RetrogeneDB ID: retro_mluc_2137

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430057:1533458..1533971(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PSMD8
• Ensembl ID: ENSMLUG00000009902
• Aliases: None
• Description: None

Sequence

>retro_mluc_2137
GAACAGCTCCCTGAGTCAGCGTGCATACACCAGCTCTTGGGCCATAACCTTCTCTTCCTGCTGCCTCAGAACTGGGTGGC
TGAGTTCCACATGGAGTGGGAGTGGCTGCCTGTCAAGGACATCCAGACCCATGTATACATCAAGCATCCTGGGCCCCTTG
AGCAATACCTAATGGAGGGCAGCAACAACAAGGTGTTCCTGGCCAAAGGCAACATCCCTGCCGAGAGGTAGACCTTCTTC
ATGGACATCCTGCTTGACACTGTCAGAGATGAGATCGCTGGATGCATGGAGAAGGCCTACGAGAAAATCCTCTTTACTGA
GGCCACCTGGATGCTCTTCTTCAGCACACCCAAAACACGACAGACTACACCAAGAAGCGAGCATGGGTCCTGGGCCTCAT
CAGCTACGACAGCTTTGCCAGTCAGCAGCAGAATCCAGAAGATAACACCATCCCCTCCACAGAGCTGGCCAAACAGGTCG
TCAAATAATGCCCGGCAGCTGGAAATGATCCTC

Alignment

ORF - retro_mluc_2137 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.19 %
• Parental protein coverage: 50.29 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EQLPESAYMHQLLGLNLLFLLSQNRVAEFHTELERLPAKDIQTNVYIKHPVSLEQYLMEGSYNKVFLAKG
          EQLPESA..HQLLG.NLLFLL.QN.VAEFH.E.E.LP.KDIQT.VYIKHP..LEQYLMEGS.NKVFLAKG
Retrocopy EQLPESACIHQLLGHNLLFLLPQNWVAEFHMEWEWLPVKDIQTHVYIKHPGPLEQYLMEGSNNKVFLAKG

Parental  NIPAESYTFFIDILLDTIRDEIAGCIEKAYEKILFTEATRILFFNTPK-KMTDYAKKRGWVLGLNNYYSF
          NIPAE..TFF.DILLDT.RDEIAGC.EKAYEKILFTEAT..LFF.TPK...TDY.KKR.WVLGL..Y.SF
Retrocopy NIPAER*TFFMDILLDTVRDEIAGCMEKAYEKILFTEATWMLFFSTPK<NTTDYTKKRAWVLGLISYDSF

Parental  ASQQQKPEDTTIPSTELAKQVIE-YARQLEMIV
          ASQQQ.PED.TIPSTELAKQV....ARQLEMI.
Retrocopy ASQQQNPEDNTIPSTELAKQVVK>NARQLEMIL

Legend:

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

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_2137 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005931	1 retrocopy	retro_cfam_2206,
Myotis lucifugus	ENSMLUG00000009902	2 retrocopies	retro_mluc_2137 , retro_mluc_2480,
Monodelphis domestica	ENSMODG00000013151	1 retrocopy	retro_mdom_58,
Sus scrofa	ENSSSCG00000002956	1 retrocopy	retro_sscr_195,
Ictidomys tridecemlineatus	ENSSTOG00000014464	1 retrocopy	retro_itri_10,