RetrogeneDB - Retrocopy retro_dnov

                        
>retro_dnov_21
ATGCCTCGCGGTCAGAAGAGTAAGCTCCGTGCCCGTGAGAAACGCCGCCAGGCCCATGGTGAGACCTTGGGTCTCCAGGG

TGCTCAAGCCCCTGCAGCAGCAGAAGATAAGATCCTGTCCTCCTCTCTTGTTTTTGAGGGTACTCCTCAGAACTCCTCTT

ATGCTGGCAGTCCCCAGGGGCCTCAGAGATCCCCATTCACCACCACTTCTGCTGCAGCTATTTCATGCATAACATCTGAT

GAAGGTGCCAAAGGCCAAGACGAGGAAAGTCCAAGTTCTTTCCAGGTCCCGGCCTCCACTAAGAGCTCCCGCAAAGATCC

TCTAACCAGGAAGGCAGGTATGCTGGTGCAGTTCCTGTTATACAAGTATAAAATGAAAGAGCCCATTACAAAGGCGGACA

TGCTGAAGATTGTCAACAGGAAGTACAAGGATCACTTCCCTGAGATCCTCAAGAGAACTTCTGAGCGCATGGAGCTAATC

TTTGGCCTTGACCTTAAACAAGAGGACTCCAGAGGTCAATCTTATGCCCTTGTCAGCAAACTGGACCTCACCAATGAAGA

AAATCTGAGTGGTGCCTGGGGGTTTCCCAAGAGTGGTCTTCTAATGCCTCTCTTAGGTGTGATCTTCATTAATGGTAACT

GTGCCACTGAGGAAGAGATCTGGGAATTCCTAAATATGTTGGGCATCTATGATGGAAAGAGACACTTCATCTTTGGGGAT

ACCAGGAAGCTCATCACCAGAGATTTGGTGAGGGAAAAATACCTGGAGTACCGGCAGGTGCCCAACACTGATCCTCCACG

CTATGAATTCCTGTGGGGTCCAAGGGCCCATGCTGAAACCAGCAAGATGAAAGTTCTAGAATTTTTGGCCAAGGTAAATG

ATACCGTCCCCAGTGCTTTCCAGTCGCGATATGAAGAGGCTTTGAGAGATGAGGAAGCAAGGGCTGGAGCTAGAGTTGCA

GGCAGGGCTGGCAGTATTGCCATAGCCAGGGCACTTCCCAGGATCAGGATCAGCTGTTTCTCCCGCTTCAAGTGA

ORF - retro_dnov_21 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	62.91 %
Parental protein coverage:	96.0 %
Number of stop codons detected:	0
Number of frameshifts detected:	0

Retrocopy - Parental Gene Alignment:

                                ParentalMPRSQKSKLRYREKRRQAREETQGPHGAQASVEVKEEAPCSPSVVSGGSPQSSPAAGHPEEPPRSLSPLT
MPR.QKSKLR.REKRRQA..ET.G..GAQA..........S.S.V..G.PQ.S..AG.P..P.RS..P.T
RetrocopyMPRGQKSKLRAREKRRQAHGETLGLQGAQAPAAAEDKI-LSSSLVFEGTPQNSSYAGSPQGPQRS--PFT
ParentalLAAAVSGPRAEEEAESRGEAPGSPEATGSPEAPGSPEGSRRDPLSRKAALVLQFLLNKYKLKQPILKADM
...A.............G....SP....S...P.S...SR.DPL.RKA....QFLL.KYK.K.PI.KADM
RetrocopyTTSAAAISCITSDEGAKGQDEESPS---SFQVPASTKSSRKDPLTRKAGMLVQFLLYKYKMKEPITKADM
ParentalLKLIRRKYKEQFPEILRMCSERLELVFGLDLKEHDASAQSYLLVSKLD-PSETNLSGGWGLPRNGLLLPL
LK...RKYK..FPEIL...SER.EL.FGLDLK..D...QSY.LVSKLD...E.NLSG.WG.P..GLL.PL
RetrocopyLKIVNRKYKDHFPEILKRTSERMELIFGLDLKQEDSRGQSYALVSKLDLTNEENLSGAWGFPKSGLLMPL
ParentalLGVIFLNGNCAPEEEIWQFLSLLGVYKGRRHFIFGDPWKLITRDLVREKYVEYRQVAQSSPPRYEFLWGP
LGVIF.NGNCA.EEEIW.FL..LG.Y.G.RHFIFGD..KLITRDLVREKY.EYRQV....PPRYEFLWGP
RetrocopyLGVIFINGNCATEEEIWEFLNMLGIYDGKRHFIFGDTRKLITRDLVREKYLEYRQVPNTDPPRYEFLWGP
ParentalRAHAVTSKMKVLEFLAKVNDTVPSAFHSHYEEALKDEEERAQARAAARAGATAKAMA
RAHA.TSKMKVLEFLAKVNDTVPSAF.S.YEEAL.DEE.RA.AR.A.RAG..A.A.A
RetrocopyRAHAETSKMKVLEFLAKVNDTVPSAFQSRYEEALRDEEARAGARVAGRAGSIAIARA

