RetrogeneDB ID:

retro_ecab_927

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:7:34358463..34360795(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ZC3H7A
Ensembl ID:ENSECAG00000003869
Aliases:None
Description:zinc finger CCCH-type containing 7A [Source:HGNC Symbol;Acc:30959]


Retrocopy-Parental alignment summary:






>retro_ecab_927
GCTTTGAACTGTTCTGTGGAAGATATTGAGCCAGATTTATTAACTCCAAGGCAAGAAGCAGTTCCCATTGTTTCTATACC
CGCATCCAGTTTTTCTCACCAAGTTGAAAGAGAGCTGGCCTCAGTTCCTATTAAGCTCTTCAGTTCTATTTTGCCACTGC
AAGTGGAAGAGAGCTCTCTGCCATCTACAGTGTTGGCAAACGGAAGAAAAATTCCCTTCACTATGCCGGAAGCTTTTTTA
AATGATGGAGATATGGTCCTTGGAGATGAAATAGACGACCTCCTTGATTCTTCACCTGAAACTAATGAAGCTGTTATGCC
ATCAGCTTTAGTCAGAGGACCCCTTCCGACAGCCACTGTCAGCCCTAGCATACCCTTTTCGGTGTCTTTGTTGGGCACCT
TGCCCATTGGTGCGAGGTATGCCCCACCACCCTCCGTCTCAGCGCTGTATCCACCTCTGACTTCATCCTTAGAAGATTTC
TGTTCTTCTTTAAATTCATTTTCAATGAGTGAATCCAAACAAGATCTGTCCACCTCAACTTCTAGAAAGGGAACATCGCT
TAACAGCAGTAATTCTTCCCTTTGACTTATGAATGGACCAGGCAGTCTGTTTGCTCCTGAGAGTTTCTTGGGGATTTCAA
GTCACCCTAGAAATGACTTTGGAAACTTTTTTGGAAGTGCAGTTACTAAACCACCTTCATCAGTGACCCCCAGACACCCC
CTTGAAGGAACCCACGAACTGAGACAAGCTTGCCAAATCTGTTCTGTAAAATCAGGCCCTAAGCTAATGGATTTCACTTA
CCATGCTAATATAGATTATAAATGTAAGAAGGATATTTTAATTGGTAGAATAAAGAATGTTGAAGATAAATCACGGAAAA
AAAATATGTCCATGACCAACAAAAACAAATTATGAAGGACCTTATTATATATACACAGATGTGGCTGCTGAGGAGGAATG
TAGGTATTCAGGCCACTGCACATTTGCTTACTGCCAAGAAGAGATAGATGTCTGGACACTGGAGCAGAAAGGGGCCTTCA
GTCGAGAGGCCTTCTTTGGTGGCAATGGAAAGGTCAACCCTTACCATGTTCAAACTTCTCCAAAGAGCATCTGGGAGAAT
TTATATTCCTTTGTGAGAAATGTTTTGATCATAAGCCTAGAATGATAAGTAAAAGAAATAAACGTAATTCTACTTCTTGT
CCTCACCCAGATACAAAGCATGAGTTTGAAGACAATAAGTGCCTTGTCCACATTTTCCGAGAGACAACAGTAAAATACTC
CAAAATATGGTCTTTTCATGGTCAATGTCAGCTTGATTTATGTCGCCATGAGGTTTGATATGGCTGTTTAAGGGAAGATG
AGTGCTTTTATGTGCATAGTCTTGTAGAGTTGAAAGTCTGGATATTGCAGAATGAAACAGGTATCTCACATGATGCTATT
ACTCGAGAATCTAAACAGTATTGTCAGAATTGGAAGCAAATGTTCCTGGAGCTCAGGTACTTGACAATCAAATAATGCCT
GGATGTCTTAATATGAACACAAAATTTTTGTGTTCTCAGTGTCTGAGAAATGGTCAAGTCATCAAGCCAGACAAAAACAG
AAAACATTGCAGTGCAAAAGCAAGACATTTGTGGACCAAAGATCCTCATGCGATGAGAGTGATGTCTATTGAACGTAAGA
AGTAGATGAACATCCATCCTCTCCCCACAAAGAAACAAATGCCTTTACAGTTTGATCTGTGCAATCATATTGCTTCTGGG
AAAAAATGTCAATATGTTGAAAACTGTTCCTTTGCTCATAGTCCTGAGGAGTGAGAAGGGTTGACTTACATGAAAGGCAA
TGGGACACAAGATATGGAGCAGTTTTATGAACTCTGGCTAAAGAGTCAAAAAAAGATAAAGAGGTGATGATGTAGCCAGT
CAGTCAAATAAGGAAAACGGAAAACAGATTCACATGTCGACAGATTATGCCGAGGTCACCGTGGACTTTCACTGCTGGAT
GTGCGGGAAGAACTGTAATAGTGAGAAGCAGTGGCAAGGCCACATCTCCTCGGAGAAGCACGAAGAGAAGGTGTTCCACA
CGGAAGACGACCAGTACTGCTGGCAGCACTGCTTTCCAACAGGGTATTTTAGTATTTGTGATAGGTATATGAATGGTACC
TGCATGGAAGGAAGCAGCTGTAAATTTGCACATGGAAATGCTGAACATCATGAATGGGAAGAAAGAAGAGATACCCTAAA
GATGAAGCTCAACAAAGCAAGAAAAGATCACTTAGTTGCCCCAAATGATAATGACTTTGGAAAATATAGTTTTTTTGTTT
AAAGATTTAAAC

