RetrogeneDB ID: retro_mluc_1116

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429796:9390458..9391994(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PDZK1
• Ensembl ID: ENSMLUG00000028785
• Aliases: None
• Description: None

Sequence

>retro_mluc_1116
ATGGCCTCCACCTTCAACCCCCGGGAGTGTAAGCTGTCTAAACAAGAAGGCCAGAGCTATGGCTTCTTCCTGCGGATTGA
GAAGGACACTGACGGCCACCTGGTGTGGGTGGTGGAGAAGGGCAGCCCTGCAGAGCGGGTGGGGCTCCAGGATGGAGACA
GAGTTCTCAGTATCAACGGCGTCTTTGTGGACAAGGAAGAACATAAACAGGTGGTGGATCTGGTCTGAAACAGCGGGAAT
TCAGTGACTTTTCTAGTTCTGGATGGGGATTCCTATGAGAAAGCCATGAGAGAAAAGGTAGACTTGAAAGAGTTGGGTCA
GAGTCAGAAGCGGCCAAGTCTGAATGATAAGAAACTGCCCTCTGTGATGAATGGAGGAGCCCAGGCGTGGACCCAGCTAC
GGCTCTGCTACCTGGTGAAGGAGGGGAGCAACTTTGGCTTTTCTCTGAAGACCGTCCAAGGTATAAAGGGGGTGTACATG
ACTGATATCACCCCGCAAGGTGTGGCTATGAAAGCAGGTGTCCTGGCGGATGATCACTTGATCGAGGTGAATGGAGAGAA
TGTAGAAGTTGCCACTCAGGAGGAAGTGGTTGAAAAGGTGAGGAAATCAGGAAGCCGTGTCACGTTCCTGCTGGTGGACA
AGGAAATGGACCAGCACCATAGAGAGCAGAATATCAAACTCAAGAGAGAAACAGCCAGTTTGAAATTACTGCCCCACCAG
CCCCAGGTGGTTGAGATGAAGAAGGGAAGCAATGGCTATGGTTTCTACCTGAGGGCAGGCCTGGAGCAGAGAGGTCAATT
CATCAAAGACATAGATTCTGGAAGTCCAGCAGAGGAGGCTGGCTTGAAGGCCAACGACCTGGTAATTGCTGTCAACGGCG
AGTCTGTGGAATCCCTCAATCATGACAGCGTGGTGGAGATGATCAGGAAGAGTGGAGATCAGACTTCACTGTTGGCAGTA
GACAAAGAGACGGACAGCATATACAGGCTGGCTCATTTTTCTCCATTTCTCTACTATCAAAGTCAACAACTGCCTAATGA
TTCTGTCAAGGAGGCCCTGGTTCCTGCGCCTGCGCCTCTGGCCAGCTCAAGTCCAGATCATAAGCCTAAGCTGTGCAGGC
TGGTTAAAGGTGACAATGGCTACGGCTTCCACTTAAATGCGATTCGGGGTCAGCCAGGCCCATTTGTCGAAGAGGTGCAG
GAGGGCAGCCCTGCCCAGCTGGCAGGGCTAGAGGATGAGGACGTCATCATTGAAGTGAATGGGGTGAATGTGCTGGACGA
ACCCTTTGAGAAGGTGGTAGACAGAATCCAGAGCAGTGGGAAGAATGTCACGCTCTTAGTCTGTGGAAAGAAGGCCTACG
ATTATTTCCAGGCAAAGAAAATCCCTATTGTTTCCTCCATGGCTGACCCACTGGATGTACCCCTTGATTCCAAAGAAGAA
ACATGGGTGGAGTCAGAGCTCGACTCACACATGGCAAAAGAACGAGCCCACAGTACAGCCTCGCAGTCTTCTTCCAATTC
TGAGGATACAAGGATA

Alignment

ORF - retro_mluc_1116 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.95 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASTFSPRECKLSKPEGQSYGFFLRIEKDTDGHLVRVVEKGSPAERAGLQDGDRVLRINGVFVDKEEHKQ
          MASTF.PRECKLSK.EGQSYGFFLRIEKDTDGHLV.VVEKGSPAER.GLQDGDRVL.INGVFVDKEEHKQ
Retrocopy MASTFNPRECKLSKQEGQSYGFFLRIEKDTDGHLVWVVEKGSPAERVGLQDGDRVLSINGVFVDKEEHKQ

