RetrogeneDB ID:

retro_mdom_740

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:2:269886477..269887909(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ZBTB8A
Ensembl ID:ENSMODG00000017424
Aliases:None
Description:zinc finger and BTB domain containing 8A [Source:HGNC Symbol;Acc:24172]


Retrocopy-Parental alignment summary:






>retro_mdom_740
ATGGAGATTTCCTCACATCAGTCTCACCTGTTGCAACAACCTAACGAGCAGCACAAGCAAGATGTGTTTTGTGACTGCAG
TGTTCTAGTTGAAGGGAAAGTCTTCAAAGCACATAGAAATGTGCTCTTTGCAAGCAGAGGCTATTGTAAAGTGCTTCTTT
CTCAGAGCTCAAAGGAAACATGACAACCAACCACAGCTACATTTCAAGCTTTCTCTCCTGACACTTTTACTGCTATTCTA
GACTTTGTATATTCAGGCAGACTTTCTCTCACTGGTCAAAATGTCATAGAAGTGATGTCAGCTACTAGTTTCCTTCAAAT
GACTGATGTCATTAGTGTATGTAAGACCTTCATTAAGTCCTCACTTGACATAAGTGAGAAAGAGAAGGATCGCTACTTCA
GACTCTCAGATGAAGATGCCAATTCCAATGGTGTAGCGGAATGTTCTTCTTCTAATACCAGGTGCCATGGAGACAGCAGT
CCATAATCTCATTGAAGCCGGATCAAGGACGTGTGCCATGAGGGACAAACCTTGAGCAATTACAACTATGATCCAACTTC
CCAATGCAACCCGCAGCAACCCCCAACCAATCATGAACAAGACAAGCTTTGGTTCAAAAGTCCAGGCCTTGGGAGTTACC
GTAGTCTACAGATGTTCCTCATTATAAGTGAAGCAAACTTGAAGATGGAACTTCTGAGGCCCCCAATCACACCCTCCATC
CGAAGAAAAAGTACAAAATGATGCTGGAATTGACTGCCCTCGTGCGGGGCTTACGTAAGGCAAATAATCTGATGTCACAC
CCAGAAGCCTCCCAGGTCCCCATCAGGAACAAGAGTCCTCCCGATCTACATGCAAGTCACCTAAAACGGGTAAACCCTGT
TCCAAAATGCCTTTAATTCTAGGTGTTGTGGGTAGCTGGAATATAGATGAGCTGCCTAAAATGAGAGTCAGATGCCTGTT
CTGCACACACGTGGTGAAAAGGAAAGCAGACGTAAAGCGCCACCTTCCTTGCCATACAGGAGAATGGCCTGACCGTTGTG
AGGCCTGTGGGCAAAGACTCAGCAGGCTACACCGTCTAAGGAGCCATTTCCAACAATTCCTCAGGCATGCAAGCTGATAT
GCTGACAATGCAGGTGCCATGTGACTGATCTACCTGGGCAAGCAGTGCAAGAAGGAACAAGGAGCTACAGACTGTGTAAG
GAGGGCCTCGCTGAAGCTGGCCTAGACAGCATCCCCATAACCTGGAAGCTGAACGACCATGTGTGTCCTCTTCACATGGA
GAAAAGAAGCCCAAGTGGCAGCTGAGTGAAAGGAAAAAAAATCCTATGTGGAGATTGTAGAGGACAGGTCTGCGGCTCTG
ATCATACAACACGCTGATGATAGTGAGGATGAGAAAGAAGAAAAGGAAATAAAGCCCAACATTAGGCAGTTG

ORF - retro_mdom_740 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.19 %
Parental protein coverage: 99.79 %
Number of stop codons detected: 7
Number of frameshifts detected 8


Retrocopy - Parental Gene Alignment:

