RetrogeneDB ID:

retro_amel_191

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192349.1:2525879..2527832(-)
Located in intron of:ENSAMEG00000005872
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:EWSR1
Ensembl ID:ENSAMEG00000008298
Aliases:None
Description:EWS RNA-binding protein 1 [Source:HGNC Symbol;Acc:3508]


Retrocopy-Parental alignment summary:






>retro_amel_191
TCCACGGATTACAGTACCTATAGCCAAGCTGCAGCCCAGCCGGGCTACAGTGCACACACCACCCAACCCACTCAAGGATA
TGCACAGACCACCCAGGCATATGCGCAGCAAAGTTATGGAACCTATGGACAGCCCACTGATGTCAGCTATACCCAGGCTC
AGACCACTGCGACCTATGGGCAGACTGCCTATGCAACTTCTTATGGACAGCCTCCCGCTGGTTATACTACTCCAACTGCC
ACCCAGGCATAGAGTCAGCATGTCCAGGGGTATGGCACTGGTGCTTACGATACCACCACTGCTACGGCCACTACCACCCA
GGCCTCCTATGCAGCTCAGTCTGCTTATGGCACTCAGCCTGCTTACTCAGCCTATGGAAAGGAGCCAGCAGCCACCGCAC
CTGAAAGACCACAGGATGGTAACAAACCCGCTGAGACTAGTCAACCTCAATCTAGCACAGGGGGTTACAATCAGCCCAGC
CTAGGATATGGACAGAGTAACTACAGTTATCCCCAGGTACCTGGGAGCTACCCCATGCAGCTAGTCACAGCGCCACCATC
TTACTCTCCTACCAGCTACTCCTCTACACAGACAACTAGTTATGATCAGAGCAGTTACTCTCAGCAAAACACCTATGGGC
AGCCGAGAGCTATGGACAGCAGAGTAGCTATGGTCAAAAAAGCAGCTACGGGCATCAGCCGCCCACTAGTTATCCCCCCT
AAACTGGATCCTACAGCCAGGCTCCAAGTCAATATAGCCAACAGAGCAGCAGCTACGGGCAGCAGAGTTCATTCCAACAG
GACCACCCCAGTAGCATGGGTGTTTATGGGCAGGACTCTGGAGGATTTTCCAGACCAGGAGAGAACCGGGCATGAGTGGT
CCTGATAACGGGGGCAGGGGAAGTGGGGGATTTGGTAGCGGAGGCATGAGCAGAGGTGGGCAGGGAGGAGGACATGGTGG
AATGGGTGCTGGAGAGCGAGGTGTCTTCAATAAGCCTGGTGGACCCACGGACGAAGGACCAGATCTTGATCTAGGCCTAC
GTGTAGATCGAGATGAAGACTCTGACAACAGTGCAGTTCATGTGCAAGGCTGAAATGACAGTGGGACTCTAGATGATCTG
GCCGACTTCTTGAAGCAGTGTGGAGTTGTTAAGATGAACAAGAGAACCGGACAACCCATGATCCATATCTACTTGGACAA
GGAAACAGGAAAGCCCAAAGGTGATGCTACAGTGTCCTATGAAGACCAACCAACTGCCAAGGCTGCCGTGGAGTGGTTTG
ATGGGAAAGATTTCCAAGGGAGCAAGCTTAAGGTGTCTTTTGCTCGGAAGAAGCCTCCGATGAACAGCATGCGGGGTGCT
ATGCCTCCCCGTGAGGGCAGAAGGATGCTGCCGCCGCTCCGTGGAGGTCCCAGGGGCCCAGGATGTCCTGGGGGCCCCAT
GGGTCACATGGGAGGCTGTGGAGGAGACAGAGGTGGCTTTCGCCCAAGAGGGCCCCGGGGTTCTCGAGGGAACCCATCCG
GAGGAGGAAACTTCCTGCACCGAGCTGGAGACTGGCAGTGCCCCAATCCGGGGTGTGGAAACCAGAACTTCGCCTGGAGA
ACAGAATGCAACTGGTGCAAGGCCCCGAAGCCTGAAGGCTTCCTTCCACCACCCTTTCCACCCCTGGGTGGTGACCGTGG
CAGAGGCGGCCCTGGTGGCATGCGGGGCGGAAGAGGCGGCCTCATGGACCGCGGTGGTCCTGGTGGCGTGTTCAGAGGTG
GAAGTGGTGGAGACAGAGGGGGCTTCCATGATGGCCGGGCATAGACCAAGGTGGCTTTGGTGGAGGAAGACGGGGCGGCC
CTGGTGGGCCCCCTGCACCTTTGATGGAACAGATGGGAGGAAGAAGAGGCGGACGCGTAGGACCTGGAAAAATGGAAAAA
GATCAGCACCGTCAGGAACTCAGAGACCAGCCC

