RetrogeneDB ID: retro_meug_1949

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold73976:15221..15659(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CARHSP1
• Ensembl ID: ENSMEUG00000016403
• Aliases: None
• Description: calcium regulated heat stable protein 1, 24kDa [Source:HGNC Symbol;Acc:17150]

Sequence

>retro_meug_1949
ATGTCAGTGGAACCTCCCCAACCACCGAAGCCCCCTACCCATCCAGCCTCTCTCCATCTACCTGATGGTCCCCGGGAAAG
GGACCGTTCTCCATCTCCTATGAGAGGGTACCTCATCCCCAGCCCCTTGCCTACCCGGAGAACCAGGACCTTTTCAGTGA
CTGTGTGAGCATCTGAGGGATCCGTGTACAAGGGGGTCTGTAAATGCTTTTGCCGCTCCAAGGGGCATGGCTTCATTACA
CCAGCTGATGGTGGCCCAGACATCTTCCTTCATATCTCTGATGTTGAAGGAGAATATGTGCTTATGGAAGGAGATGAAGT
TACCTACAAAATGTGTTCAATTCCACCCAAGAATGAGAAGCACCAGGCTGTGGAAGTTGTCATTACTCACCTGGCACCAG
GCACCAAACATGAGACCTGGTTGGGACACGTCATTAGC

Alignment

ORF - retro_meug_1949 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.21 %
• Parental protein coverage: 99.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSAEPPQPPKPPTHPASLRLPDGPRERDRSPSPMRGYLIPSPLPTRRTRTFSATVRASEGPVYKGVCKCF
          MS.EPPQPPKPPTHPASL.LPDGPRERDRSPSPMRGYLIPSPLPTRRTRTFS.TV.ASEG.VYKGVCKCF
Retrocopy MSVEPPQPPKPPTHPASLHLPDGPRERDRSPSPMRGYLIPSPLPTRRTRTFSVTV*ASEGSVYKGVCKCF

Parental  CRSKGHGFITPADGGPDIFLHISDVEGEYVPMEGDEVTYKMCSIPPKNEKHQAVEVVITHLAPGTKHETW
          CRSKGHGFITPADGGPDIFLHISDVEGEYV.MEGDEVTYKMCSIPPKNEKHQAVEVVITHLAPGTKHETW
Retrocopy CRSKGHGFITPADGGPDIFLHISDVEGEYVLMEGDEVTYKMCSIPPKNEKHQAVEVVITHLAPGTKHETW

Parental  SGHVIS
          .GHVIS
Retrocopy LGHVIS

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_1949 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1949 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017286	1 retrocopy	retro_cjac_194,
Macropus eugenii	ENSMEUG00000016403	1 retrocopy	retro_meug_1949 ,
Monodelphis domestica	ENSMODG00000005721	1 retrocopy	retro_mdom_12,
Mus musculus	ENSMUSG00000008393	1 retrocopy	retro_mmus_88,
Rattus norvegicus	ENSRNOG00000002610	1 retrocopy	retro_rnor_1025,