RetrogeneDB ID: retro_mluc_2452

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430437:155447..156172(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TTC35
• Ensembl ID: ENSMLUG00000013258
• Aliases: None
• Description: None

Sequence

>retro_mluc_2452
AGAAATTAGAGGAAAGAAAACTCATAAAATTGTCAGAAATTATGAGAGTTAAACAGGAATTTATTAATGGACATGCTACT
AAGCTTGGAGCTGGTATTTGGATCTATATGAACAGGTGATAGTGCAGCGCTAGACTATGGGCAGGATGACTTGGCTTGGC
TTGGCTTGGCTAAGGAGTTGGGAAGACAGTTCTCTGGCAGTCACAGCATCAAGCACTAACTGGCATGAGATTTGCAGCCA
TGGAAAGATACGATGATGCTGTACAGCTGTATGATCTAATCTTACATGAAGGTCCAACTAACACTGCACCGGGAAAGCAT
AAGATTGCCACTCTAAAAGCCCAGGGAAAGTGTGGAGGCCATTCGAGAAGTGAATGAGTGTCTGGAACAATTTGTTGGAG
ACCAAGAAACCTGGCCTGAATGTGTATGGCTTCTTATCAATGAACATGACCATGCTAAAGCAGCCTTTTCCTTGGAGGGG
CTTATGCTGACTAATCCACAAACCATGTACACTGTCAGCAGTACGCTGAGGTGAAACACACCCAAGGAGGACTTGAACTT
TTAAGAAAGTGTTTTGCACAGGCATTGACACTGAACAGCAGAAATATGAGAGCTTTGTTTGGACTTTACATATGAGCAAG
TCATATTGCTTCTAATCCAAAACCAAGTAAAAAAAAAAAAAAAGACACCATGAAATATGCTAGTTGGGCAGCTAGTCAAA
TAAAC

Alignment

ORF - retro_mluc_2452 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.93 %
• Parental protein coverage: 82.83 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  RKWRDENSRNSE-QIVEVGEELINEYASKLGDDIWI-IYEQVMI-AALDYGRDDLALFCL-QELRRQFPG
          R..R.ENS.N....I..V..E.IN..A.KLG..IWI..YEQV...AALDYG.D.........EL.RQF.G
Retrocopy RN*RKENS*NCQ<EIMRVKQEFINGHATKLGAGIWI<LYEQVIV<AALDYGQDXXXXXXXXKELGRQFSG

Parental  SHRVKR-LTGMRFEAMERYDDAIQLYDRILHEDPTNTAARKRKIAIRKAQ-GK-NVEAIRELNEYLEQFV
          SH..K..LTGMRF.AMERYDDA.QLYD.ILHE.PTNTA..K.KIA..KAQ.GK..VEAIRE.NE.LEQFV
Retrocopy SHSIKH<LTGMRFAAMERYDDAVQLYDLILHEGPTNTAPGKHKIATLKAQ<GK<SVEAIREVNECLEQFV

Parental  GDQEAWHELAELYINEHDYAKAAFCLEELMMTNPH-NHLYCQQYAEVKYTQGGLENLELSRKYFAQALKL
          GDQE.W.E...L.INEHD.AKAAF.LE.LM.TNP..NH..CQQYAEVK.TQGG...LEL.RK.FAQAL.L
Retrocopy GDQETWPECVWLLINEHDHAKAAFSLEGLMLTNPQ<NHVHCQQYAEVKHTQGG---LELLRKCFAQALTL

Parental  NNRNMRALFGLYMSASHIASNPKASAKTKKDNMKYASWAASQIN
          N.RNMRALFGLY..ASHIASNPK.S.....D.MKYASWAASQIN
Retrocopy NSRNMRALFGLYI*ASHIASNPKPSXXXXXDTMKYASWAASQIN

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_2452 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012826	1 retrocopy	retro_amel_600,
Canis familiaris	ENSCAFG00000000713	1 retrocopy	retro_cfam_726,
Choloepus hoffmanni	ENSCHOG00000011271	3 retrocopies	retro_chof_1512, retro_chof_1990, retro_chof_851,
Callithrix jacchus	ENSCJAG00000006437	2 retrocopies	retro_cjac_3295, retro_cjac_3867,
Myotis lucifugus	ENSMLUG00000013258	2 retrocopies	retro_mluc_2369, retro_mluc_2452 ,
Mustela putorius furo	ENSMPUG00000005915	1 retrocopy	retro_mputfur_1647,
Mus musculus	ENSMUSG00000022337	1 retrocopy	retro_mmus_1262,
Oryctolagus cuniculus	ENSOCUG00000002461	1 retrocopy	retro_ocun_1251,
Pongo abelii	ENSPPYG00000018820	1 retrocopy	retro_pabe_1600,