RetrogeneDB ID:

retro_cfam_190

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:20:51938581..51939676(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCAFG00000018144
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCAFG00000008221
Aliases:None
Description:Fructose-bisphosphate aldolase [Source:UniProtKB/TrEMBL;Acc:F1PBT3]


Retrocopy-Parental alignment summary:






>retro_cfam_190
ATGCCCTACCAATACCCAGCGCTGACCCCGGAGCAGAAGAAGGAGCTTTCTGACATCGCTCACCGCATCGTGGCCCCGGG
CAAGGGCATCCTGGCTGCAGATGAGTCCACCGGGAGCATCGCCAGGCGGCTGCAGCCCATTGGCACCGAGAACACCGAGG
AGAACCGGCGCGTCTACCGCCAGCTGCTGCTGACCGCCGACGACCGCGTCAACCCCTGCATTGGGGGGGTCATCCTCTTC
CACGAGACACTGTACCAGAAGACCGACGACGGGCGTCCCTTCCCCCAAGTCATCAAATCCAAGGGTGGCATTGTAGGCAT
CAAGGTGGACAAAGGTGTGGGAGCCCTGGCAGGAACAAATGGGGAGACCACCACCCAAGGGCTGGATGGGCTGTCCGAGC
GCTGTGCCCAGTACAAGAAGGACGGGGCCGACTTTGCCAAGTGGCGCTGTGTGCTGAAAATTGGGCAACACACCCCCTCA
GCCCTTGCCATCATGGAGAATGCCAACGTCCTGGCCCGTTACGCCAGCATCTGCCAGCAGAATGGCATCGTGCCCATGGT
GGAGCCTGAGATCCTCCCCGATGGGGACCACGACTTGAAGCGCTGTCAGTATGTAACCGAGAAGGTGCTGGCTGCTGTCT
ACAAGGCCCTGAGTGACCACCACATCTACCTGGAGGGCACTTTGCTGATGCCCAACATGGTAACCCCAGGCCACGCCTGC
ACCCATAAATATTCTCCTGAGGAGATTGCCATGGCAACTGTCACAGCACTGCGCCGCACAGTGCCCCCCGCTGTTACGGG
GATCACCTTCCTATCAGGCAGCCAGAGTGAGGAGGAGGCATCCATCAACCTCAATGCCATCAACAAGTGCCCCCTGCTGA
AGCCATGGGCCCTGACCTTCTCCTATGGCCGAGCCCTACAGGCTTCTGCCCTCAAGGCCTGGGGTGGAAAGAAGGAGAAC
CTGAAGGCCGCCCAGGAGGAGTATATCAAGCGAGCCCTGGCCAACAGCCTCGCCTGTCAAGGAAAGTACACCCCAAGTGG
GCAGGCCGGGGCTGCAGCCAGGGAGTCCCTCTTCATCTCTAACCACGCCTACTAA

