RetrogeneDB ID: retro_mluc_1031

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429789:4345932..4346396(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PLEKHA3
• Ensembl ID: ENSMLUG00000005823
• Aliases: None
• Description: None

Sequence

>retro_mluc_1031
ATTCATATAATTCAAGAATTTGTTCACCATGATGAAGATCATTCATCTCCCAACATAGAGAACATGAATGAAGCCTCTTC
TCTACTTAGTGCCACATGTAATACGTTTATCACAACGCTTGAGGAATATGTGAAGAGAGCAAATGCTAAGTTTAAACCTG
AGATGTTTCAGCTGTGCCATCCAGATTCCTTAGTTTCTCCTGTGTCATCCTTTCTGGTTCAAATGATGACGCTGTCTACG
AGTCACCCCTGCTCTTGCAGTTCAGAGAGGAGTAGCCACTCTGTAAAAGAACTTGTGGTTATATTTCACCCACTCTCCCA
GTGAGCTGAAGAACCTACTTGGATACACCTTGCAATGATATCCCTCATTTATACCCAGATAGGCCTGTTCACTGTTCAAG
AAATACACTTATCGGAGATTTGGCATCAGCAACCATTCCTGAAGAAAGACTTATGGCCAAAAAA

Alignment

ORF - retro_mluc_1031 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.85 %
• Parental protein coverage: 53.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VHTIQEFVHHDENHSSPSIENMNEASSLLSATCNTFITTLEECVKIANAKFKPEMFQLSHPDPLVSPVSP
          .H.IQEFVHHDE.HSSP.IENMNEASSLLSATCNTFITTLEE.VK.ANAKFKPEMFQL.HPD.LVSPVS.
Retrocopy IHIIQEFVHHDEDHSSPNIENMNEASSLLSATCNTFITTLEEYVKRANAKFKPEMFQLCHPDSLVSPVSS

Parental  SPVQMMKRSVSHPGPCSSERSSHSIKEPASTLHRLSQRRR-RTYSDTDSCNDIPLEDPDRPVHCSRNTLN
          ..VQMM..S.SHP..CSSERSSHS.KE.....H.LSQ....RTY.DT..CNDIP...PDRPVHCSRNTL.
Retrocopy FLVQMMTLSTSHPCSCSSERSSHSVKELVVIFHPLSQ*AE<RTYLDT-PCNDIPHLYPDRPVHCSRNTLI

Parental  GDLASATIPEESRLMAKK
          GDLASATIPEE.RLMAKK
Retrocopy GDLASATIPEE-RLMAKK

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_1031 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 15 parental genes, and 30 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013997	5 retrocopies	retro_chof_1366, retro_chof_1559, retro_chof_300, retro_chof_736, retro_chof_985,
Cavia porcellus	ENSCPOG00000003906	1 retrocopy	retro_cpor_487,
Dasypus novemcinctus	ENSDNOG00000002717	1 retrocopy	retro_dnov_107,
Erinaceus europaeus	ENSEEUG00000004169	1 retrocopy	retro_eeur_416,
Homo sapiens	ENSG00000116095	1 retrocopy	retro_hsap_2060,
Macropus eugenii	ENSMEUG00000015317	2 retrocopies	retro_meug_1530, retro_meug_341,
Microcebus murinus	ENSMICG00000009898	1 retrocopy	retro_mmur_617,
Myotis lucifugus	ENSMLUG00000005823	2 retrocopies	retro_mluc_1031 , retro_mluc_689,
Myotis lucifugus	ENSMLUG00000012545	5 retrocopies	retro_mluc_1056, retro_mluc_1902, retro_mluc_2135, retro_mluc_2397, retro_mluc_658,
Oryctolagus cuniculus	ENSOCUG00000005495	1 retrocopy	retro_ocun_1273,
Otolemur garnettii	ENSOGAG00000002724	1 retrocopy	retro_ogar_1845,
Tupaia belangeri	ENSTBEG00000007550	3 retrocopies	retro_tbel_4186, retro_tbel_4555, retro_tbel_4723,
Tarsius syrichta	ENSTSYG00000005341	1 retrocopy	retro_tsyr_869,
Tursiops truncatus	ENSTTRG00000009729	2 retrocopies	retro_ttru_1296, retro_ttru_1497,
Vicugna pacos	ENSVPAG00000003490	3 retrocopies	retro_vpac_487, retro_vpac_578, retro_vpac_619,