RetrogeneDB ID: retro_cfam_1752

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 5:11642156..11642551(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: ANAPC15
• Ensembl ID: ENSCAFG00000005781
• Aliases: ANAPC15, C21H11orf51
• Description: anaphase promoting complex subunit 15 [Source:HGNC Symbol;Acc:24531]

Sequence

>retro_cfam_1752
ATTCACCTGACCCTTTACCTCCATTTAGAAGCCATGCCCACTTTTTTTCCCTCACCCTTCCCCTGTATGACTGAGACACT
GTGGTTTAATCTGGATCAACTCTGTGTGGATGAGATGGAGCCACAGCAAAAGCAAGAACAAGTCCATTGGGCCTGGCTCT
AGAATATCACAGAGACCACAACCTGGTATCTATTGGCAAGCTGGCCTAAGAGCACTATCACGACCAGAAGGAGGAGGAGG
AAGAGGATGATGAGGATAATAAAGAGGACTCAGAAGACAATGAGGATATGCAGGACAGGGATGAGATGAATGACTACATG
GAGTCACCCAAAGTTGGAGAGGTCAGTGAGGTGGACAAGGGAGGCAATGAACAGGATTAGGACCAGTGGATGATC

Alignment

ORF - retro_cfam_1752 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.43 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IHLALYLSLGAMSTLFPSLFPRVTETLWFNLDRPCVEETELQQ-QEQQHQAWLQSIAEKDNNLVPIGKPA
          IHL.LYL.L.AM.T.FPS.FP..TETLWFNLD..CV.E.E.QQ.QEQ.H.AWL..I.E..........P.
Retrocopy IHLTLYLHLEAMPTFFPSPFPCMTETLWFNLDQLCVDEMEPQQKQEQVHWAWL*NITETTTWYLLASWPK

Parental  S-EHYDDEEEEDEDDDEDSEEDSEDDEDMQDMDEMNDYNESPDDGEVNEVDMEGNEQDQDQWMI
          S....D..EEE.E.DDED..EDSED.EDMQD.DEMNDY.ESP..GEV.EVD..GNEQD.DQWMI
Retrocopy S<HYHDQKEEE-EEDDEDNKEDSEDNEDMQDRDEMNDYMESPKVGEVSEVDKGGNEQD*DQWMI

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP012049_cerebellum	0.00 RPM	0.00 RPM
SRP017611_brain	0.00 RPM	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_1752 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_1752 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_1752 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 16 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010843	1 retrocopy	retro_amel_298,
Bos taurus	ENSBTAG00000002999	2 retrocopies	retro_btau_252, retro_btau_269,
Canis familiaris	ENSCAFG00000005781	1 retrocopy	retro_cfam_1752 ,
Equus caballus	ENSECAG00000021041	1 retrocopy	retro_ecab_470,
Felis catus	ENSFCAG00000005321	1 retrocopy	retro_fcat_1350,
Homo sapiens	ENSG00000110200	1 retrocopy	retro_hsap_4780,
Gorilla gorilla	ENSGGOG00000012501	2 retrocopies	retro_ggor_1999, retro_ggor_2977,
Myotis lucifugus	ENSMLUG00000014120	1 retrocopy	retro_mluc_238,
Macaca mulatta	ENSMMUG00000016270	1 retrocopy	retro_mmul_2551,
Mustela putorius furo	ENSMPUG00000010260	1 retrocopy	retro_mputfur_596,
Nomascus leucogenys	ENSNLEG00000017234	1 retrocopy	retro_nleu_1100,
Pongo abelii	ENSPPYG00000003646	2 retrocopies	retro_pabe_2388, retro_pabe_3720,
Pteropus vampyrus	ENSPVAG00000015797	1 retrocopy	retro_pvam_404,
Sorex araneus	ENSSARG00000004171	2 retrocopies	retro_sara_444, retro_sara_686,
Tarsius syrichta	ENSTSYG00000014179	1 retrocopy	retro_tsyr_35,
Tursiops truncatus	ENSTTRG00000010773	1 retrocopy	retro_ttru_277,