RetrogeneDB ID: retro_mluc_1309

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429817:6131636..6132476(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RSL1D1
• Ensembl ID: ENSMLUG00000000784
• Aliases: None
• Description: None

Sequence

>retro_mluc_1309
GCTTCAGCACCACCTGCAGCCTCAACAGCAACTCCAGCCTCGACCTCAGCAACCCCGGCCGCACTAGGGCAGCTGGATGA
AGAGCAGACCAGAAAGGCAGTGAAAGCTCTGTTGGCACATTCCAGGTCCAGGAAAAACGCGAATGGATTGCTTTTGAATG
AGAATGAAAAAAATTTTTTAATGGTGGTATTATGGAAAATTCCAAGTAAAGAACTGAGGGTCAGATTGTCCTTGCCTCAT
GGCATTCAGTCAGATTTAGCAGTTGTCTGTTTATTTACTAAGGACGAACCCAATGTAACTCCTGAAAAGATGGAACATTT
TTATAAGAAGCTTCTAAACAAGCATGGAATAAAAACCATTTCTCAGATTATCCCCCTCCGAACTTTAAAAAAGGAGTATA
AAGCCTATGAGGCCAAGCTCCACCTCCTGGGTAGTTTCAACTTGTTCCTTTCTGATGCAAGAATCCAGCGGCTTTTACCC
TCACACCTCGGGAGACATTTCTATAAGAGAAAGAAAGTTCCAATACCTGTCAATCTGAAAGCCAAGAATCTTTCCCAAGA
AATCAACTCATCAATAGGTGGAACTGTCTTAAACATCTCTAAAAGTGGTTCTTACAGCACTATCCGCATCGGTCACACTG
GAATGCAGGTTCAGAACATCACTGAAAACATTCTTGCTGCTACAAAAAAGCTTTCACAGAAATTGCCAGAGAAGTGGGAG
AGTGTGAAACTCTTGTACGTGAAAACTGAGAGATCAGTTGCCCTTCCTATCTTTTCTTCATTTGTCAGCAGTTGGGATGA
AGCTAAAGGAGTGAACATTTCTAGTCTGAAGAAACAAGAA

Alignment

ORF - retro_mluc_1309 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.07 %
• Parental protein coverage: 56.22 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ASTATPASTATPASTSATPAALGQLDEEQTRKAVKTLLAHSRSRKNANGLLLNENENFFLMVVLWKIPSK
          AS....ASTATPASTSATPAALGQLDEEQTRKAVK.LLAHSRSRKNANGLLLNENE..FLMVVLWKIPSK
Retrocopy ASAPPAASTATPASTSATPAALGQLDEEQTRKAVKALLAHSRSRKNANGLLLNENEKNFLMVVLWKIPSK

Parental  ELRVRLPLPHGIRSDLADVCLFTKDEPNATPEKTERFYKKLLNKHGIKTISQIIPLRTLKKEYKAYEAKL
          ELRVRL.LPHGI.SDLA.VCLFTKDEPN.TPEK.E.FYKKLLNKHGIKTISQIIPLRTLKKEYKAYEAKL
Retrocopy ELRVRLSLPHGIQSDLAVVCLFTKDEPNVTPEKMEHFYKKLLNKHGIKTISQIIPLRTLKKEYKAYEAKL

Parental  RLLGSFDLFLSDARIRRLLPSHLGRHFYKRKKVPVPVNLKAKNLSQEINSSIGGTVLNISKSGSCSTIRI
          .LLGSF.LFLSDARI.RLLPSHLGRHFYKRKKVP.PVNLKAKNLSQEINSSIGGTVLNISKSGS.STIRI
Retrocopy HLLGSFNLFLSDARIQRLLPSHLGRHFYKRKKVPIPVNLKAKNLSQEINSSIGGTVLNISKSGSYSTIRI

Parental  GHTGMQVQHIIENILAVTKKLSQKLPEKWESVKLLYVKTERSVSLPIFSSFVSSWGEAKGVNISRLKKEE
          GHTGMQVQ.I.ENILA.TKKLSQKLPEKWESVKLLYVKTERSV.LPIFSSFVSSW.EAKGVNIS.LKK.E
Retrocopy GHTGMQVQNITENILAATKKLSQKLPEKWESVKLLYVKTERSVALPIFSSFVSSWDEAKGVNISSLKKQE

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_1309 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 10 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018865	2 retrocopies	retro_cfam_1937, retro_cfam_691,
Choloepus hoffmanni	ENSCHOG00000010827	2 retrocopies	retro_chof_1617, retro_chof_852,
Callithrix jacchus	ENSCJAG00000008375	1 retrocopy	retro_cjac_2154,
Cavia porcellus	ENSCPOG00000010630	3 retrocopies	retro_cpor_1262, retro_cpor_276, retro_cpor_822,
Loxodonta africana	ENSLAFG00000013664	1 retrocopy	retro_lafr_364,
Myotis lucifugus	ENSMLUG00000000784	1 retrocopy	retro_mluc_1309 ,
Monodelphis domestica	ENSMODG00000029494	2 retrocopies	retro_mdom_1240, retro_mdom_573,
Otolemur garnettii	ENSOGAG00000015151	1 retrocopy	retro_ogar_2604,
Rattus norvegicus	ENSRNOG00000048608	1 retrocopy	retro_rnor_2771,
Sarcophilus harrisii	ENSSHAG00000016705	1 retrocopy	retro_shar_836,