RetrogeneDB ID: retro_mluc_1721

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429893:3514449..3516054(-)
• Located in intron of: ENSMLUG00000009578

Retrocopy information

• Ensembl ID: ENSMLUG00000029504
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TFIP11
• Ensembl ID: ENSMLUG00000008015
• Aliases: None
• Description: Tuftelin-interacting protein 11 [Source:UniProtKB/TrEMBL;Acc:G1PAL3]

Sequence

>retro_mluc_1721
CTGCCACTGTCCTGCAAGGAGGCCAAGGTCCCGGGCTTTGCGCTGCCGGAGCTGGAGCACAACCTGCAGCTGCTCATCGA
CCTCACGGAGCAGGAGATCATCCAGAACGACCGGCAGCTGCAGTACGAGCGGGACATGGTGGTGAACCTCTCGCATGAGA
TGGAGAAGATGTCGGAGGTGCTGGACCATGAGGAACGGGCCATCTCCAACCTCAGCAAAGTCCTGGAGCTGGTGGAGGAC
TGCGAGCGGCGCATGCAGCCCGGCTGCAGCCACCCGCTCACCCTGGACGAGTGCGCCTGCATCTTTGAGACCCTGCAGGA
CAAGTACTATGGGGAGTACCGCATGTCCGTCTGCGTGAACCTGGCTGTGGCCATCGTCTACCCGCTCATGAAGGAGTACT
TCAAGGAGTGGGACCCCCTCAAAGACTGCACCTACGGCACGAAGATCATCTCCAAGTGGAAGAGCCTCCTGGAGAACGAC
CAGCTCCTGTCGCACGGCGGCCAGGACCTCTCGGCAGATGCCTTTCACAGGCTGATATGGGAAAACTGGATGCCTTTTGT
TCGAAAAAGCGTCACCCAGTGGCAACCCCGGATCTGTGAGCCCATGGTGGACTTCCTGGATAACTGGGTGCACATTATCC
CCGTGTGGGTGCTGGACAACATCCTGGACCAGCTTATCTTCCCCAAGCTGCAGAAGGAGGTGGAGAACTGGAACCCACTC
ACGGACACCGTGCCCATCCACTCCTGGATCCTCCCGTGGCTCCCCCTCATGCAGGCACGCCTGGAGCCGCTGTACTCCCC
CATCCGCAGCAAGCTGTCCAACGCCCTGCAGAAGTGGCATCCCAGCGACTCCTCTGCCAAGCTCATCCTCCAGCCCTGGA
AAGACGTCTTCACCCCTGGCTCCTGGGAGGCCTTCATGGTCAAGAACATCGTGCCCAAGCTGGGCATGTGCCTCGGGGAG
CTGGTCATCAACCCCCACCAGCAGCACATGGATGCCTTCTACTGGGTCATGGACTGGGAAGGGATGATCTCCGTCTCCAG
CCTGGTGGGGCTCCTGGAAAAGCACTTCTTCCCCAAGTGGCTTCAGGTGCTGTGCTCCTGGCTCAGTAACAGTCCCAATT
ACGAGGAGATCACCAAGTGGTACCTGGGCTGGAAGTCCATGTTCTCAGACCAAGTGCTGGCGCACCCGTCCATCAAGGAC
AAGTTCAACGAAGTGCTGGACATCATGAACAGGGCTGTGTCCTCGAACGTCGGTGCCTACATGCAGCCCGGAGCACAAGA
AAACATGGCCTACCTCACCCACACGGAGCGGAGGAAGGACTTCCAGTACAAGGCCATGCAGGAGCGACGGGAGGCCGAGA
ACATGGCCCAGAGGGGCATTGGCGTGGCCACCAGCTCCGTGCCCATGAACTTTAAGGACCTCATTGAGACCAAGGCCGAG
GAGCACAATATCCTCTTCATGCCTGTCATCAGGAAGCGACATGAAGGGAAGCAGCTCTACACCTTCGGCCGCATCGTCAT
CTACATCGACCGGGGAGTGGTATTCGTCCAGGGTGAGAAGACCTGGGTGCCCACCTCCCTGCAGAACCTGATCGACATGG
CCAAG