ParentalMEISSHQSHLLQQLNEQRRQDVFCDCSILVEGKVFKAHRNVLFASSGYFKMLLSQSSKETNQPTTATFQA
MEISSHQSHLLQQ.NEQ..QDVFCDCS.LVEGKVFKAHRNVLFAS.GY.K.LLSQSSKET.QPTTATFQA
RetrocopyMEISSHQSHLLQQPNEQHKQDVFCDCSVLVEGKVFKAHRNVLFASRGYCKVLLSQSSKET*QPTTATFQA
ParentalFSPDTFTVILDFVYSGRLSLTGQNVIEVMSAASFLQMTDVISVCKTFIKSSLDISEKEKDRYFSLSDKDA
FSPDTFT.ILDFVYSGRLSLTGQNVIEVMSA.SFLQMTDVISVCKTFIKSSLDISEKEKDRYF.LSD.DA
RetrocopyFSPDTFTAILDFVYSGRLSLTGQNVIEVMSATSFLQMTDVISVCKTFIKSSLDISEKEKDRYFRLSDEDA
ParentalNSNGVAERSYS-AGWHGESSPPQSH-LSPDQG-TCAM-SGKSWSNYNYYPTSQWNTQQPPTKHEQ-RQDL
NSNGVAE.S.S....HG.SS.P.SH.L.PDQG.TCAM..G...SNYNY.PTSQ.N.QQPPT.HEQ.RQ.L
RetrocopyNSNGVAECSSSNTRCHGDSS-P*SH<LKPDQG<TCAM<EGQTLSNYNYDPTSQCNPQQPPTNHEQ<RQAL
ParentalVKKSRPLELPQSTDVPHYKLSKLEDRTSEAPNHT-PPSEEKVQNDAGIDCSHVGLTYGKESDVTPRSLPD
V.KSRP.ELP.STDVPHYK.SKLED.TSEAPNHT.PPSEEKVQNDAGIDC...GLT.GK.SDVTPRSLP.
RetrocopyVQKSRPWELP*STDVPHYK*SKLEDGTSEAPNHT<PPSEEKVQNDAGIDCPRAGLT*GK*SDVTPRSLPG
ParentalAHQEQESSRSTCKSPKTDKPCSKMPLILGVMGSWNEDELPKMRFKCPFCTHVVKRKADLKRHLRCHTGER
.HQEQESSRSTCKSPKT.KPCSKMPLILGV.GSWN.DELPKMR..C.FCTHVVKRKAD.KRHL.CHTGE.
RetrocopyPHQEQESSRSTCKSPKTGKPCSKMPLILGVVGSWNIDELPKMRVRCLFCTHVVKRKADVKRHLPCHTGEW
ParentalPYPCEACGKRFSRLDHLSSHFR-TIHQACKLICRKCKRHVTDLTGQVVQEGTRRYRLCNECLAEAGLDSI
P..CEACG.R.SRL..L.SHF..TI.QACKLIC..C..HVTDL.GQ.VQEGTR.YRLC.E.LAEAGLDSI
RetrocopyPDRCEACGQRLSRLHRLRSHFQ<TIPQACKLIC*QCRCHVTDLPGQAVQEGTRSYRLCKEGLAEAGLDSI
ParentalPI-NLEAEQPLVSPSDGEKKSKWQLSE-GKKKSYVEIVEDGSADLIIQQVDDSEDEKEEKEIKPNIRKL
PI.NLEAE.P.VS.S.GEKK.KWQLSE.....SYVEIVED.SA.LIIQ..DDSEDEKEEKEIKPNIR.L
RetrocopyPI<NLEAERPCVSSSHGEKKPKWQLSE<KXXXSYVEIVEDRSAALIIQHADDSEDEKEEKEIKPNIRQL

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
SRP007412_brain 0 .00 RPM 0 .00 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .00 RPM
SRP007412_liver 0 .00 RPM 0 .00 RPM
SRP007412_testis 0 .00 RPM 0 .00 RPM

ChIP-Seq - click to see more details

Monodelphis domestica was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mdom_740 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_740 was not experimentally validated.

Retrocopy orthology:
Monodelphis domestica 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Monodelphis domestica ENSMODG00000017424 1 retrocopy
retro_mdom_740 ,


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