RetrogeneDB ID: retro_zmay_10

Retrocopy location

• Organism: Maize (Zea mays)
• Coordinates: 8:6457334..6458411(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GRMZM2G328094
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GRMZM2G019872
• Aliases: None
• Description: None

Sequence

>retro_zmay_10
ATGGCGACGACGGCGACGAACCGGCGGGTGATCCTCAAGGAGTACGTGGAGGGATATCCTCGCGAGGAGCACATGGAGCT
GCTCCAGGGCGCCGAGGTTCCCCTCCGCCTGACGGGCGCCGAGCCGGCCGGGTCCGTCCTCGTCAGGAACCTCTACCTCT
CCTGCGACCCCTACATGCGGCCCAAGATGTCGCGCCCGCTGCGGGAGTCCTACACGGCCGCCTTCGTCCCGGGCGACACC
ATCACAGGCTACGGCGTCGCGCGCGTGGTCGACTCCTCCGACCCGCGCCTCGCGCCCGGGGACCTCGTCTGGGGCATCAC
CGGCTGGGAGGACTACAGCGTCGTGACGCCGCCCGCCACCAGGCTCCTCTCCAAGATCTCCCACCACGGGGTCGGGGAGG
GGGCGGGCGTGCCGCTGTCCTACTACACCGGCATCCTCGGCATGCCGGGGCTCACCGCGTACGTGGGCTTCCACGAGATC
TGCGCGCCGAAGAAGGGCGAGACCGTGTTCGTGTCCGCCGCGTCCGGCGCCGTCGGCCAGCTGGTGGGCCAGTTCGCCAG
GCTCGCCGGCTGCCACGTCGTCGGCAGCGCCGGGTCCCGGGAGAAGGTGGAGCTGCTCAAGACCAGGTTCGGCTTCCACG
ACGCCTTCAACTACAAGGAGGAGCCCGACCTCGGCGCCGCGCTCAAGCGCTGCTTCCCCGACGGCATCGACATCTACTTC
GAGAACGTCGGCGGCGCCATGCTCGACGCCGTCCTGCTCAACATGCGCGTGCACGGACGGATCGCCGTCTGCGGGCTCAT
CTCGCAGTACAACCTGGCGGACGGGGAGAAGGACGCCGTGCGCAACCTCGCCGCCGTCATCTCCAAGCGCCTCCGCCTGC
AGGGGTTCATCGAGCCCGACCACAAGCACCTCTACCCGCAGTACGAGGCGTGGGTGCTGCCGTACATCAGGGACGGCACG
CTCGCCTACGTCGAGGACGTCGCCGAGGGGCTCGAGAGCGCGCCCAAGGCGCTCATAGGACTCTTCCACGGTCGCAACGT
CGGAAAGCAGCTCGTCCGCGTCGCCGACGACGAGTGA

Alignment

ORF - retro_zmay_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.42 %
• Parental protein coverage: 90.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  APDSGEVLVRNLYLSIDPYQLNRMKRSSVTHLAVEGILPGQRITTYAAGEVVASACEEYKAGDKVAGVLG
          A...G.VLVRNLYLS.DPY....M.R............PG..IT.Y....VV.S.......GD.V.G..G
Retrocopy AEPAGSVLVRNLYLSCDPYMRPKMSRP-LRESYTAAFVPGDTITGYGVARVVDSSDPRLAPGDLVWGITG

Parental  WEDYTLFKPSPAVVMSKVAD----DAAGFPLSHHINVLGTSGMTAYGGFFEVCKPVKGEKVFVSAASGSV
          WEDY....P......SK.........AG.PLS.....LG..G.TAY.GF.E.C.P.KGE.VFVSAASG.V
Retrocopy WEDYSVVTPPATRLLSKISHHGVGEGAGVPLSYYTGILGMPGLTAYVGFHEICAPKKGETVFVSAASGAV

Parental  GSLVGQFAKLAGCYVVGCAGTAAKVDLLKGKLGFDDAFNYKEEPDLKSALKRYFPDGIDIYFENVGGEML
          G.LVGQFA.LAGC.VVG.AG...KV.LLK...GF.DAFNYKEEPDL..ALKR.FPDGIDIYFENVGG.ML
Retrocopy GQLVGQFARLAGCHVVGSAGSREKVELLKTRFGFHDAFNYKEEPDLGAALKRCFPDGIDIYFENVGGAML

Parental  EAALANMNPYGRVALSGVISEY--TGGARRAVPDLLEVIYKRITIRGFFAYDFLSKFAEFNAVIGGWVRD
          .A.L.NM...GR.A..G.IS.Y....G...AV..L..VI.KR....GF...D.........A......RD
Retrocopy DAVLLNMRVHGRIAVCGLISQYNLADGEKDAVRNLAAVISKRLRLQGFIEPDHKHLYPQYEAWVLPYIRD

Parental  GKVQVLEDVSDGLESVPSAFAALFRGQNVGKKLVKLA
          G.....EDV..GLES.P.A...LF.G.NVGK.LV..A
Retrocopy GTLAYVEDVAEGLESAPKALIGLFHGRNVGKQLVRVA

Legend:

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

Expression

RNA-Seq

Zea mays was not studied using RNA-Seq expression data.

ChIP-Seq

Zea mays was not studied using ChIP-Seq data.

EST

Zea mays was not studied using EST data.

TSS

Zea mays was not studied using FANTOM5 data.

Lab

retro_zmay_10 was not experimentally validated.

Homology

Retrocopy orthology:

Zea mays 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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Zea mays	GRMZM2G019872	1 retrocopy	retro_zmay_10 ,
Setaria italica	Si008259m.g	1 retrocopy	retro_sita_21,