RetrogeneDB ID: retro_amel_131

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192525.1:820919..822803(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSAMEG00000019204
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000012144
• Aliases: None
• Description: None

Sequence

>retro_amel_131
ATGGAGGAGGTGGACCGAATCCTCATCCATTCCCTGCGCCACGTCGGCACAGCAGTTCCTCCAGGTGTACAGACCCTGCA
AGCCTTCACCCCTGAGTTGGTTGTAAAAGCTGTGGTCTGCTGTCTGCGTGTGATCAACCCTGCCGTGGGCTCTGGCCTCA
GCCCCCTGCTGCCTCTGGCCATGTCTGAGCGCCTCCACCTGGCCGTGAGCCTGGCTCAGGCCTGCACGGACCTGGGCTAT
CCCTTGGAGCTTGGCTATCAGAGCTTCCTCTACCCCGGTGAGCCTGATCTCCGGGACCTGCTTCTCTTCTTGGCTGAGCA
TCTGCCCTCTGATACCTCTGACGATGCAGATCGGCCTGCGGGTGACTCATCTCTCCTTCTCCGGGCCATCGGGGGCCAAA
TGCGGGACCAGTTGGCCCTTCCCTGGGTCCCACCCCTCCTTCGTACTCCTCAGCTACAGCACCTCCAGGGCTCAGTCTCC
CAGAAGCCTTTCCACACCATCAGGCTGGTCATGCCTGAGTTGAGTTCCAGAGGGGAGCCCCGGGAGTTCCAGGCAAGTCC
TCTGCTGCTACCAGCCCCCACCCAGGTGCCCCAACCTGCTGGGAGGGTGGCCTCACTCCTCGAATGCCATGCCATCCAGC
TCTGCCAGCACACGGGCCGGGACCGCCCTGGGGATGAGGACTGTGTCCAGCAGGCACCCCGCCATCCCACCCAGGAGGAT
ACACGGGCTCGGTGGCAGTGGCTGCAGAGGCACCTGGCCGAGCATCTACGCCAGACCTGGGGCCGACCAGCGGCTCCCTC
ACAAGCCGGAGACCTGAGAGAGCTGCTGCAGGCCTGGGGTGCTGGGACCAGGACTGGTGCTTCTAAGGGCTCCCGCTTCA
CACACTCAGAGAAGTTCACCTTCCATCTGGAGCCTGAGGTCCAGGCAGCCCAGGGGTCTGATGTGCCGGTCACCTCCCAG
CGGCCTGAACAGGACACGAAGGCAGCTCAAGAACAGGAGCTGGAGTCTCTTTGGGAGCAGCTGGAGGGAGTGAACCGCAA
CATTGAAGAGGTTGAAGCCAACATGAAGACCCTGGAAATCAGCCTCATCCAGGTGGAGGCCGAGCGTGGGCAGACCGAGC
TCAGCACAGCAGAGAATAAGCAGGCCCTGCGCTTGAAGAGCTGGGCAGTGGAGCTGCTGCCTGGCGGGGCTGCCAACCTC
TCCAAACTGCAGCTCATGGTAGAGAGTAGTGCCCAGCGGGTCTTCCACTTGGCGGGTCAGTGGGAAAAACACCGGGTCCC
TCTCCTGGCTGAGTACCGCCTCCTCCGAAAGCTCCGGGATTGCAGAGAGCTGGAATCTTCTCGACGGCTGGCAGAGATCC
AGGAGCTGCACCAGAGTGTTCGAGCAGCTGCCGAAGAGGCCCGAAGGAAGGAGGAGGTCTATAAGCAGCTGGGGTCAGAG
CTGGAAACCCTGCCTACAGGTGTGTCCTGGCAGGGCTATACCCATCGCATCCTGGAGGTTGTGGACAACATCCGGAAGCA
GAAGGAAGGGATCACTAAGATCTTGTCAGACACAAAGGAGCTTCAGAAGGAAATCAGCTGTCTGTCTTCGAAGCTGGACC
GGACCTTTGCAGTGACCGATGAGCTCATTTTCAAGGATGCCAAGAAGGATGATGCCGTTCGGAAGGCATACAAGTATCTA
GCTGCCTTTCATGAGAACTGCAGCCAGCTCCTCCAGACCATCGAGGACACAGGCACAATCATGTGGGAAGTTGGAGACCT
TGAGCAGCAGATCGAGACAGAGATGGGGAAGAAGACCCTCAGCAACCTGGAGAAGATCCGCGAGGACTACCGAGCCCTTT
GCCAGGAGAATGCTGACCTCCTGGAGCAGGTCCTGGAGGCCTGA

