNGHP.KA
RetrocopyRDRALREQERLRLFAADPFDLEAQAKIEEEIRQQNVEENMSIAMEEAPESFGQVTMLYINCKVNGHPLKA
ParentalFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGRVHLAQVQIEGDFLACSFSILEEQPMD
FVDSGAQMTIM.QACAERCNIMRLVDRRWAG.AKGVGTQ.IIGRVHLAQ.QIEGDFL.CSFSILEEQPMD
RetrocopyFVDSGAQMTIMGQACAERCNIMRLVDRRWAGTAKGVGTQRIIGRVHLAQIQIEGDFLQCSFSILEEQPMD
ParentalMLLGLDMLKRHQCSIDLKKNVLVIGTTGSQTTFLPEGELPECARLAYGAGREDVRPEEIAD
MLLGLDML.RHQCSIDLKKNVLVIGTTG.QT.FLPEGELP.CA.L..G.G.......E.AD
RetrocopyMLLGLDMLRRHQCSIDLKKNVLVIGTTGTQTHFLPEGELPLCAKLVCGGGQDEPPDKEEAD

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






RNA-Seq - click to see more details

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_amel_10 retrocopy.

TSS - click to see more details

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab - click to see more details

retro_amel_10 was not experimentally validated.

Retrocopy orthology:
Ailuropoda melanoleuca does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 24 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000011873 1 retrocopy
retro_amel_10 ,
Bos taurus ENSBTAG000000187182 retrocopies
retro_btau_15, retro_btau_650,
Canis familiaris ENSCAFG000000162201 retrocopy
retro_cfam_193,
Callithrix jacchus ENSCJAG000000086251 retrocopy
retro_cjac_196,
Cavia porcellus ENSCPOG000000208851 retrocopy
retro_cpor_88,
Equus caballus ENSECAG000000007621 retrocopy
retro_ecab_110,
Homo sapiens ENSG000001973121 retrocopy
retro_hsap_96,
Gorilla gorilla ENSGGOG000000135371 retrocopy
retro_ggor_143,
Macropus eugenii ENSMEUG000000061481 retrocopy
retro_meug_1364,
Myotis lucifugus ENSMLUG000000306691 retrocopy
retro_mluc_68,
Macaca mulatta ENSMMUG000000199121 retrocopy
retro_mmul_231,
Monodelphis domestica ENSMODG000000035151 retrocopy
retro_mdom_282,
Mustela putorius furoENSMPUG000000163321 retrocopy
retro_mputfur_1509,
Mus musculus ENSMUSG000000785151 retrocopy
retro_mmus_67,
Oryctolagus cuniculus ENSOCUG000000238911 retrocopy
retro_ocun_249,
Otolemur garnettii ENSOGAG000000277091 retrocopy
retro_ogar_4,
Ochotona princeps ENSOPRG000000184481 retrocopy
retro_opri_4,
Pongo abelii ENSPPYG000000018411 retrocopy
retro_pabe_158,
Pan troglodytes ENSPTRG000000240591 retrocopy
retro_ptro_570,
Pteropus vampyrus ENSPVAG000000050841 retrocopy
retro_pvam_420,
Rattus norvegicus ENSRNOG000000122741 retrocopy
retro_rnor_2606,
Sus scrofa ENSSSCG000000034621 retrocopy
retro_sscr_6,
Ictidomys tridecemlineatus ENSSTOG000000194471 retrocopy
retro_itri_93,
Tarsius syrichta ENSTSYG000000025221 retrocopy
retro_tsyr_1120,


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