RetrogeneDB ID:

retro_ecab_345

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:15:16899445..16902387(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:IPO7
Ensembl ID:ENSECAG00000015965
Aliases:None
Description:importin 7 [Source:HGNC Symbol;Acc:9852]


Retrocopy-Parental alignment summary:






>retro_ecab_345
GGTGTTATCTGTTTGAAAAATATGATAACACAGTATTGACCTGATCGGGAAACAGCACCAGGGGATATATCCGCTTATAC
TATTCCCGAAGAAGATCGACATTGTATTCGAGAAAATATTGTAGAAGCCATTATCTACTCTCCTGAACTTATCAGGGTAC
AACTTACTACTTGCATTCATCATATCATCAAACATGATTATCCAAGCCGCTGGGCTGCCATTGTGGACAAAATTGACTTT
TATCTTCAGTCTGATAACAGTGCTTGTTGGCTAGGAATTCTTCTTTGCCTTTACCAGCTTGTGAAAAATTATGAGTACAA
GAAACCAGAAGAATGGAATCCATTGGTGCAGCAATGCAGCATTTCCTGCCAATTCTAAAGGACCATTCTATCCAGCTTCT
TTCTGATCAGTCTGATCAATCTGTCCTCATTCAGAAAAAAATTTTCAAGATCTTCTTTGCTCTTGTTCAGTATACACTAC
CACTGGAGCTGATAAACCAACAGAACCTGACAGAATGGATAGAAATTTTAAAAACTGTTGTGAACAGGGATGTACCTAAT
GAAACACTTCAAGTTGAAGAAGATGATAGACCTGAGTTACTGTGGTGGAAATGTAAGAAGTGGGATTTACATATCTTAGC
AAGGCTTTTTGAAGGCTATGGAATCCCTGGCAATGTATGCAAGGAGTATAATGAATTTGCCGAAGTATTTCTGAAGGCGT
TTGCTGTTGGTGTCCAGCAAGTTTTATTGAAGGTGTTGTATCAGTACAAGGAAAAGCATATATGGCTCCTCGAGTTTTAC
AGCAGACATTAAATTATATTAATCAAGGAGTTTCTCATGCCCTCACCTGGAAGAATCTGAAGCCTCATATACAAGGCATT
ATCCAAGATGTTATTTTTCCATTGATGTGCTAGACAGATGCTGATGAGGAACTTGGGAGGAAGACCCTTATGAATATATA
CGCATGAAGTTTGATGTGTTTGAAGATTTCATTTCTCCTACCACTGCTGCCCAGACACTTTTGTTTACAGCCTGTAGTAA
GAGAAAAGAGGTGCTACAAAAGACTATGGGATTCTGCTACCAGATTCTTACTGAACCAAATGCCGATCCTCGAAAAAAAG
AAGGAGCCCTGCATATGGTTGGCTCTTTAGCTGAAATACTTTTGAAGAAAAAGATCTACAAAGATCAGATGGAATACATG
TTGCAGAATCATGTATTCCTTCTCTTCAGCAGTGAACTAGGCTACATGAGAGCAAGGGCTTGCTTGGTCCTTCATTATTT
TTGTGAAGTGAAGTTCAAAAGTGTCCAGAACCTGCAAACAGCTTTAGAGCTGACACGAAGATGTCTGATTGATGATAGGG
AAATGCCTGTGAAAGTGGAAGCTGCCATTGCACTTCAAGTGTTGATCAGCAATCAAGAAAAAGCTGAAGAATATATCACA
CCGTTCATCAGACCTGTAATGCAGGCTCTTCTTCATATTATAAGAGAAACAGAAAATGATGATCTTACCAATGTCATTCA
GAAAATGATCTGCGAGTATAGTGAAGAAGTTACTCCTATTGCAGTAGAAATGACCCAACATTTGGCAATGACATTTAATC
AAGTAATCCAGACTGGGCCAGATGAAGAAGGAAGTGATGACAAAGCAGTTACTGTTATGGGAATCCTGAATACCATCGAC
ACACTTCTTAGTGTAGTTGAAGATCATAAAGAGATAACCCAGCAGCTTGAGGCAATCTGCTTACAGGTCATTGGAACTGT
TTTACAACAGCGTGTCTTAGAATTCTATGAGGAGATCTCTTTAGCACATAGTTTGACATGTCAGCAGGTGTCTCTGCAGA
TATGGCAGCTAGTACCTCTGGTATTTGAAGTTTTTCAGCAAGATTGCTTTGATTACGTCACAGATATGATGCCTCTGCTC
CATAATTATGTAACAGTTGATACAGACACACTTCTGTCTGATACCAACTATCTTGAAATGATATACAGTATGTGCAAAAA
AGGTTCTTACAGGAGTTGCAGGAGAAGATGCAGAGTGCCATGCAGCAAAATTGTTAGAGGTCATCATTCTACAGTGCAAA
GGGCATGGCATTGATCAGTGAATTCCCTTATTTGTGGAAGCAGCTTTAGAGAGACTGACAAGAGAAGTGAAGACAAGTGA
ACTTCGAACAATGTGCCTGCAAGTTGCCATTGCAGCTTTGTATTATAATCCACACCTGCTTCTCAATACCTTAGAAAATC
TTCGCTTCCCTAATAATGTTGAACCAGTTACAAATCATTTTATCACACAGTGGCTTAATGATGTTGATTGTTTCTTGGGG
CTTCATGACAGAAAGATGTGTGTTCTGGGCCTGTGTGCTTTTATTGATATGGAACAAATACCACAAGTTTTAAATCAGGT
TTCTGGACAGATTTTTGCCAGCTTTTATCCTTTTATTTAATGGATTAAAAAGAGCTTATGCCTGCCATGCAGAACACGAG
AATGACAGTGACGACGATGATGAAGCTGAAGATGATGATGAAACGGAGGAACTGGGGAGTGATGAAGATGACATTGATGA
AGATGGGCGGGAATATTTGGAGATGCTGGCTAAACAAGCAGGTGAAGATGGAGATGATGAAGACTGGGAAGAAGATGATG
CTGAGGAGACTGCTCTGGAAGGCTATTCTACAATCATTGATGACGAAGATAATCCTGTTGATGAGTATCAGATATTTAAA
GCTATATTTCAAACTATACAAAGTCGTAATCCTGTGTGGTATCAGGCTCTGACTCATGGTCTTAATGAAGAACAAAGAAA
ACAGTTACAGGATATAGCAACTCTGGCTGATCAAAGAGCAGCCCGTGAATCCAAAATGATAGAAAAGCGTGGAGGATACA
AATTCAGTGCTCCAGTTGTGCCAAATTCTTTCAATTTTGGAGGCCCAGCACCAGGGATGAAT

