RetrogeneDB ID: retro_hsap_797

Retrocopy location

• Organism: Human (Homo sapiens)
• Coordinates: 11:78095253..78096782(+)
• Located in intron of: ENSG00000033327

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF75D
• Ensembl ID: ENSG00000186376
• Aliases: ZNF75D, D8C6, ZKSCAN24, ZNF75, ZNF82, ZSCAN28
• Description: zinc finger protein 75D [Source:HGNC Symbol;Acc:13145]

Sequence

>retro_hsap_797
ATGATAATGAGAGAGCTGAAGGCAGATGCATGCTTGAACTCTCATATGGGAGCTATGTGGGAGACCAACAGGTCTGTGAA
AGAGAACTCCAGTCAGAGTAAGAAATACAGCACACAAATCGAGTGTCTCAGTCCTGGGAGTGCTTGCAGGCACTTCCGGA
GCTTCCATTATCATGAAGCAACTGAACCGCTTGAGGCTATCAACCAACTTCAGAAATTGTGCCATCAGTGGCTGAGGCCA
GAGATCCACTCAAAAAAGCACATTTTGGAAATGCTGGTACTAGAGCACTTCCTGACCATCCTGCCAAAGGGGACCCAGAA
CTGGGTGCAGAAGCATCATCCACAGCTTGCCAAACAGGCCCTGGTCCTGGTGGAACGCTTGCAGAGAGAACCTGGTGGAA
CAAAGAATGAGGTCACAGCCCATGAGCTGGGAGAGGAGGCAGTGCTCTTGAGAGGAACAACAGTGGCCCCAGGCTTCAAG
TGGAAGCCAGCAGAGCTCGAACCAATGGGTCTGTTCTAGAAAGAATACTGGAACACATACAGGGTACTACAAGAACAGCT
GGGCTGGAATACTCAGAAAGAAACCCAGCCTGTATATGAAAGAGCTGTGCATGTTCAACAGATTTTAGCCCTTTCTGAGC
ACAAAAGCACCAAAGACTGGAAGATGGCACCTAAGCTCATCTGGCCTGAGTCCCAGAGTTTATTGACATTTGAAGACATG
GCTGTGTACTTCTCTGAGGAAGAATGGCAATTATTAGGTCCTCTTGAGAAGACTCTCTACAATGATGTAATGCAGGATAT
CTATGAGACTGCCATCTCTCTAGGGTTAAAGCTAAAAAATGACAATGGAAATGACTATCCTATAATATCGGTTTCTGCAC
CTGAAATACAAACAGCAGGATACAAAGTATCAAAAAAGACCAGAATGAAAATTGCCCAGAAAACAAAGGACAGGGAAAAT
CATGGTGATACACACAGGGTATAGAAATGGCATCAAGCTTTTCCAAGGAAGAAAAGAAACTTACAACTTGTAAACAAGAG
CTTCCAAAACTTATGGATCTTCACGGGAAAGGCCACACAGGAGAGAAACCTTTTAAATGTCAGGACTGTGGGAAAATCTT
CAGAGTTAGCTCAGATCTTATTAAGCACCAGAGAATTCACACTGAAGAGAAACTCTATAAATGTCAACAATGTGACAGGA
GGTTTAGATGGAGTTCAGGTCTTAATAAGCACTTCATGACACATCAAGGAATAAACCCATATAGATGCTCATGGTATGGG
AAAAGCATTAGTTATGACACAAATCTACAAACACACCAAAGAATTCACACAGGAGAGAAGCCCTTTAAATGTCATGAATG
TGGGAAAATATTCATTCACAAATCCAACCTTATTAAATACCAGAGAACTCACACAGGTGAGCAGCCTTATACTTGTAGCA
TATGCAGGAGAAACTTTAGTAGGCAGTTGAGCCTTCTTAGACACCAGAAACTCCACAGAAGATGGGAAGCATGTCCAATG
TCTCCAAAC

Alignment

ORF - retro_hsap_797 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.93 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAMRELNADSCSSPQMGAMWETSGSVKENSSQSKKYSTKIENLGPESACRHFWSFRYHEATGPLETISQL
          M.MREL.AD.C....MGAMWET..SVKENSSQSKKYST.IE.L.P.SACRHF.SF.YHEAT.PLE.I.QL
Retrocopy MIMRELKADACLNSHMGAMWETNRSVKENSSQSKKYSTQIECLSPGSACRHFRSFHYHEATEPLEAINQL

Parental  QKLCHQWLRPEIHSKEQILEMLVLEQFLSILPKETQNWVQKHHPQNVKQALVLVEFLQREPDGTKNEVTA
          QKLCHQWLRPEIHSK..ILEMLVLE.FL.ILPK.TQNWVQKHHPQ..KQALVLVE.LQREP.GTKNEVTA
Retrocopy QKLCHQWLRPEIHSKKHILEMLVLEHFLTILPKGTQNWVQKHHPQLAKQALVLVERLQREPGGTKNEVTA

