RetrogeneDB ID: retro_mluc_2350

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430238:373199..373892(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000027785
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SEPHS1
• Ensembl ID: ENSMLUG00000001971
• Aliases: None
• Description: None

Sequence

>retro_mluc_2350
GGACAAACAGTGTTAAACCCCTGGATTGTTTTGGGAGGAGCGGCTACAACTGTCTGCCAGCCCAATGAATTCATCGTGCC
AGATAACGCAGTGCCTGGGGACGTGCTGGTTCTGACCAAGCCCCTGGGGACGCAAGTGGCCGTGGCTGTGCACCAGTGGT
TGGATATTCCTGAAAAGTAGAATAAAATTAAACTAGTGGTCACTCAAGAAGATGTGGAGTTGGCATACCAGGAGGCGATG
ATGAATATGGCAAGGCTCAACAGAACAGCTGCTGGACTCATGCATACTTTCAATGCCCACGCTGCCACTGACATCACTGG
CTTTGGAATTCTGGGCCACGCACAGAACCTGGCTAAGCAGCAGAGGAACGAGGTGTCCTTTGTGATTCACAACCTCCCTG
TTCTGGCCAAGATGGCTGCTGTGAGCAAGGCCTGCGGAAACATGTTTGGCCTCATGCATGGGACCTGCCCGGAGACATCA
GGAGGCCTTCTAATCTGTTTACCACGTGAGCAAGCAGCTCGGTTCTGTGCAGAGATAAAGTCTCCCAAATATGGTGAAGG
TCACCAAGCATGGATTATTGGGATCGTAGAGAAGGGCAACCGTACAGCCAGAATCATAGACAAACCCCGGATCATCGAAG
TCCCACCACAGGTGGCCACTCAAAATGTGAATCCCACACCTGGTGCCACCTCT

Alignment

ORF - retro_mluc_2350 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.27 %
• Parental protein coverage: 67.15 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GQTVLNPWIVLGGVATTVCQPNEFIMPDNAVPGDVLVLTKPLGTQVAVAVHQWLDIPEKWNKIKLVVTQE
          GQTVLNPWIVLGG.ATTVCQPNEFI.PDNAVPGDVLVLTKPLGTQVAVAVHQWLDIPEK.NKIKLVVTQE
Retrocopy GQTVLNPWIVLGGAATTVCQPNEFIVPDNAVPGDVLVLTKPLGTQVAVAVHQWLDIPEK*NKIKLVVTQE

Parental  DVELAYQEAMMNMARLNRTAAGLMHTFNAHAATDITGFGILGHAQNLAKQQRNEVSFVIHNLPVLAKMAA
          DVELAYQEAMMNMARLNRTAAGLMHTFNAHAATDITGFGILGHAQNLAKQQRNEVSFVIHNLPVLAKMAA
Retrocopy DVELAYQEAMMNMARLNRTAAGLMHTFNAHAATDITGFGILGHAQNLAKQQRNEVSFVIHNLPVLAKMAA

Parental  VSKACGNMFGLMHGTCPETSGGLLICLPREQAARFCAEIKSPKYGEGHQAWIIGIVEKGNRTARIIDKPR
          VSKACGNMFGLMHGTCPETSGGLLICLPREQAARFCAEIKSPKYGEGHQAWIIGIVEKGNRTARIIDKPR
Retrocopy VSKACGNMFGLMHGTCPETSGGLLICLPREQAARFCAEIKSPKYGEGHQAWIIGIVEKGNRTARIIDKPR

Parental  IIEVAPQVATQNVNPTPGATS
          IIEV.PQVATQNVNPTPGATS
Retrocopy IIEVPPQVATQNVNPTPGATS

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_2350 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 8 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009494	2 retrocopies	retro_cjac_166, retro_cjac_2219,
Gorilla gorilla	ENSGGOG00000003806	2 retrocopies	retro_ggor_147, retro_ggor_2924,
Myotis lucifugus	ENSMLUG00000001971	2 retrocopies	retro_mluc_2350 , retro_mluc_728,
Macaca mulatta	ENSMMUG00000021233	4 retrocopies	retro_mmul_1607, retro_mmul_2495, retro_mmul_2647, retro_mmul_922,
Monodelphis domestica	ENSMODG00000016864	1 retrocopy	retro_mdom_86,
Nomascus leucogenys	ENSNLEG00000012205	7 retrocopies	retro_nleu_1868, retro_nleu_2211, retro_nleu_234, retro_nleu_2668, retro_nleu_2873, retro_nleu_3004, retro_nleu_327,
Pteropus vampyrus	ENSPVAG00000002945	2 retrocopies	retro_pvam_115, retro_pvam_566,
Rattus norvegicus	ENSRNOG00000018125	1 retrocopy	retro_rnor_59,