ORF - retro_cfam_190 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.7 %
Parental protein coverage: 51.93 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMPYQYPALTPEQKKELSDIAHRIVAPGKGILAADESTGSIAKRLQSIGTENTEENRRFYRQLLLTADDRV
MPYQYPALTPEQKKELSDIAHRIVAPGKGILAADESTGSIA.RLQ.IGTENTEENRR.YRQLLLTADDRV
RetrocopyMPYQYPALTPEQKKELSDIAHRIVAPGKGILAADESTGSIARRLQPIGTENTEENRRVYRQLLLTADDRV
ParentalNPCIGGVILFHETLYQKTDDGRPFPQVIKSKGGVVGIKVDKGVVPLAGTNGETTTQGLDGLSERCAQYKK
NPCIGGVILFHETLYQKTDDGRPFPQVIKSKGG.VGIKVDKGV..LAGTNGETTTQGLDGLSERCAQYKK
RetrocopyNPCIGGVILFHETLYQKTDDGRPFPQVIKSKGGIVGIKVDKGVGALAGTNGETTTQGLDGLSERCAQYKK
ParentalDGADFAKWRCVLKIGEHTPSALAIMENANVLARYASICQQNGIVPIVEPEILPDGDHDLKRCQYVTEKVL
DGADFAKWRCVLKIG.HTPSALAIMENANVLARYASICQQNGIVP.VEPEILPDGDHDLKRCQYVTEKVL
RetrocopyDGADFAKWRCVLKIGQHTPSALAIMENANVLARYASICQQNGIVPMVEPEILPDGDHDLKRCQYVTEKVL
ParentalAAVYKALSDHHIYLEGTLLKPNMVTPGHACTHKYSHEEIAMATVTALRRTVPPAVTGITFLSGGQSEEEA
AAVYKALSDHHIYLEGTLL.PNMVTPGHACTHKYS.EEIAMATVTALRRTVPPAVTGITFLSG.QSEEEA
RetrocopyAAVYKALSDHHIYLEGTLLMPNMVTPGHACTHKYSPEEIAMATVTALRRTVPPAVTGITFLSGSQSEEEA
ParentalSINLNAINKCPLLKPWALTFSYGRALQASALKAWGGKKENLKAAQEEYIKRALANSLACQGKYTPSGQAG
SINLNAINKCPLLKPWALTFSYGRALQASALKAWGGKKENLKAAQEEYIKRALANSLACQGKYTPSGQAG
RetrocopySINLNAINKCPLLKPWALTFSYGRALQASALKAWGGKKENLKAAQEEYIKRALANSLACQGKYTPSGQAG
ParentalAAASESLFISNHAY
AAA.ESLFISNHAY
RetrocopyAAARESLFISNHAY

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
SRP012049_cerebellum 0 .04 RPM 445 .94 RPM
SRP017611_brain 0 .32 RPM 782 .73 RPM
SRP017611_kidney 0 .07 RPM 639 .97 RPM
SRP017611_liver 0 .00 RPM 74 .04 RPM

ChIP-Seq - click to see more details

Canis familiaris was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_cfam_190 retrocopy.

TSS - click to see more details

Canis familiaris was not studied using FANTOM5 data.

Lab - click to see more details

retro_cfam_190 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_190 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 16 parental genes, and 30 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG00000008221 2 retrocopies
retro_cfam_190 , retro_cfam_631,
Callithrix jacchus ENSCJAG000000068741 retrocopy
retro_cjac_1803,
Cavia porcellus ENSCPOG000000074341 retrocopy
retro_cpor_951,
Echinops telfairi ENSETEG000000192301 retrocopy
retro_etel_20,
Homo sapiens ENSG000001499251 retrocopy
retro_hsap_740,
Gorilla gorilla ENSGGOG000000139791 retrocopy
retro_ggor_621,
Myotis lucifugus ENSMLUG000000112103 retrocopies
retro_mluc_1172, retro_mluc_2634, retro_mluc_808,
Macaca mulatta ENSMMUG000000009831 retrocopy
retro_mmul_2596,
Monodelphis domestica ENSMODG000000156964 retrocopies
retro_mdom_1236, retro_mdom_1356, retro_mdom_528, retro_mdom_96,
Mus musculus ENSMUSG000000306953 retrocopies
retro_mmus_2160, retro_mmus_42, retro_mmus_90,
Nomascus leucogenys ENSNLEG000000021521 retrocopy
retro_nleu_133,
Oryctolagus cuniculus ENSOCUG000000063291 retrocopy
retro_ocun_1550,
Ochotona princeps ENSOPRG000000097601 retrocopy
retro_opri_914,
Pongo abelii ENSPPYG000000072441 retrocopy
retro_pabe_636,
Pan troglodytes ENSPTRG000000079831 retrocopy
retro_ptro_526,
Rattus norvegicus ENSRNOG000000236477 retrocopies
retro_rnor_1343, retro_rnor_1541, retro_rnor_1796, retro_rnor_1807, retro_rnor_226, retro_rnor_2791, retro_rnor_536,


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