RetrogeneDB ID: retro_mdom_996

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 3:157156274..157156589(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BIRC5
• Ensembl ID: ENSMODG00000001871
• Aliases: None
• Description: baculoviral IAP repeat containing 5 [Source:HGNC Symbol;Acc:593]

Sequence

>retro_mdom_996
ATCTCTACCTTCCAGAACTGGCCCTTTATGGAGGACTGCACCTGCACACCAGAGAAGATGGCTGAAGCTGGGTTCATCCA
TTGCCCAAGTGAGAATGAGCCTGATTTAGCCCAGTACTTCTTCTGTTCCAAAGAATTAGAGGGCTGGGAACCAGAAGTCA
TGTTGGAACATAAAAAGCACTCATCTATTTGTGACTTCATTGGCATTAAGAAGAAGATTGAATATTTAGCACTCAATGAA
TTCTTGAAATTGGAGAAAGAGAGAGCCAAAAACAAGATTGAAAAGGAAAGCTCCCAGAAAATAATTTCATTTGAA

Alignment

ORF - retro_mdom_996 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.24 %
• Parental protein coverage: 71.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ISTFQNWPFTEDCACTPERMAEAGFIHCPSENEPDLAQCFFCFKELEGWEPEDDPMLEHKKHSSSCAFIS
          ISTFQNWPF.EDC.CTPE.MAEAGFIHCPSENEPDLAQ.FFC.KELEGWEPE...MLEHKKHSS.C.FI.
Retrocopy ISTFQNWPFMEDCTCTPEKMAEAGFIHCPSENEPDLAQYFFCSKELEGWEPE--VMLEHKKHSSICDFIG

Parental  IKKKIEDLTLNEFLKLDKERAKNKIEKETSRKRTEFE
          IKKKIE.L.LNEFLKL.KERAKNKIEKE.S.K...FE
Retrocopy IKKKIEYLALNEFLKLEKERAKNKIEKESSQKIISFE

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	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.00 RPM	0.00 RPM

ChIP-Seq

Monodelphis domestica was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mdom_996 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_996 was not experimentally validated.

Homology

Retrocopy orthology:

Monodelphis domestica 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000013573	1 retrocopy	retro_btau_1347,
Cavia porcellus	ENSCPOG00000027390	1 retrocopy	retro_cpor_1355,
Equus caballus	ENSECAG00000008466	1 retrocopy	retro_ecab_100,
Myotis lucifugus	ENSMLUG00000006281	1 retrocopy	retro_mluc_254,
Macaca mulatta	ENSMMUG00000013767	1 retrocopy	retro_mmul_19,
Monodelphis domestica	ENSMODG00000001871	2 retrocopies	retro_mdom_307, retro_mdom_996 ,