RetrogeneDB ID:

retro_cfam_367

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:10:61091526..61092380(+)
Located in intron of:ENSCAFG00000002986
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ANXA2
Ensembl ID:ENSCAFG00000016686
Aliases:None
Description:Canis lupus familiaris annexin A2 (ANXA2), mRNA. [Source:RefSeq mRNA;Acc:NM_001002961]


Retrocopy-Parental alignment summary:






>retro_cfam_367
ACTGTTCATGAAATTCTCTGCAAGCTCAGCTTGGAGGGTGATCATTCCATGCCCCCAAATGCATACAGGTGGATGAAAGC
ATACACCAATTTTGATGCTGAGCATGATGCTCTGGCACTGAAAAGGCCATCAGGACCAAAGATGTGGATGGGGTCACCAT
TGTCAACATTTTGAGCACCCACAGCAATGAAGAGAGACAGGATACTGCCTTTACTTACCAAAGAAGGATCAAAAAGGAAC
TTGCATCAGCCCTGAAGTCAGCCTTGTCCAGCCACCTGAGGACTGTGATTTGGGGCCTATTGAAAACACCTGCTCACTAT
GATGCTTCAGAGTTGAAAACCTCCATGAAAGGGCTGGGGACTGATGAGGACTCACTCTTTGAGATCATGTGCTCAAGGAC
CAACCAAAATCTTCAGGAAATTAACAGAGTCCTCAAGGAAATGTACAAGACTTATCTGTAGGACATGATTTCTAACACAT
CTAGTGACTTCCACAAGCTGATGGTTGCCCTTGCTAATGGTAGAAGAGCAGAGGATGACTCTGGCATTGATTATGAACTG
ACTGACCAAGACTCCTGGGATCTCTATAATACTGGAGCGAAGAGGAAAGGAACTGATGTGCCCAAGTGGATCAGCATCAC
AACTGTGCCGAGTGTGTGTCACCTCCAGAAAGTAGTTAAAAGGTACAAGAGCTACAGCCCTTATGACACATTGAAGAGTA
TCAAGAAGGAGGTCAAAGGAGCCCTGGAAAATGCTTTCCTCAACCAGTTCCAGTACATTCAGAACAAGGTGCTCTATTTT
GCTGACTGACTATATGACTCCAAGAAAGATAAGGGGACTCTCTATAAAATCCTA

ORF - retro_cfam_367 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.05 %
Parental protein coverage: 84.37 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalTVHEILCKLSLEGDHSTPPSAYGSVKAYTNFDAERDALNI-ETAIKTKGVDEVTIVNILTNRSNEQRQDI
TVHEILCKLSLEGDHS.PP.AY...KAYTNFDAE.DAL...E.AI.TK.VD.VTIVNIL...SNE.RQD.
RetrocopyTVHEILCKLSLEGDHSMPPNAYRWMKAYTNFDAEHDALAL<EKAIRTKDVDGVTIVNILSTHSNEERQDT
ParentalAFAYQRRTKKELASALKSALSGHLETVILGLLKTPAQYDASELKASMKGLGTDEDSLIEIICSRTNQELQ
AF.YQRR.KKELASALKSALS.HL.TVI.GLLKTPA.YDASELK.SMKGLGTDEDSL.EI.CSRTNQ.LQ
RetrocopyAFTYQRRIKKELASALKSALSSHLRTVIWGLLKTPAHYDASELKTSMKGLGTDEDSLFEIMCSRTNQNLQ
ParentalEINRVYKEMYKTDLEKDIISDTSGDFRKLMVALAKGRRAEDGSVIDYELIDQDARDLYDAGVKRKGTDVP
EINRV.KEMYKT.L..D.IS.TS.DF.KLMVALA.GRRAED.S.IDYEL.DQD..DLY..G.KRKGTDVP
RetrocopyEINRVLKEMYKTYL*-DMISNTSSDFHKLMVALANGRRAEDDSGIDYELTDQDSWDLYNTGAKRKGTDVP
ParentalKWISIMTERSVCHLQKVFERYKSYSPYDMLESIKKEVKGDLENAFLNLVQCIQNKPLYFADRLYDSMKGK
KWISI.T..SVCHLQKV..RYKSYSPYD.L.SIKKEVKG.LENAFLN..Q.IQNK.LYFAD.LYDS.K.K
RetrocopyKWISITTVPSVCHLQKVVKRYKSYSPYDTLKSIKKEVKGALENAFLNQFQYIQNKVLYFAD*LYDSKKDK
ParentalGTRDKVL
GT..K.L
RetrocopyGTLYKIL

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 .00 RPM 20 .12 RPM
SRP017611_brain 0 .00 RPM 18 .02 RPM
SRP017611_kidney 0 .00 RPM 99 .39 RPM
SRP017611_liver 0 .00 RPM 9 .86 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_367 retrocopy.

TSS - click to see more details

Canis familiaris was not studied using FANTOM5 data.

Lab - click to see more details

retro_cfam_367 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_367 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 22 parental genes, and 42 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000080552 retrocopies
retro_amel_1531, retro_amel_1836,
Bos taurus ENSBTAG000000096152 retrocopies
retro_btau_634, retro_btau_985,
Canis familiaris ENSCAFG000000147491 retrocopy
retro_cfam_1107,
Canis familiaris ENSCAFG00000016686 3 retrocopies
retro_cfam_1631, retro_cfam_367 , retro_cfam_707,
Choloepus hoffmanni ENSCHOG000000121433 retrocopies
retro_chof_1028, retro_chof_1965, retro_chof_815,
Equus caballus ENSECAG000000126701 retrocopy
retro_ecab_759,
Felis catus ENSFCAG000000078622 retrocopies
retro_fcat_594, retro_fcat_709,
Homo sapiens ENSG000001827183 retrocopies
retro_hsap_3114, retro_hsap_4150, retro_hsap_580,
Gorilla gorilla ENSGGOG000000097383 retrocopies
retro_ggor_2137, retro_ggor_2788, retro_ggor_515,
Macropus eugenii ENSMEUG000000089803 retrocopies
retro_meug_1000, retro_meug_312, retro_meug_389,
Myotis lucifugus ENSMLUG000000024643 retrocopies
retro_mluc_1569, retro_mluc_2223, retro_mluc_2431,
Monodelphis domestica ENSMODG000000116041 retrocopy
retro_mdom_1471,
Mustela putorius furoENSMPUG000000007622 retrocopies
retro_mputfur_73, retro_mputfur_79,
Nomascus leucogenys ENSNLEG000000116782 retrocopies
retro_nleu_769, retro_nleu_802,
Otolemur garnettii ENSOGAG000000099521 retrocopy
retro_ogar_3510,
Pongo abelii ENSPPYG000000065262 retrocopies
retro_pabe_2572, retro_pabe_607,
Pan troglodytes ENSPTRG000000071322 retrocopies
retro_ptro_2106, retro_ptro_81,
Pteropus vampyrus ENSPVAG000000114011 retrocopy
retro_pvam_389,
Tupaia belangeri ENSTBEG000000012761 retrocopy
retro_tbel_3335,
Tarsius syrichta ENSTSYG000000037191 retrocopy
retro_tsyr_2086,
Tursiops truncatus ENSTTRG000000077051 retrocopy
retro_ttru_1725,
Vicugna pacos ENSVPAG000000078882 retrocopies
retro_vpac_241, retro_vpac_27,




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