RetrogeneDB ID: retro_meug_426

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold112875:3154..3796(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ELAVL4
• Ensembl ID: ENSMEUG00000007145
• Aliases: None
• Description: ELAV (embryonic lethal, abnormal vision, Drosophila)-like 4 [Source:HGNC Symbol;Acc:3315]

Sequence

>retro_meug_426
GCAGCTCCTTCTGGCCCCAAGACCAATCTGATCGTCAATCATCTGCCACCCAGCATGACCCAAGAGGAATTCTACAGACT
GTTTGCCGGTATGGGTGAGATCCGATGCTACAAATTAATGCGGGACAAGGTGACAGGCCAGAGCCTAGGCTATGGCTTTA
TTGACTATGTGCACGCCAGGGATGCAGAGAAGGCCATCTACTTGATGAATGGGGTTCAGTGCTTGTCCAAAACCATCAAG
GTGTCTTATGCTAGGCCCCTCTCATCCTCCATCCAATATGCCAATCTCTACGTCAGTGGCCTGCCTAAGACTATGACACG
GAATGAGCTAGAACAGCTCTTCTCTCCCTTTGGGCACATTGTAGCATCAAAAATCCTGGCAGACAGGTTCAGTGGGGCCT
CCCAGGGTGTGGCCTTCATCCGCTTTAATACCAGATCAGAGGCTGAGCAAGCCATCAAGGCCCTCAATGGCCAGAAGCCC
AGCAGCTTCCCAGAGCCTCTCGTGGTCAAGTTTGCTCATCACCAGACCCTGAAGACCCCTCAAAGCCTGCTGTGGCAGCC
TCCCCAGGATGACCATGGGCCACTGCAACCTCAAACCTCAAGGCTGGAGCCAAACAACTTCTCACCCTCCTCTTTTGATG
TC

Alignment

ORF - retro_meug_426 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.34 %
• Parental protein coverage: 57.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ATTDDSKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLN
          A.....KTNLIVN.LP..MTQEEF..LF...GEI...KL.RDK.TGQSLGYGF..Y....DAEKAI...N
Retrocopy AAPSGPKTNLIVNHLPPSMTQEEFYRLFAGMGEIRCYKLMRDKVTGQSLGYGFIDYVHARDAEKAIYLMN

Parental  GLRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFI
          G.....KTIKVSYARP.S.SI..ANLYVSGLPKTMT..ELEQLFS..G.I..S.IL.D...G.S.GV.FI
Retrocopy GVQCLSKTIKVSYARPLSSSIQYANLYVSGLPKTMTRNELEQLFSPFGHIVASKILADRFSGASQGVAFI

Parental  RFDKRIEAEEAIKGLNGQKPSGATEPITVKFANNPSQKTSQALLSQLYQSPNRRYPGPLHHQAQRFRLDN
          RF..R.EAE.AIK.LNGQKPS...EP..VKFA.....KT.Q.LL.Q....P.....GPL..Q..R....N
Retrocopy RFNTRSEAEQAIKALNGQKPSSFPEPLVVKFAHHQTLKTPQSLLWQ----PPQDDHGPLQPQTSRLEPNN

Parental  LLNMAYGV
          .......V
Retrocopy FSPSSFDV

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_426 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_426 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 5 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002464	1 retrocopy	retro_chof_1943,
Cavia porcellus	ENSCPOG00000002044	1 retrocopy	retro_cpor_1379,
Macropus eugenii	ENSMEUG00000007145	1 retrocopy	retro_meug_426 ,
Macropus eugenii	ENSMEUG00000007905	6 retrocopies	retro_meug_1165, retro_meug_1229, retro_meug_1274, retro_meug_1343, retro_meug_419, retro_meug_987,
Sarcophilus harrisii	ENSSHAG00000013832	1 retrocopy	retro_shar_78,