Parental  HELGKEAVLLGGTAVAPGFKWKPAEPQPMGVFQKEYWNTYRVLQEQLGWNTHKETQPVYERAVHDQQMLA
          HELG.EAVLL.GT.VAPGFKWKPAE..PMG.F.KEYWNTYRVLQEQLGWNT.KETQPVYERAVH.QQ.LA
Retrocopy HELGEEAVLLRGTTVAPGFKWKPAELEPMGLF*KEYWNTYRVLQEQLGWNTQKETQPVYERAVHVQQILA

Parental  LSEQKRIKHWKMASKLILPESLSLLTFEDVAVYFSEEEWQLLNPLEKTLYNDVMQDIYETVISLGLKLKN
          LSE.K..K.WKMA.KLI.PES.SLLTFED.AVYFSEEEWQLL.PLEKTLYNDVMQDIYET.ISLGLKLKN
Retrocopy LSEHKSTKDWKMAPKLIWPESQSLLTFEDMAVYFSEEEWQLLGPLEKTLYNDVMQDIYETAISLGLKLKN

Parental  DTGNDHP-ISVSTSEIQTSGCEVSKKTRMKIAQKTMGRENPGDTHSVQKWHRAFPRKKRKKPATCKQELP
          D.GND.P.ISVS..EIQT.G..VSKKTRMKIAQKT..REN.GDTH.V.KWH.AFPRKKR......K....
Retrocopy DNGNDYPIISVSAPEIQTAGYKVSKKTRMKIAQKTKDRENHGDTHRV*KWHQAFPRKKRNLQLVNK-SFQ

Parental  KLMDLHGKGPTGEKPFKCQECGKS-FRVSSDLIKHHRIHTGEKPYKCQQCDRRFRWSSDLNKHFMTHQGI
          .L....GK.............GKS.FRVSSDLIKH.RIHT.EK.YKCQQCDRRFRWSS.LNKHFMTHQGI
Retrocopy NLWIFTGKATQERNLLNVRTVGKS<FRVSSDLIKHQRIHTEEKLYKCQQCDRRFRWSSGLNKHFMTHQGI

Parental  KPYRCSWCGKSFSHNTNLHTHQRIHTGEKPFKCDECGKRFIQNSHLIKHQRTHTGEQPYTCSLCKRNFSR
          .PYRCSW.GKS.S..TNL.THQRIHTGEKPFKC.ECGK.FI..S.LIK.QRTHTGEQPYTCS.C.RNFSR
Retrocopy NPYRCSWYGKSISYDTNLQTHQRIHTGEKPFKCHECGKIFIHKSNLIKYQRTHTGEQPYTCSICRRNFSR

Parental  RSSLLRHQKLHRRREACLVSPN
          ..SLLRHQKLHRR.EAC..SPN
Retrocopy QLSLLRHQKLHRRWEACPMSPN

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
bodymap2_adipose	0.14 RPM	8.27 RPM
bodymap2_adrenal	0.18 RPM	15.43 RPM
bodymap2_brain	0.14 RPM	9.31 RPM
bodymap2_breast	0.00 RPM	10.70 RPM
bodymap2_colon	0.00 RPM	6.03 RPM
bodymap2_heart	0.20 RPM	6.33 RPM
bodymap2_kidney	0.04 RPM	17.95 RPM
bodymap2_liver	0.00 RPM	6.65 RPM
bodymap2_lung	0.11 RPM	8.05 RPM
bodymap2_lymph_node	0.09 RPM	19.21 RPM
bodymap2_ovary	0.17 RPM	22.32 RPM
bodymap2_prostate	0.00 RPM	17.51 RPM
bodymap2_skeletal_muscle	0.00 RPM	4.91 RPM
bodymap2_testis	0.00 RPM	9.26 RPM
bodymap2_thyroid	0.00 RPM	16.25 RPM
bodymap2_white_blood_cells	0.00 RPM	18.43 RPM

ChIP-Seq

RNA Polymerase II activity near the 5' end of retro_hsap_797 was not detected

EST

2 EST(s) were mapped to retro_hsap_797 retrocopy

EST ID	Start	End	Identity	Match	Mis-match	Score
BQ884123	78095109	78095943	98.2	828	5	817
CV379616	78095142	78095729	98.9	580	7	573

TSS

No TSS is located nearby retro_hsap_797 retrocopy 5' end.

Lab

retro_hsap_797 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_hsap_797 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014531	2 retrocopies	retro_cjac_3200, retro_cjac_917,
Homo sapiens	ENSG00000186376	1 retrocopy	retro_hsap_797 ,
Otolemur garnettii	ENSOGAG00000032383	1 retrocopy	retro_ogar_1516,
Pongo abelii	ENSPPYG00000020747	1 retrocopy	retro_pabe_918,