RetrogeneDB ID:

retro_dord_137

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:GeneScaffold_3716:374497..375394(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Smu1
Ensembl ID:ENSDORG00000006011
Aliases:None
Description:smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) [Source:MGI Symbol;Acc:MGI:1915546]


Retrocopy-Parental alignment summary:






>retro_dord_137
GCATACCCAGAAGGAAGCAGCAAAGAGAAAAGAAGAGCAGCAATTGCCCAAGCCTTAGCTGGCGAAGTCAATGTGGTGCC
TCCGTCCCGTCTCTTGGCATTGCTGGGCCAGGCTCTGAAGTGGCAGCAGCACCAAGGGTTGCTCCCTCCTGGTCCCACCA
TAGATCTGTTTCGAGGTAAAGCAGCTGTCAAAGATGTGGAGGAAGAAAAGTTTCCTACACGGCTGAGCAGGCATATTAAG
TTTGGTCAGAAGTCACACGTGGAATGTGCTAGATTTTCTCCTGATGGTCAGTATCTGGTCACTGGGTCTGTTGATGGATT
TATTGAAGTATGGAACTTTATGACTGGAAAAATCAGGAAGGATCTGAAGTACCAGGCACAGGATAACTTCATGATGGACG
ATGCTGTCCTCTGCATGTGTTTTAGCAGAGATACAGAAATGTTAGCAACTGGGGCCCAAGATGGAAAGATCAAGGTGTGG
AAGATTCAGAGTGGACAGTGTTTAAGGAGGTTTGAAAGGGCGCACGGTAAAGCTGTCACCTGTCTGAGCTTTTCCAAAGA
CAGCAGTCAGATCCTTAGTGCCTCTTTGGACCAGACAATCAGAATTCATGGCTTAAAATCTGGGAAAACCCTAAAGGAAT
TTCGTGGTCATTCCTCCTTCGTTAATGAAGCAACATTTACACAAGATGGACATTATATTATCAGTGCTTCCTCTGATGGC
ACTGTAAAGATCTGGAATATGAAGACAACAGAATGCTCAAATACCTTGAAGTCCTTGGGCAGCACTGCGGGGACAGACAT
TACTGTCAACAGTGTGATCCTGCTTCCTCAAAACCCAGAACACTTTGTGGTGTGCAACCGATCAAACACTGTGGTCATCA
TGAACATGCAAGGCCAG

ORF - retro_dord_137 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86. %
Parental protein coverage: 69.7 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAYPDGSSKEKRRAAIAQALAGEVSVVPPSRLMALLGQALKWQQHQGLLPPGMTIDLFRGKAAVKDVEEEK
AYP.GSSKEKRRAAIAQALAGEV.VVPPSRL.ALLGQALKWQQHQGLLPPG.TIDLFRGKAAVKDVEEEK
RetrocopyAYPEGSSKEKRRAAIAQALAGEVNVVPPSRLLALLGQALKWQQHQGLLPPGPTIDLFRGKAAVKDVEEEK
ParentalFPTQLSRHIKFGQKSHVECARFSPDGQYLVTGSVDGFIEVWNFTTGKIRKDLKYQAQDNFMMMDDAVLCM
FPT.LSRHIKFGQKSHVECARFSPDGQYLVTGSVDGFIEVWNF.TGKIRKDLKYQAQDNFMM.DDAVLCM
RetrocopyFPTRLSRHIKFGQKSHVECARFSPDGQYLVTGSVDGFIEVWNFMTGKIRKDLKYQAQDNFMM-DDAVLCM
ParentalCFXXXXXXXXXXXXXXXXXVWKIQSGQCLRRFERAHSKGVTCLSFSKDSSQILSASFDQTIRIHGLKSGK
CF.................VWKIQSGQCLRRFERAH.K.VTCLSFSKDSSQILSAS.DQTIRIHGLKSGK
RetrocopyCFSRDTEMLATGAQDGKIKVWKIQSGQCLRRFERAHGKAVTCLSFSKDSSQILSASLDQTIRIHGLKSGK
ParentalTLKEFRGHSSFVNEATFTQDGHYIISASSDGTVKXXXXXXXXXXXXFKSLGSTAGTDITVNSV-LLPKNP
TLKEFRGHSSFVNEATFTQDGHYIISASSDGTVK.............KSLGSTAGTDITVNSV.LLP.NP
RetrocopyTLKEFRGHSSFVNEATFTQDGHYIISASSDGTVKIWNMKTTECSNTLKSLGSTAGTDITVNSVILLPQNP
ParentalEHFVVCNRSNTVVIMNMQGQ
EHFVVCNRSNTVVIMNMQGQ
RetrocopyEHFVVCNRSNTVVIMNMQGQ

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_137 was not experimentally validated.

Retrocopy orthology:
Dipodomys ordii 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 5 parental genes, and 6 retrocopies.

Species Parental gene accession Retrocopies number
Dipodomys ordii ENSDORG00000006011 2 retrocopies
retro_dord_126, retro_dord_137 ,
Dipodomys ordii ENSDORG000000150101 retrocopy
Echinops telfairi ENSETEG000000079531 retrocopy
Myotis lucifugus ENSMLUG000000160971 retrocopy
Monodelphis domestica ENSMODG000000034391 retrocopy



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