RetrogeneDB ID: retro_mmul_1374

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 19:41287872..41288508(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF24
• Ensembl ID: ENSMMUG00000009322
• Aliases: None
• Description: zinc finger protein 24 [Source:RefSeq peptide;Acc:NP_001252944]

Sequence

>retro_mmul_1374
GAGGAGTGTGATGGGATTCTGACAGTGAAGACAGAAGAGCAGACCGGTGATCTGGACTCTAGCCTCCATTGGAGCAGCAG
CTACAGCCCAGAGACCTTCCGCTGGCAGACCTTCTGCAGTCAGTTTGACTACCAGGATTCACCGGGGCCCCTGGAGGCTC
TGAGCCAGCTCTGGGAACTTTGTCATCTCTGACTGAGGCCAGAGGTGCACACCAAGGAGCAGATCCTGGAGCTGCTGGTG
CTGGAGCAGTTCCTGGCCATCCTCCCAAAAAACCTGCAGCCCTGGATGCAGAGGCATCATCCAGAAAATGGAGAGGAAGC
TGTGGCTATGCTGGAGGATGTGCGGAGAGAGCTTGATGGACCAGGGCAGGTCTTTTTTGGACAAAGAAAGGACATGGTTG
CAGAGAAGCTAGCACCTTCAGAAATCACTGAGCAATTACCAGCTAGCCAGCGCATGCCCGTGAAAAAGCAGCTCCAGGGA
GCATCATGGGAGCTGCAGTCCTTAAGACCACATGATGAAGACATCAAAACTATAAATGTGAAATCCGCTTCAAGGCAAAA
GACTTCTTCAGGCATAGAACTGCATCACGATGTTTTCAACATTCTCCGTATGAATGCCTCCCAGAGTTCCACATAT

Alignment

ORF - retro_mmul_1374 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.56 %
• Parental protein coverage: 57.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DEEEKILRVKLEEDPDGEEGSSIPWNHLPDPEIFR-QRF-RQFGYQDSPGPREAVSQLRELCRLWLRPET
          .E...IL.VK.EE...G...SS..W.....PE.FR.Q.F..QF.YQDSPGP.EA.SQL.ELC.L.LRPE.
Retrocopy EECDGILTVKTEEQT-GDLDSSLHWSSSYSPETFRWQTFCSQFDYQDSPGPLEALSQLWELCHL*LRPEV

Parental  HTKEQILELVVLEQFVAILPKELQTWVRDHHPENGEEAVTVLEDLESELDDPGQPVSLRRRKREVLVEDM
          HTKEQILEL.VLEQF.AILPK.LQ.W...HHPENGEEAV..LED...ELD.PGQ.V....RK.....E..
Retrocopy HTKEQILELLVLEQFLAILPKNLQPWMQRHHPENGEEAVAMLEDVRRELDGPGQ-VFFGQRK-DMVAEKL

Parental  VSQEEAQGLPSSELDAVENQLKWASWELHSLRHCDDDGRTENGALAPKQELPSAVE-SHEVPGTLNMSVP
          ...E....LP.S....V..QL..ASWEL.SLR..D.D..T.N...A..Q...S..E..H.V...L.M...
Retrocopy APSEITEQLPASQRMPVKKQLQGASWELQSLRPHDEDIKTINVKSASRQKTSSGIELHHDVFNILRMNAS

Parental  QIFKY
          Q...Y
Retrocopy QSSTY

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	0.00 RPM	16.14 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	11.34 RPM
SRP007412_cerebellum	0.00 RPM	18.60 RPM
SRP007412_heart	0.00 RPM	7.95 RPM
SRP007412_kidney	0.00 RPM	13.15 RPM
SRP007412_liver	0.00 RPM	3.60 RPM
SRP007412_testis	2.68 RPM	14.14 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1374 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1374 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1374 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000009322	1 retrocopy	retro_mmul_1374 ,
Mus musculus	ENSMUSG00000051469	1 retrocopy	retro_mmus_3388,
Oryctolagus cuniculus	ENSOCUG00000029679	1 retrocopy	retro_ocun_495,