                            

                            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
SRP012922_ascending_colon	0 .00 RPM	0 .00 RPM
SRP012922_cerebellum	0 .00 RPM	0 .00 RPM
SRP012922_heart	0 .00 RPM	0 .00 RPM
SRP012922_kidney	0 .00 RPM	0 .00 RPM
SRP012922_liver	0 .00 RPM	0 .00 RPM
SRP012922_lung	0 .15 RPM	0 .00 RPM
SRP012922_quadricep_muscle	0 .00 RPM	0 .00 RPM
SRP012922_spleen	0 .11 RPM	0 .00 RPM

ChIP-Seq - click to see more details

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST - click to see more details

Dasypus novemcinctus was not studied using EST data.

TSS - click to see more details

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab - click to see more details

retro_dnov_21 was not experimentally validated.

Retrocopy orthology:

Dasypus novemcinctus 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
Dasypus novemcinctus	ENSDNOG00000017221	1 retrocopy	retro_dnov_21 ,

	RetrogeneDB ID:	retro_dnov_21
Retrocopy location	Organism:	*Armadillo (Dasypus novemcinctus)*
	Coordinates:	scaffold_77335:1192..2227(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	ENSDNOG00000006518
	Aliases:	None
	Status:	KNOWN_PROTEIN_CODING
Parental gene information	Parental gene summary:
	Parental gene symbol:	None
	Ensembl ID:	ENSDNOG00000017221
	Aliases:	None
	Description:	None

Parental	MPRSQKSKLRYREKRRQAREETQGPHGAQASVEVKEEAPCSPSVVSGGSPQSSPAAGHPEEPPRSLSPLT
	MPR.QKSKLR.REKRRQA..ET.G..GAQA..........S.S.V..G.PQ.S..AG.P..P.RS..P.T
Retrocopy	MPRGQKSKLRAREKRRQAHGETLGLQGAQAPAAAEDKI-LSSSLVFEGTPQNSSYAGSPQGPQRS--PFT

Parental	LAAAVSGPRAEEEAESRGEAPGSPEATGSPEAPGSPEGSRRDPLSRKAALVLQFLLNKYKLKQPILKADM
	...A.............G....SP....S...P.S...SR.DPL.RKA....QFLL.KYK.K.PI.KADM
Retrocopy	TTSAAAISCITSDEGAKGQDEESPS---SFQVPASTKSSRKDPLTRKAGMLVQFLLYKYKMKEPITKADM

Parental	LKLIRRKYKEQFPEILRMCSERLELVFGLDLKEHDASAQSYLLVSKLD-PSETNLSGGWGLPRNGLLLPL
	LK...RKYK..FPEIL...SER.EL.FGLDLK..D...QSY.LVSKLD...E.NLSG.WG.P..GLL.PL
Retrocopy	LKIVNRKYKDHFPEILKRTSERMELIFGLDLKQEDSRGQSYALVSKLDLTNEENLSGAWGFPKSGLLMPL

Parental	LGVIFLNGNCAPEEEIWQFLSLLGVYKGRRHFIFGDPWKLITRDLVREKYVEYRQVAQSSPPRYEFLWGP
	LGVIF.NGNCA.EEEIW.FL..LG.Y.G.RHFIFGD..KLITRDLVREKY.EYRQV....PPRYEFLWGP
Retrocopy	LGVIFINGNCATEEEIWEFLNMLGIYDGKRHFIFGDTRKLITRDLVREKYLEYRQVPNTDPPRYEFLWGP

Parental	RAHAVTSKMKVLEFLAKVNDTVPSAFHSHYEEALKDEEERAQARAAARAGATAKAMA
	RAHA.TSKMKVLEFLAKVNDTVPSAF.S.YEEAL.DEE.RA.AR.A.RAG..A.A.A
Retrocopy	RAHAETSKMKVLEFLAKVNDTVPSAFQSRYEEALRDEEARAGARVAGRAGSIAIARA

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

RetrogeneDB ID:

retro_dnov_21