ORF - retro_amel_191 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.43 %
Parental protein coverage: 99.54 %
Number of stop codons detected: 3
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalSLDYSTYSQAAAQQGYSAYTAQPTQGYAQTTQQAYGQKSYGTYGQPTDVSYTQAQTTATYGQTAYATSYG
S.DYSTYSQAAAQ.GYSA.T.QPTQGYAQTTQ.AY.Q.SYGTYGQPTDVSYTQAQTTATYGQTAYATSYG
RetrocopySTDYSTYSQAAAQPGYSAHTTQPTQGYAQTTQ-AYAQQSYGTYGQPTDVSYTQAQTTATYGQTAYATSYG
ParentalQPPAGYTTPTAPQAYSQPVQGYGTGAYDTTTATVTTTQVSYAAQSACGTQPVYPAYGQQPAATAPARPQD
QPPAGYTTPTA.QA.SQ.VQGYGTGAYDTTTAT.TTTQ.SYAAQSA.GTQP.Y.AYG..PAATAP.RPQD
RetrocopyQPPAGYTTPTATQA*SQHVQGYGTGAYDTTTATATTTQASYAAQSAYGTQPAYSAYGKEPAATAPERPQD
ParentalGNKPAETSQPQSSTGGYNQPSLGYGQSNYSYPQVPGSYPMQPVTAPPSYPPTSYSSTQPTSYDQSSYSQQ
GNKPAETSQPQSSTGGYNQPSLGYGQSNYSYPQVPGSYPMQ.VTAPPSY.PTSYSSTQ.TSYDQSSYSQQ
RetrocopyGNKPAETSQPQSSTGGYNQPSLGYGQSNYSYPQVPGSYPMQLVTAPPSYSPTSYSSTQTTSYDQSSYSQQ
ParentalNTYGQP-SSYGQQSSYGQQSSYGQQPPTSYPPQTGSYSQAPSQYSQQSSSYGQQSSFRQDHPSSMGVYGQ
NTYGQP..SYGQQSSYGQ.SSYG.QPPTSYPP.TGSYSQAPSQYSQQSSSYGQQSSF.QDHPSSMGVYGQ
RetrocopyNTYGQP<ESYGQQSSYGQKSSYGHQPPTSYPP*TGSYSQAPSQYSQQSSSYGQQSSFQQDHPSSMGVYGQ
ParentalESGGFSGPGENRS-MSGPDNRGRGRGGFDRGGMSRGGRGGGRGGMGSAGERGGFNKPGGPMDEGPDLDLG
.SGGFS.PGENR..MSGPDN.GRG.GGF..GGMSRGG.GGG.GGMG.AGERG.FNKPGGP.DEGPDLDLG
RetrocopyDSGGFSRPGENRA<MSGPDNGGRGSGGFGSGGMSRGGQGGGHGGMG-AGERGVFNKPGGPTDEGPDLDLG
ParentalPPVDPDEDCDNSAIYVQGLNDSVTLDDLADFFKQCGVVRMNKRTGQPMIHIYLDKETGKPKGDATVSYED
..VD.DED.DNSA..VQG.NDS.TLDDLADF.KQCGVV.MNKRTGQPMIHIYLDKETGKPKGDATVSYED
RetrocopyLRVDRDEDSDNSAVHVQG*NDSGTLDDLADFLKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED
ParentalPPTAKAAVEWFDGKDFQGSKLKVSFARKKPPMNSMRGAMPPREGRGMPPPLRGGPGGPGGPGGPMGRMGG
.PTAKAAVEWFDGKDFQGSKLKVSFARKKPPMNSMRGAMPPREGR.M.PPLRGGP.GPG.PGGPMG.MGG
RetrocopyQPTAKAAVEWFDGKDFQGSKLKVSFARKKPPMNSMRGAMPPREGRRMLPPLRGGPRGPGCPGGPMGHMGG
ParentalRGGDRGGFPPRGPRGSRGNPSGGGNVQHRAGDWQCPNPGCGNQNFAWRTECNQCKAPKPEGFLPPPFPPP
.GGDRGGF.PRGPRGSRGNPSGGGN..HRAGDWQCPNPGCGNQNFAWRTECN.CKAPKPEGFLPPPFPP.
RetrocopyCGGDRGGFRPRGPRGSRGNPSGGGNFLHRAGDWQCPNPGCGNQNFAWRTECNWCKAPKPEGFLPPPFPPL
ParentalGGDRGRGGPGGMRGGRGGLMDRGGPGGMFRGGRGGDRGGFRGGR-GMDRGGFGGGRRGGPGGPPGPLMEQ
GGDRGRGGPGGMRGGRGGLMDRGGPGG.FRGG.GGDRGGF..GR.G.D.GGFGGGRRGGPGGPP.PLMEQ
RetrocopyGGDRGRGGPGGMRGGRGGLMDRGGPGGVFRGGSGGDRGGFHDGR<GIDQGGFGGGRRGGPGGPPAPLMEQ
ParentalMGGRRGGRGGPGKMDKGEHRQERRDRP
MGGRRGGR.GPGKM.K..HRQE.RD.P
RetrocopyMGGRRGGRVGPGKMEKDQHRQELRDQP

