RetrogeneDB ID: retro_mmul_1378

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 19:48317136..48318082(+)
• Located in intron of: ENSMMUG00000017431

Retrocopy information

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

Parental gene information

• Parental gene symbol: DNTTIP2
• Ensembl ID: ENSMMUG00000008435
• Aliases: None
• Description: deoxynucleotidyltransferase, terminal, interacting protein 2 [Source:HGNC Symbol;Acc:24013]

Sequence

>retro_mmul_1378
ATATTATTAGTTCTCAGCAGTGATGAAAGCCAACAGTCTGAAAACAGTGAGAATGAAGAGGATACTTTATGTTTTGTTGA
AAATAGTGGCGAAAGGGAGTCATTAAGTGGAGACACAGAAAGTCTGTCATGTGACAATGCATTGTTTGTAATTGACACAA
CTCCTGGAATGAGTGCTGATAAAAATTTTTACTTGGAAGAGGAAGACAAAGCAAGTGAGGTTGCCACTGAGGAAGAAAAA
GAAGAGGAAGAGGGTGAAAAAAGTGAAGAAGATTCATCAGACCATGACGAAAATGAAGATGAGTGTAGTGATGAAGAAGA
CTTACTAAATAGCACAAAGGCTAAACTTCTAAAGTTGACAAGCAGCAGCATAGACCCTGGTCTGAGTATCAAGCAGTTGG
GTGGTTTGTATATTAATTTCAATGCAGATAAACTACAGTCTAACAAGAGAACCCTAACACAGATCAAGGAGAAAAAGAAA
AATGAGCTTCTGCAGAAAGCTGTCATTACACCTGATTTTGAAAAAAACCACTGTGTTCCACCATATAGTGAATCAAAGTA
TGAACTTCAGAAAAAACGCAGAGAAGAACAACAAAAAACAGCAGGGGATGGCTGGTTTGGTATGAAAGCTCCAGAAATGA
CAAATGAACTGAAAAATGATCTCAAAGCACTGAAGATGAGAGCCAGCATGGACCCAAAGATTTTACAAGAAAAATGATAG
AGATGGCTTCCCCAAGTACTTCCAGATTGGAACCATTGTTGACAATCCAGCTGATTTCTACCATTCACGAATTCCCAAGA
AGCATAGGAAAAGAACTATTGTGGAAGAACTGCTGGCTGATTCTGAGTTCAGAAGATACAGCCGAAGGAAGTACTTAGAG
ATCATGGCTGAAAAAGCAGCAAATGCAGCAGGAAAAAAGTTCCGAAAGAAGAAGAAATTTCACAAT

Alignment

ORF - retro_mmul_1378 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.31 %
• Parental protein coverage: 53.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VLLVLSSDESQQSENSENEEDTLCFVENSGQRESLSGDTESLSCDNALFVIDTTPGMSADKNFYL-EEED
          .LLVLSSDESQQSENSENEEDTLCFVENSG.RESLSGDTESLSCDNALFVIDTTPGMSADKNFYL.EE..
Retrocopy ILLVLSSDESQQSENSENEEDTLCFVENSGERESLSGDTESLSCDNALFVIDTTPGMSADKNFYLEEEDK

Parental  KASEVATEEEKEEEEGEKSEDSSDHDENEDECSDEEDLLNSTKAKRLKLTSSSIDPGLSIKQLGGLYINF
          .....................SSDHDENEDECSDEEDLLNSTKAK.LKLTSSSIDPGLSIKQLGGLYINF
Retrocopy ASEVATXXXXXXXXXXXXXXXSSDHDENEDECSDEEDLLNSTKAKLLKLTSSSIDPGLSIKQLGGLYINF

Parental  NADKLQSNKRTLTQIKEKKKNELLQKAVITPDFEKNHCVPPYSESKYQLQKKRREERQKTAGDGWFGMKA
          NADKLQSNKRTLTQIKEKKKNELLQKAVITPDFEKNHCVPPYSESKY.LQKKRREE.QKTAGDGWFGMKA
Retrocopy NADKLQSNKRTLTQIKEKKKNELLQKAVITPDFEKNHCVPPYSESKYELQKKRREEQQKTAGDGWFGMKA

Parental  PEMTNELKNDLKALKMRASMD-PK-RFYKKNDRDGFPKYFQIGTIVDNPADFYHSRIPKKQRKRTIVEEL
          PEMTNELKNDLKALKMRASMD.PK.RFYKKNDRDGFPKYFQIGTIVDNPADFYHSRIPKK.RKRTIVEEL
Retrocopy PEMTNELKNDLKALKMRASMD<PK<RFYKKNDRDGFPKYFQIGTIVDNPADFYHSRIPKKHRKRTIVEEL

Parental  LADSEFRRYNRRKYLEIMAEKAANAAGKKFRKKKKFRN
          LADSEFRRY.RRKYLEIMAEKAANAAGKKFRKKKKF.N
Retrocopy LADSEFRRYSRRKYLEIMAEKAANAAGKKFRKKKKFHN

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
SRP007412_brain	3.03 RPM	30.59 RPM
SRP007412_brain_prefrontal_cortex	1.90 RPM	15.87 RPM
SRP007412_cerebellum	2.58 RPM	25.31 RPM
SRP007412_heart	1.88 RPM	12.31 RPM
SRP007412_kidney	1.88 RPM	15.49 RPM
SRP007412_liver	0.44 RPM	4.04 RPM
SRP007412_testis	8.59 RPM	71.99 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1378 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1378 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1378 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000008435	1 retrocopy	retro_mmul_1378 ,