RetrogeneDB ID: retro_meug_1551

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold44957:5495..6442(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC39A1
• Ensembl ID: ENSMEUG00000006754
• Aliases: None
• Description: solute carrier family 39 (zinc transporter), member 1 [Source:HGNC Symbol;Acc:12876]

Sequence

>retro_meug_1551
ATGGTGCCCTGGGAAGAGTCAAAATGGCCTGTATGGCAGCCAGAAGCTGTGCCTGCAGTGCCTGTGGGGCTGGAGGTAAA
GACTGGTGCCCTGGTGGTGCTGCTGGTGCTCACTCTGTTTTTCAGCCTAGTGTCCATCTGAGTGCTTCGATGTTCCAGTG
CCAACTTTGAGGCCTCAGCCTCCAGAAAGAAAATCCTGAGCCTGGTGAGCTGCTTTGCTGATGGTGTTTTTCTGGTCACC
TGTCTCTTGGACTTGCTTCCAGGCTACCTGGCTGCCATAGATGAGGCTCTGAGTGCCCTCCGAATCACACTTCAGTTTCC
ACTGCAGGAGTTCATTCTTGCCATGGGTTTTTTCCTGGTTCTGGTGATGTAGCAGATTATGCTAGCCTACAAAGAACAAT
CAGGGTCCCTTCCAAGAGAGGAGACTCGAGCACTCCAGGGCACATCGGGGAGTGCACCTCCCCACTGGCATGATGGACTC
ACATCTCATGGGACTTCTCCTACCCCTTCAGACTTAATGGCCTGTGTTCTGGTATTCTCACTTTCCCTACACTCGGTATT
TGAAGGGCTTGCTGTGGGGCTGCAGTGGGAGCAAGCCTGGGCAATGGAGCTGTGTCTGGCACTGCTCTTGCACAAAGGGG
TACTAGCTGTCAGTCTGTCCTTATGGCTACTGCAGATCATGCAGGAGTGGTGGCCATTTGTGGGGTCCTCTTCTCCTGCA
TGACACCATTGGGGATTGGGCTGGAGGCTGCGCTAGCAGAGTCAGCAGAGCCTCTGCACCAGCTGGCACAATCAGTACTG
GAAGGCATGACAGCAGGCACCTTCCTCTATATTACGTTCCTGGAGATCTTGCCCCTGGAACTGACTGCTTTTGAGCAGAG
GATCCTCAAGATCATCCTACTTCTGGCTGGTTTTGTTCTTCTCACTGGTCTGCTTTTTATTCATGTT

Alignment

ORF - retro_meug_1551 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVPWEEPERLVWRPEAVPAVPVGLEVKIGALLVLLVLTLFCSLVPICVLRRPSANFEASASRKKILSLVS
          MVPWEE....VW.PEAVPAVPVGLEVK.GAL.VLLVLTLF.SLV.I.VLR..SANFEASASRKKILSLVS
Retrocopy MVPWEESKWPVWQPEAVPAVPVGLEVKTGALVVLLVLTLFFSLVSI*VLRCSSANFEASASRKKILSLVS

Parental  CFAGGVFLATCLLDLLPDYLAAIDEALSALRITLQFPLQEFILAMGFFLVLVMEQIVLAYKEQSGPLPRE
          CFA.GVFL.TCLLDLLP.YLAAIDEALSALRITLQFPLQEFILAMGFFLVLVM.QI.LAYKEQSG.LPRE
Retrocopy CFADGVFLVTCLLDLLPGYLAAIDEALSALRITLQFPLQEFILAMGFFLVLVM*QIMLAYKEQSGSLPRE

Parental  ETRALLGTSGSAPPHWHDGPTADGTSPTPSALRACVLVFSLSLHSVFEGLAVGLQRERARAMELCLALLL
          ETRAL.GTSGSAPPHWHDG.T..GTSPTPS.L.ACVLVFSLSLHSVFEGLAVGLQ.E.A.AMELCLALLL
Retrocopy ETRALQGTSGSAPPHWHDGLTSHGTSPTPSDLMACVLVFSLSLHSVFEGLAVGLQWEQAWAMELCLALLL

Parental  HKGVLAVSLSLRLLQSRL-RGGVVAICGVLFSCMTPLGIGLGAALAESAGPLHQLAQSVLEGMAAGTFLY
          HKGV.....SL.L........GVVAICGVLFSCMTPLGIGL.AALAESA.PLHQLAQSVLEGM.AGTFLY
Retrocopy HKGV--LAVSLSLWLLQI<HAGVVAICGVLFSCMTPLGIGLEAALAESAEPLHQLAQSVLEGMTAGTFLY

Parental  ITFLEILPQELAASEQRILKVILLLAGFALLTGLLFIRV
          ITFLEILP.EL.A.EQRILK.ILLLAGF.LLTGLLFI.V
Retrocopy ITFLEILPLELTAFEQRILKIILLLAGFVLLTGLLFIHV

Legend:

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

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1551 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1551 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010006	1 retrocopy	retro_cjac_1476,
Macropus eugenii	ENSMEUG00000006754	1 retrocopy	retro_meug_1551 ,
Microcebus murinus	ENSMICG00000010310	1 retrocopy	retro_mmur_162,
Myotis lucifugus	ENSMLUG00000013282	1 retrocopy	retro_mluc_2366,
Macaca mulatta	ENSMMUG00000005007	1 retrocopy	retro_mmul_28,
Mus musculus	ENSMUSG00000052310	1 retrocopy	retro_mmus_1899,
Oryctolagus cuniculus	ENSOCUG00000003045	1 retrocopy	retro_ocun_1792,