Alignment

ORF - retro_amel_131 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.49 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEEADRILIHSLRQAGTAVPPDVQTLRAFTTELVVEAVVRCLRVINPAVGSGLSPLLPLAMSARFRLAMS
          MEE.DRILIHSLR..GTAVPP.VQTL.AFT.ELVV.AVV.CLRVINPAVGSGLSPLLPLAMS.R..LA.S
Retrocopy MEEVDRILIHSLRHVGTAVPPGVQTLQAFTPELVVKAVVCCLRVINPAVGSGLSPLLPLAMSERLHLAVS

Parental  LAQACMDLGYPLELGYQSFLYPGEPDLRDLLLFLAERLPSDASEDADQPAGDSAILLRAIGSQIREQLAL
          LAQAC.DLGYPLELGYQSFLYPGEPDLRDLLLFLAE.LPSD.S.DAD.PAGDS..LLRAIG.Q.R.QLAL
Retrocopy LAQACTDLGYPLELGYQSFLYPGEPDLRDLLLFLAEHLPSDTSDDADRPAGDSSLLLRAIGGQMRDQLAL

Parental  PWVPPLLRTPKLQHLQGSAAQKPFHTTSLVMPELSSRGEPREFQASPLLLPAPTQVPQPAGRVASLLERH
          PWVPPLLRTP.LQHLQGS..QKPFHT..LVMPELSSRGEPREFQASPLLLPAPTQVPQPAGRVASLLE.H
Retrocopy PWVPPLLRTPQLQHLQGSVSQKPFHTIRLVMPELSSRGEPREFQASPLLLPAPTQVPQPAGRVASLLECH

Parental  AIQLCQHTGRDRPGDEDWVHRAPRHPTQEDTRAQRQRLQRHLAEHLRQTWGRLGAPPQARDLGELLQAWG
          AIQLCQHTGRDRPGDED.V..APRHPTQEDTRA..Q.LQRHLAEHLRQTWGR..AP.QA.DL.ELLQAWG
Retrocopy AIQLCQHTGRDRPGDEDCVQQAPRHPTQEDTRARWQWLQRHLAEHLRQTWGRPAAPSQAGDLRELLQAWG

Parental  TGARSGTPKGSRFTHSEKFTFHPEPEVQAAQVCDVPATSQRPEQDTRAAQEQELESLREQLEGVNRSIEE
          .G.R.G..KGSRFTHSEKFTFH.EPEVQAAQ..DVP.TSQRPEQDT.AAQEQELESL.EQLEGVNR.IEE
Retrocopy AGTRTGASKGSRFTHSEKFTFHLEPEVQAAQGSDVPVTSQRPEQDTKAAQEQELESLWEQLEGVNRNIEE

Parental  VEANMKTLGINLVQVETERRQSELSTAEREQALRLKSRAVELLPDGAANLAKLQLVVESSAQRVIHLAGQ
          VEANMKTL.I.L.QVE.ER.Q.ELSTAE..QALRLKS.AVELLP.GAANL.KLQL.VESSAQRV.HLAGQ
Retrocopy VEANMKTLEISLIQVEAERGQTELSTAENKQALRLKSWAVELLPGGAANLSKLQLMVESSAQRVFHLAGQ

Parental  WEKHRVPLLAEYRHLRKLQDCRELESSRRLAEIQELHQSVRAAAEEARRKEEVYKQLVSELETLPRDVSR
          WEKHRVPLLAEYR.LRKL.DCRELESSRRLAEIQELHQSVRAAAEEARRKEEVYKQL.SELETLP..VS.
Retrocopy WEKHRVPLLAEYRLLRKLRDCRELESSRRLAEIQELHQSVRAAAEEARRKEEVYKQLGSELETLPTGVSW

Parental  LAYTQRILEIVGNIRKQKEEITKILSDTRELQKEINSLSGKLDRTFAVTDELVFKDAKKDDAVRKAYKYL
          ..YT.RILE.V.NIRKQKE.ITKILSDT.ELQKEI..LS.KLDRTFAVTDEL.FKDAKKDDAVRKAYKYL
Retrocopy QGYTHRILEVVDNIRKQKEGITKILSDTKELQKEISCLSSKLDRTFAVTDELIFKDAKKDDAVRKAYKYL

Parental  AALHENCSQLIQTIEDTGTIMREVRDLEEQIETEMGKKTLSNLEKIREDYRALRQENAGLLGRVREA
          AA.HENCSQL.QTIEDTGTIM.EV.DLE.QIETEMGKKTLSNLEKIREDYRAL.QENA.LL..V.EA
Retrocopy AAFHENCSQLLQTIEDTGTIMWEVGDLEQQIETEMGKKTLSNLEKIREDYRALCQENADLLEQVLEA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_amel_131 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_131 was not experimentally validated.

Homology

Retrocopy orthology:

Ailuropoda melanoleuca 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012144	1 retrocopy	retro_amel_131 ,
Myotis lucifugus	ENSMLUG00000009356	2 retrocopies	retro_mluc_2141, retro_mluc_410,
Mustela putorius furo	ENSMPUG00000014046	1 retrocopy	retro_mputfur_865,