Alignment

ORF - retro_mluc_1721 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.14 %
• Parental protein coverage: 63.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LPLSGKEAKAPGFALPELEHNLQLLIDLTEQEIIQNDRQLQYERDMVVNLSHELEKMSEVLDHEERAISN
          LPLS.KEAK.PGFALPELEHNLQLLIDLTEQEIIQNDRQLQYERDMVVNLSHE.EKMSEVLDHEERAISN
Retrocopy LPLSCKEAKVPGFALPELEHNLQLLIDLTEQEIIQNDRQLQYERDMVVNLSHEMEKMSEVLDHEERAISN

Parental  LSKVLELVEECERRMQPGCSHPLTLDECARIFETLQDKYYEEYRMSDRVDLAVAIVYPLMKEYFKEWDPL
          LSKVLELVE.CERRMQPGCSHPLTLDECA.IFETLQDKYY.EYRMS..V.LAVAIVYPLMKEYFKEWDPL
Retrocopy LSKVLELVEDCERRMQPGCSHPLTLDECACIFETLQDKYYGEYRMSVCVNLAVAIVYPLMKEYFKEWDPL

Parental  KDCTYGTEIISKWKSLLENDQLLSHGGQDLSADAFHRLIWEVWMPFVRNIVTQWQPRNCEPMVDFLDSWV
          KDCTYGT.IISKWKSLLENDQLLSHGGQDLSADAFHRLIWE.WMPFVR..VTQWQPR.CEPMVDFLD.WV
Retrocopy KDCTYGTKIISKWKSLLENDQLLSHGGQDLSADAFHRLIWENWMPFVRKSVTQWQPRICEPMVDFLDNWV

Parental  HIIPVWVLDNILDQLIFPKLQKEVENWNPLTDTVPIHSWIHPWLPLMQARLEPLYSPIRSKLSSALQKWH
          HIIPVWVLDNILDQLIFPKLQKEVENWNPLTDTVPIHSWI.PWLPLMQARLEPLYSPIRSKLS.ALQKWH
Retrocopy HIIPVWVLDNILDQLIFPKLQKEVENWNPLTDTVPIHSWILPWLPLMQARLEPLYSPIRSKLSNALQKWH

Parental  PSDSSAKLILQPWKDVFTPGSWEAFMVKNIVPKLGMCLGELVINPHQQHMDAFYWVIDWEGMISVSSLVG
          PSDSSAKLILQPWKDVFTPGSWEAFMVKNIVPKLGMCLGELVINPHQQHMDAFYWV.DWEGMISVSSLVG
Retrocopy PSDSSAKLILQPWKDVFTPGSWEAFMVKNIVPKLGMCLGELVINPHQQHMDAFYWVMDWEGMISVSSLVG

Parental  LLEKHFFPKWLQVLCSWLSNSPNYEEITKWYLGWKSMFSDQVLAHPSIKDKFNEALDIMNRAVSSNVGAY
          LLEKHFFPKWLQVLCSWLSNSPNYEEITKWYLGWKSMFSDQVLAHPSIKDKFNE.LDIMNRAVSSNVGAY
Retrocopy LLEKHFFPKWLQVLCSWLSNSPNYEEITKWYLGWKSMFSDQVLAHPSIKDKFNEVLDIMNRAVSSNVGAY

Parental  MQPGARENIAYLTHTERRKDFQYEAMQERREAENMAQRGIGVAASSVPMNFKDLIETKAEEHNIVFMPVI
          MQPGA.EN.AYLTHTERRKDFQY.AMQERREAENMAQRGIGVA.SSVPMNFKDLIETKAEEHNI.FMPVI
Retrocopy MQPGAQENMAYLTHTERRKDFQYKAMQERREAENMAQRGIGVATSSVPMNFKDLIETKAEEHNILFMPVI

Parental  GKRHEGKQLYTFGRIVIYIDRGVVFVQGEKTWVPTSLQSLIDMAK
          .KRHEGKQLYTFGRIVIYIDRGVVFVQGEKTWVPTSLQ.LIDMAK
Retrocopy RKRHEGKQLYTFGRIVIYIDRGVVFVQGEKTWVPTSLQNLIDMAK

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_1721 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000016242	1 retrocopy	retro_ecab_65,
Myotis lucifugus	ENSMLUG00000008015	1 retrocopy	retro_mluc_1721 ,
Monodelphis domestica	ENSMODG00000010710	1 retrocopy	retro_mdom_49,