RetrogeneDB ID: retro_mdom_107

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 3:160211387..160212578(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMODG00000009120
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMODG00000009035
• Aliases: None
• Description: None

Sequence

>retro_mdom_107
ATGAGGTTAGTGAGGTACCTGCGACGGGCCGTGACGGCCAGCCCAGGCCCGGGCCCAGGTCCTAGCCCAAACCCGGGTCC
TGGTGCCGGCCCCGAACGCAGCGTCCCCGGCCCGGTGGATTTCTACTCGCGCTTCTCCCCGTCCCCGCTCTCCATGAAGC
AGTTTCTGGACTTCGGATCTGTGAATGCATGTGAAAAGACCTCATTTATGTTTTTGCGGCAAGAGTTGCCAGTGCGATTG
GCAAACATAATGAAAGAAATAAGTCTTCTTCCAGATAATCTTCTAAGAACACCTTCAGTTCAACTGGTACAGAGCTGGTA
TATTCAGAGTCTACAAGAACTCCTTTATTTTAAAAATAAAAGTGCTGAAGATGCAAAAGCTGTTTATGACTTTACAGATA
CTGTGATAAGAATCCGAAATCGACATAATGATGTCATTCCTACCATGGCTCAGGGTGTGATTGAATACAAGGAAAGCTTT
GGTGTGGATCCAGTGACCAGCCAGAATGTACAGTATTTTTTGGATCGTTTTTACATGAGTCGCATTTCAATCAGAATGCT
ACTTAATCAGCACTCCTTACTATTTGGTGGAAAAGGAAAAGGAAGTTCAACTCACCGAAAACACATTGGAAGCATTAATC
CAAATTGTAATGTTGTCGAAGTTATTAAAGATGGCTATGAAAATGCAAAGCGTCTTTGTGATTTGTATTATGTTAATTCT
CCAGAACTAGAACTTGAAGAATTAAATGCAAAATCACCAGGACAACCAATGCAAGTGGTTTATGTACCATCACATCTCTA
TCACATGGTGTTTGAACTTTTCAAGATGAGTGATCGTGGAGGTGGTGTTCCTTTGAGGAAAATTGATAGACTTTTCAACT
ACATGTATTCAACTGCACCCCGACCTCGTGTTGAGACATCTCGAGCTGTGCCCCTGGCTGGTTTTGGTTATGGATTGCCA
ATATCTCGGCTCTATGCACAGTACTTTCAAGGAGACCTGAAATTGTATTCCTTAGAAGGTTATGGGACAGATGCTGTTAT
TTACATTAAGGCCCTATCAACAGAGTCAGTGGAGAGGCTCCCAGTGTACAATAAAGCTGCTTGGAAACATTATAATACCA
ATCATGAGGCAGATGACTGGTGTGTGCCAAGCAGTGAACCAAAGGACATGACCACATTTCGCAGTGTATAA

Alignment

ORF - retro_mdom_107 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.49 %
• Parental protein coverage: 64.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRLVRYLRRAVSASPGPGPGPSPNPGPGAGPERSVPGPVDFYSRFSPSPLSMKQFLDFGSVNACEKTSFM
          MRLVRYLRRAV.ASPGPGPGPSPNPGPGAGPERSVPGPVDFYSRFSPSPLSMKQFLDFGSVNACEKTSFM
Retrocopy MRLVRYLRRAVTASPGPGPGPSPNPGPGAGPERSVPGPVDFYSRFSPSPLSMKQFLDFGSVNACEKTSFM

Parental  FLRQELPVRLANIMKEISLLPDNLLRTPSVQLVQSWYIQSLQELLYFKNKSAEDAKAVYDFTDTVIRIRN
          FLRQELPVRLANIMKEISLLPDNLLRTPSVQLVQSWYIQSLQELLYFKNKSAEDAKAVYDFTDTVIRIRN
Retrocopy FLRQELPVRLANIMKEISLLPDNLLRTPSVQLVQSWYIQSLQELLYFKNKSAEDAKAVYDFTDTVIRIRN

Parental  RHNDVIPTMAQ-CDEYKESFGVDPVTSQNVQYFLDRFYMSRISIRMLLNQHSLLFGGKGKGSSTHRKHIG
          RHNDVIPTMAQ...EYKESFGVDPVTSQNVQYFLDRFYMSRISIRMLLNQHSLLFGGKGKGSSTHRKHIG
Retrocopy RHNDVIPTMAQGVIEYKESFGVDPVTSQNVQYFLDRFYMSRISIRMLLNQHSLLFGGKGKGSSTHRKHIG

Parental  SINPNCNVVEVIKDGYENAKRLCDLYYVNSPELELEELNAKSPGQPMQVVYVPSHLYHMVFELFKNAMR
          SINPNCNVVEVIKDGYENAKRLCDLYYVNSPELELEELNAKSPGQPMQVVYVPSHLYHMVFELFK...R
Retrocopy SINPNCNVVEVIKDGYENAKRLCDLYYVNSPELELEELNAKSPGQPMQVVYVPSHLYHMVFELFKMSDR

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_107 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_107 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007507	1 retrocopy	retro_cjac_4090,
Cavia porcellus	ENSCPOG00000008434	1 retrocopy	retro_cpor_545,
Macaca mulatta	ENSMMUG00000022553	1 retrocopy	retro_mmul_2511,
Monodelphis domestica	ENSMODG00000001837	1 retrocopy	retro_mdom_1033,
Monodelphis domestica	ENSMODG00000009035	2 retrocopies	retro_mdom_107 , retro_mdom_1447,
Otolemur garnettii	ENSOGAG00000014761	1 retrocopy	retro_ogar_509,