ORF - retro_ecab_345 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.94 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalGVIYLKNMITQYWPDRETAPGDISPYTIPEEDRHCIRENIVEAIIHSPELIRVQLTTCIHHIIKHDYPSR
GVI.LKNMITQY.PDRETAPGDIS.YTIPEEDRHCIRENIVEAII.SPELIRVQLTTCIHHIIKHDYPSR
RetrocopyGVICLKNMITQY*PDRETAPGDISAYTIPEEDRHCIRENIVEAIIYSPELIRVQLTTCIHHIIKHDYPSR
ParentalWTAIVDKIGFYLQSDNSACWLGILLCLYQLVKNYEYKKPEERNPLV-AAMQHFLPVLKDRFIQLLSDQSD
W.AIVDKI.FYLQSDNSACWLGILLCLYQLVKNYEYKKPEE.NPLV.AAMQHFLP.LKD..IQLLSDQSD
RetrocopyWAAIVDKIDFYLQSDNSACWLGILLCLYQLVKNYEYKKPEEWNPLV<AAMQHFLPILKDHSIQLLSDQSD
ParentalQSVLIQKQIFKIFYALVQYTLPLELINQQNLTEWIEILKTVVNRDVPNETLQVEEDDRPELPWWKCKKWA
QSVLIQK.IFKIF.ALVQYTLPLELINQQNLTEWIEILKTVVNRDVPNETLQVEEDDRPEL.WWKCKKW.
RetrocopyQSVLIQKKIFKIFFALVQYTLPLELINQQNLTEWIEILKTVVNRDVPNETLQVEEDDRPELLWWKCKKWD
ParentalLHILARLFERYGSPGNVSKEYNEFAEVFLKAFAVGVQQVLLKVLYQYKEKQ-YMAPRVLQQTLNYINQGV
LHILARLFE.YG.PGNV.KEYNEFAEVFLKAFAVGVQQVLLKVLYQYKEK..YMAPRVLQQTLNYINQGV
RetrocopyLHILARLFEGYGIPGNVCKEYNEFAEVFLKAFAVGVQQVLLKVLYQYKEKH<YMAPRVLQQTLNYINQGV
ParentalSHALTWKNLKPHIQGIIQDVIFPLMCYTDADEEL-WQEDPYEYIRMKFDVFEDFISPTTAAQTLLFTACS
SHALTWKNLKPHIQGIIQDVIFPLMC.TDADEEL.W.EDPYEYIRMKFDVFEDFISPTTAAQTLLFTACS
RetrocopySHALTWKNLKPHIQGIIQDVIFPLMC*TDADEEL<WEEDPYEYIRMKFDVFEDFISPTTAAQTLLFTACS
ParentalKRKEVLQKTMGFCYQILTEPNADPRKKDGALHMIGSLAEILLKKKIYKDQMEYMLQNHVFPLFSSELGYM
KRKEVLQKTMGFCYQILTEPNADPRKK.GALHM.GSLAEILLKKKIYKDQMEYMLQNHVF.LFSSELGYM
RetrocopyKRKEVLQKTMGFCYQILTEPNADPRKKEGALHMVGSLAEILLKKKIYKDQMEYMLQNHVFLLFSSELGYM
ParentalRARACWVLHYFCEVKFKSDQNLQTALELTRRCLIDDREMPVKVEAAIALQVLISNQEKAKEYITPFIRPV
RARAC.VLHYFCEVKFKS.QNLQTALELTRRCLIDDREMPVKVEAAIALQVLISNQEKA.EYITPFIRPV
RetrocopyRARACLVLHYFCEVKFKSVQNLQTALELTRRCLIDDREMPVKVEAAIALQVLISNQEKAEEYITPFIRPV
ParentalMQALLHIIRETENDDLTNVIQKMICEYSEEVTPIAVEMTQHLAMTFNQVIQTGPDEEGSDDKAVTAMGIL
MQALLHIIRETENDDLTNVIQKMICEYSEEVTPIAVEMTQHLAMTFNQVIQTGPDEEGSDDKAVT.MGIL
RetrocopyMQALLHIIRETENDDLTNVIQKMICEYSEEVTPIAVEMTQHLAMTFNQVIQTGPDEEGSDDKAVTVMGIL
ParentalNTIDTLLSVVEDHKEITQQLEGICLQVIGTVLQQHVLEFYEEIFSLAHSLTCQQVSPQMWQLLPLVFEVF
NTIDTLLSVVEDHKEITQQLE.ICLQVIGTVLQQ.VLEFYEEI.SLAHSLTCQQVS.Q.WQL.PLVFEVF