Parental  VVDLIRNSGNSVTFLVLDGDSYEKAMREKVDLKELGQSQKGPSLNDKKLPPVMNGGAQAWTQPRLCYLVK
          VVDL..NSGNSVTFLVLDGDSYEKAMREKVDLKELGQSQK.PSLNDKKLP.VMNGGAQAWTQ.RLCYLVK
Retrocopy VVDLV*NSGNSVTFLVLDGDSYEKAMREKVDLKELGQSQKRPSLNDKKLPSVMNGGAQAWTQLRLCYLVK

Parental  EGGSFGFSLKTVQGIKGVYMTDITPQGVAMKAGVLADDHLIEVNGENVEDATHEEVVEKVRKSGSRVTFL
          EG..FGFSLKTVQGIKGVYMTDITPQGVAMKAGVLADDHLIEVNGENVE.AT.EEVVEKVRKSGSRVTFL
Retrocopy EGSNFGFSLKTVQGIKGVYMTDITPQGVAMKAGVLADDHLIEVNGENVEVATQEEVVEKVRKSGSRVTFL

Parental  LVDKETDQHHRELNIKLKRETASLKLLPHQPRVVEMKKGSNGYGFYLRAGPEQRGQFIKDIDSGSPAEEA
          LVDKE.DQHHRE.NIKLKRETASLKLLPHQP.VVEMKKGSNGYGFYLRAG.EQRGQFIKDIDSGSPAEEA
Retrocopy LVDKEMDQHHREQNIKLKRETASLKLLPHQPQVVEMKKGSNGYGFYLRAGLEQRGQFIKDIDSGSPAEEA

Parental  GLKANDLLIAVNGESVESLSHDSVVEMIRKSGDQTSLLVVDKETDSIYRLAHFSPFLYYQSQQLPNGSVK
          GLKANDL.IAVNGESVESL.HDSVVEMIRKSGDQTSLL.VDKETDSIYRLAHFSPFLYYQSQQLPN.SVK
Retrocopy GLKANDLVIAVNGESVESLNHDSVVEMIRKSGDQTSLLAVDKETDSIYRLAHFSPFLYYQSQQLPNDSVK

Parental  EALV--PAPLASSSPDHKPKLCRLVKGDNGYGFHLNAIRGQPGPFVKEVQEGSPAQLAGLEDEDVIIEVN
          EALV..PAPLASSSPDHKPKLCRLVKGDNGYGFHLNAIRGQPGPFV.EVQEGSPAQLAGLEDEDVIIEVN
Retrocopy EALVPAPAPLASSSPDHKPKLCRLVKGDNGYGFHLNAIRGQPGPFVEEVQEGSPAQLAGLEDEDVIIEVN

Parental  GVNVLDELYEKVIDRIQSSGKNVTLLVCGKKAYDYFQAKKIPIVSSMADPLDVPLVSKEETWVESELDSH
          GVNVLDE..EKV.DRIQSSGKNVTLLVCGKKAYDYFQAKKIPIVSSMADPLDVPL.SKEETWVESELDSH
Retrocopy GVNVLDEPFEKVVDRIQSSGKNVTLLVCGKKAYDYFQAKKIPIVSSMADPLDVPLDSKEETWVESELDSH

Parental  VAKERAHSTASQSSSNSEDTRM
          .AKERAHSTASQSSSNSEDTR.
Retrocopy MAKERAHSTASQSSSNSEDTRI

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_1116 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011153	1 retrocopy	retro_cfam_298,
Dasypus novemcinctus	ENSDNOG00000000375	2 retrocopies	retro_dnov_1158, retro_dnov_1857,
Myotis lucifugus	ENSMLUG00000028785	1 retrocopy	retro_mluc_1116 ,
Oryctolagus cuniculus	ENSOCUG00000024935	1 retrocopy	retro_ocun_133,