ORF - retro_ecab_927 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.62 %
Parental protein coverage: 79.92 %
Number of stop codons detected: 4
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalALNCSVEDIEPDLLTPRQEAVPVVSIPASSFSHQVGSELASVPIMSLSSILPLQVDESSLPSTVLANGGK
ALNCSVEDIEPDLLTPRQEAVP.VSIPASSFSHQV..ELASVPI...SSILPLQV.ESSLPSTVLANG.K
RetrocopyALNCSVEDIEPDLLTPRQEAVPIVSIPASSFSHQVERELASVPIKLFSSILPLQVEESSLPSTVLANGRK
ParentalIPFTMPEAFLDDGDMVLGDEIDDLLDSAPETNEAVMPSALVRGPLPTASVAPSIPFSASLLGTLPIGARY
IPFTMPEAFL.DGDMVLGDEIDDLLDS.PETNEAVMPSALVRGPLPTA.V.PSIPFS.SLLGTLPIGARY
RetrocopyIPFTMPEAFLNDGDMVLGDEIDDLLDSSPETNEAVMPSALVRGPLPTATVSPSIPFSVSLLGTLPIGARY
ParentalAPPPSFSELYPPLTSSLEDFCSSLNSFSMSESKRDLSTSTSREGTSLNSSNSALLLMNGPGSLFAPESFL
APPPS.S.LYPPLTSSLEDFCSSLNSFSMSESK.DLSTSTSR.GTSLNSSNS.L.LMNGPGSLFAPESFL
RetrocopyAPPPSVSALYPPLTSSLEDFCSSLNSFSMSESKQDLSTSTSRKGTSLNSSNSSL*LMNGPGSLFAPESFL
ParentalGISSHPRNDFGNFFGSAVSKPPSSVTPRHPLEATHELRQACQICFVKSGPKLMDFTYHANLDHKCKKDIL
GISSHPRNDFGNFFGSAV.KPPSSVTPRHPLE.THELRQACQIC.VKSGPKLMDFTYHAN.D.KCKKDIL
RetrocopyGISSHPRNDFGNFFGSAVTKPPSSVTPRHPLEGTHELRQACQICSVKSGPKLMDFTYHANIDYKCKKDIL
ParentalIGRIKNVEDKSWKKIRPRPTK-TNYEGPYYICKDVAAEEECRYSGHCTFAYCQEEIDVWTLERKGAFSRE
IGRIKNVEDKS.........K.TNYEGPYYI..DVAAEEECRYSGHCTFAYCQEEIDVWTLE.KGAFSRE
RetrocopyIGRIKNVEDKSRXXXMSMTNK>TNYEGPYYIYTDVAAEEECRYSGHCTFAYCQEEIDVWTLEQKGAFSRE
ParentalAFFGGNGKVH-LTVFKLLQ-DHLGEFMFLCEKCFDHKPRMISKRNKDNSTSCSHPVTKHEFEDNKCLVHI
AFFGGNGKV..LT.FKLLQ..HLGEF.FLCEKCFDHKPRMISKRNK.NSTSC.HP.TKHEFEDNKCLVHI
RetrocopyAFFGGNGKVN>LTMFKLLQ>EHLGEFIFLCEKCFDHKPRMISKRNKRNSTSCPHPDTKHEFEDNKCLVHI
ParentalLRETTVKYSKIRSFHGQCQLDLCRHEVRYGCLREDECFYAHSLVELKVWILQNETGISHDAIAQESKRYW
.RETTVKYSKI.SFHGQCQLDLCRHEV.YGCLREDECFY.HSLVELKVWILQNETGISHDAI..ESK.Y.
RetrocopyFRETTVKYSKIWSFHGQCQLDLCRHEV*YGCLREDECFYVHSLVELKVWILQNETGISHDAITRESKQYC