RetrocopyNTIDTLLSVVEDHKEITQQLEAICLQVIGTVLQQRVLEFYEEI-SLAHSLTCQQVSLQIWQLVPLVFEVF
ParentalQQDGFDYFTDMMPLLHNYVTVDTDTLLSDTKYLEMIYSMC-KKVLTGVAGEDAECHAAKLLEVIILQCKG
QQD.FDY.TDMMPLLHNYVTVDTDTLLSDT.YLEMIYSMC.KKVLTGVAGEDAECHAAKLLEVIILQCKG
RetrocopyQQDCFDYVTDMMPLLHNYVTVDTDTLLSDTNYLEMIYSMC>KKVLTGVAGEDAECHAAKLLEVIILQCKG
ParentalRGIDQCIPLFVEAALERLTREVKTSELRTMCLQVAIAALYYNPHLLLNTLENLRFPNNVEPVTNHFITQW
.GIDQ.IPLFVEAALERLTREVKTSELRTMCLQVAIAALYYNPHLLLNTLENLRFPNNVEPVTNHFITQW
RetrocopyHGIDQ*IPLFVEAALERLTREVKTSELRTMCLQVAIAALYYNPHLLLNTLENLRFPNNVEPVTNHFITQW
ParentalLNDVDCFLGLHDRKMCVLGLCALIDMEQIPQVLNQVSGQI-LPAFILLFNGLKRAYACHAEHENDSDDDD
LNDVDCFLGLHDRKMCVLGLCA.IDMEQIPQVLNQVSGQI.LPAFILLFNGLKRAYACHAEHENDSDDDD
RetrocopyLNDVDCFLGLHDRKMCVLGLCAFIDMEQIPQVLNQVSGQI>LPAFILLFNGLKRAYACHAEHENDSDDDD
ParentalEAEDDDETEELGSDEDDIDEDGQEYLEILAKQAGEDGDDEDWEEDDAEETALEGYSTIIDDEDNPVDEYQ
EAEDDDETEELGSDEDDIDEDG.EYLE.LAKQAGEDGDDEDWEEDDAEETALEGYSTIIDDEDNPVDEYQ
RetrocopyEAEDDDETEELGSDEDDIDEDGREYLEMLAKQAGEDGDDEDWEEDDAEETALEGYSTIIDDEDNPVDEYQ
ParentalIFKAIFQTIQSRNPVWYQALTHGLNEEQRKQLQDIATLADQRRAAHESKMIEKHGGYKFSAPVVPSSFNF
IFKAIFQTIQSRNPVWYQALTHGLNEEQRKQLQDIATLADQ.RAA.ESKMIEK.GGYKFSAPVVP.SFNF
RetrocopyIFKAIFQTIQSRNPVWYQALTHGLNEEQRKQLQDIATLADQ-RAARESKMIEKRGGYKFSAPVVPNSFNF
ParentalGGPAPGMN
GGPAPGMN
RetrocopyGGPAPGMN

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 .47 RPM 44 .27 RPM
SRP021940_cerebellum 0 .10 RPM 20 .41 RPM
SRP021940_embryo 0 .49 RPM 59 .84 RPM
SRP021940_placental_villous 0 .53 RPM 43 .06 RPM
SRP021940_synovial_membrane 0 .22 RPM 28 .25 RPM
SRP021940_testis 0 .13 RPM 10 .10 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_345 retrocopy.

TSS - click to see more details

Equus caballus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ecab_345 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_345 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000015965 1 retrocopy
retro_ecab_345 ,
Homo sapiens ENSG000002053391 retrocopy
retro_hsap_501,
Gorilla gorilla ENSGGOG000000022601 retrocopy
retro_ggor_973,
Macaca mulatta ENSMMUG000000236361 retrocopy
retro_mmul_437,
Pongo abelii ENSPPYG000000296521 retrocopy
retro_pabe_1036,


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