RetrogeneDB ID: retro_mluc_1278

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429813:881718..882263(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000027408
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: H1FOO
• Ensembl ID: ENSMLUG00000025226
• Aliases: None
• Description: None

Sequence

>retro_mluc_1278
GGCCCGCGCCGACATGCCATCCCACCACCACGCCGCAACCCCCCACCCTCGATGCTGCGCATGGTGCTAGAGGCGCTGCA
GGCGGGCGAGCAGCGCCGGGGCACCTCGGTGATGGCCATCAAGGTGTACATCTGCGGAAGTACCCTACGGTGGACGCCAT
CTGGCTCAAGTACCTGCTGAAGCGGGCCCTGGACACGGGCATGCAGCACGGCCTCCTCATCAGGCCCATCAACTCCAGGG
CCAGGGGTCCACTGGCAGCTTCCAATTAGTTCCCAAGCAAAACAAAACAAAAAAAATCCAACCCAGGAAGACAGCCACTG
TGTCGGCCCCCCGGAGACCTGGTGAGACCAAGGAGGAGGCCCCCAAGAAAGATGGCCAGACCAAGGGCGAAGAGGCAAGA
GGGGGCAAGGCCAGGAAGGCCCCCACCAGCCAGACAAGGCCACAGAGGCCCCTCCTGGTGCCAGCGGGCCCCTGGGAAGT
CAAAGGTTAAAGGCAAGAAGGACAGCCCAGCAGATGCCAAGGCCCACAGGAAAACCAAAGCTGGG

Alignment

ORF - retro_mluc_1278 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.28 %
• Parental protein coverage: 56.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  GPRQHAVPPPRRNPP--MLRMVLEALQEGEQRRGTSVMAIKLYI-LQKYPTVDAIRLKYLLKRALDTGMQ
          GPR.HA.PPPRRNPP..MLRMVLEALQ.GEQRRGTSVMAIK.YI.L.KYPTVDAI.LKYLLKRALDTGMQ
Retrocopy GPRRHAIPPPRRNPPPSMLRMVLEALQAGEQRRGTSVMAIKVYI<LRKYPTVDAIWLKYLLKRALDTGMQ

Parental  RGLLIRPINSRARG-ATGSFKLVPKQKKKI--QPRKTATVSAPRRPGEAKEEAPKKDGQTKGEEARGGKA
          .GLLIRPINSRARG..TGSF.LVPK.......QPRKTATVSAPRRPGE.KEEAPKKDGQTKGEEARGGKA
Retrocopy HGLLIRPINSRARG<STGSFQLVPKXXXXXXXQPRKTATVSAPRRPGETKEEAPKKDGQTKGEEARGGKA

Parental  RKAP-QQPDKATEAPPGASGP-HGKLKIKGKKDSPAQAEEQPKQRPG
          RKAP..QPDKATEAPPGASGP..GK.K.KGKKDSPA.A....K...G
Retrocopy RKAP<HQPDKATEAPPGASGP<PGKSKVKGKKDSPADAKAHRKTKAG

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_1278 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 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017209	2 retrocopies	retro_cjac_3976, retro_cjac_981,
Felis catus	ENSFCAG00000000094	2 retrocopies	retro_fcat_1139, retro_fcat_416,
Homo sapiens	ENSG00000178804	1 retrocopy	retro_hsap_2799,
Gorilla gorilla	ENSGGOG00000000735	1 retrocopy	retro_ggor_1946,
Myotis lucifugus	ENSMLUG00000025226	2 retrocopies	retro_mluc_1278 , retro_mluc_1318,
Oryctolagus cuniculus	ENSOCUG00000029379	1 retrocopy	retro_ocun_1483,
Ochotona princeps	ENSOPRG00000010371	2 retrocopies	retro_opri_403, retro_opri_624,
Pongo abelii	ENSPPYG00000013414	1 retrocopy	retro_pabe_2225,
Pan troglodytes	ENSPTRG00000015380	1 retrocopy	retro_ptro_1896,
Pteropus vampyrus	ENSPVAG00000007110	1 retrocopy	retro_pvam_808,
Tursiops truncatus	ENSTTRG00000011276	1 retrocopy	retro_ttru_1111,