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_191 retrocopy.

TSS - click to see more details

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab - click to see more details

retro_amel_191 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 14 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000008298 2 retrocopies
retro_amel_191 , retro_amel_959,
Canis familiaris ENSCAFG000000121608 retrocopies
retro_cfam_1142, retro_cfam_1183, retro_cfam_1225, retro_cfam_133, retro_cfam_1397, retro_cfam_1736, retro_cfam_1889, retro_cfam_560,
Callithrix jacchus ENSCJAG000000199874 retrocopies
retro_cjac_1716, retro_cjac_2022, retro_cjac_2813, retro_cjac_2911,
Homo sapiens ENSG000001829441 retrocopy
retro_hsap_463,
Gorilla gorilla ENSGGOG000000122121 retrocopy
retro_ggor_444,
Macropus eugenii ENSMEUG000000087031 retrocopy
retro_meug_1424,
Myotis lucifugus ENSMLUG000000120581 retrocopy
retro_mluc_328,
Monodelphis domestica ENSMODG000000086791 retrocopy
retro_mdom_279,
Mus musculus ENSMUSG000000090791 retrocopy
retro_mmus_1379,
Oryctolagus cuniculus ENSOCUG000000044322 retrocopies
retro_ocun_1346, retro_ocun_242,
Pongo abelii ENSPPYG000000116841 retrocopy
retro_pabe_1769,
Pan troglodytes ENSPTRG000000142181 retrocopy
retro_ptro_350,
Ictidomys tridecemlineatus ENSSTOG000000231771 retrocopy
retro_itri_1892,
Tursiops truncatus ENSTTRG000000118811 retrocopy
retro_ttru_1366,


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