ParentalQN-LEGNAPGAQVLGSQIMPGSLNMKIKFVCAQCLRNGQVIEPDKNRKYCSAKARHSWTKDRRAMRVMSI
QN.LE.N.PGAQVL..QIMPG.LNM..KF.C.QCLRNGQVI.PDKNRK.CSAKARH.WTKD..AMRVMSI
RetrocopyQN<LEANVPGAQVLDNQIMPGCLNMNTKFLCSQCLRNGQVIKPDKNRKHCSAKARHLWTKDPHAMRVMSI
ParentalERKKWMNIRPLPTKKQMPLQFDLCNHIASGKKCQYVGNCSFAHSPEEREVWTYMKENGIQDMEQFYELWL
ERKK.MNI.PLPTKKQMPLQFDLCNHIASGKKCQYV.NCSFAHSPEE.E..TYMK.NG.QDMEQFYELWL
RetrocopyERKK*MNIHPLPTKKQMPLQFDLCNHIASGKKCQYVENCSFAHSPEE*EGLTYMKGNGTQDMEQFYELWL
ParentalKSQKNEK-SDDVASQSNKENGKQIHMPTDYAEVTVDFHCWMCGKNCNSEKQWQGHISSEKHKEKVFHTED
KSQK..K..DDVASQSNKENGKQIHM.TDYAEVTVDFHCWMCGKNCNSEKQWQGHISSEKH.EKVFHTED
RetrocopyKSQKKIK>GDDVASQSNKENGKQIHMSTDYAEVTVDFHCWMCGKNCNSEKQWQGHISSEKHEEKVFHTED
ParentalDQYCWQHRFPTGYFSICDRYMNGTCTEGSSCKFAHGNAELHEWEERRDALKMKLNKARKDHLIAPNDNDF
DQYCWQH.FPTGYFSICDRYMNGTC.EGSSCKFAHGNAE.HEWEERRD.LKMKLNKARKDHL.APNDNDF
RetrocopyDQYCWQHCFPTGYFSICDRYMNGTCMEGSSCKFAHGNAEHHEWEERRDTLKMKLNKARKDHLVAPNDNDF
ParentalGKYS-FLFKDLN
GKYS.FLFKDLN
RetrocopyGKYS>FLFKDLN

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
SRP021940_articular_cartilage 0 .00 RPM 15 .11 RPM
SRP021940_cerebellum 0 .10 RPM 23 .94 RPM
SRP021940_embryo 0 .05 RPM 46 .44 RPM
SRP021940_placental_villous 0 .10 RPM 33 .24 RPM
SRP021940_synovial_membrane 0 .00 RPM 28 .33 RPM
SRP021940_testis 0 .00 RPM 10 .74 RPM

ChIP-Seq - click to see more details

Equus caballus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ecab_927 retrocopy.

TSS - click to see more details

Equus caballus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ecab_927 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_927 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000003869 1 retrocopy
retro_ecab_927 ,


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