RetrogeneDB ID: retro_amel_111

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL194230.1:43641..44433(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSAMEG00000018732
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000011810
• Aliases: None
• Description: None

Sequence

>retro_amel_111
CTCTTATTAAAGGTGCTGGAAGTTCTCGATCCTGACAAGAAGCTGAAGGACACGTGGGCTTATTGCCAGAACACCGAGAA
AAGAACGAAGTCCCCCACAAAGCTTAGGGAGAAACGTCCTGCCAAAGTCAACCTGGAACTTCCCAAGAAGACTCCCGGGT
CACATCCAGACAAGTTGCCTCATGAAGAAAGGAAGTCAAGCACAAAGGATTTGCTCGAAAGTCCTCCCCTTCCTAGAAAA
ATACCGAGAGGAATCCGTAAATTCTGCGAATGGGTTGCTACTTTTGGAGACTTGGGCATTGATGAAGAGCTCATCATGAA
ACAGCTTGACATTGGTATTGACTGCAAACCAACCTATGACAAGAGCCACACGAAGAAAATAAACCAGGTTGCTTTGGACC
TAAAGTACAGAACAGGGATAGATAAAATGGAGGATCTAAAATTCTCCATGTACTGGGAGAACTGGGAGAGGAAACTACAG
ACACCACGGAATCCGTATAAACCCAACTGGGTGAAGATGAGGTATGGAGCATGGTACTTGAAGCCCAAGTTGTGGAAAAA
GCTAATAAATGATGAACCTTTGATTGATCCCAAGGTCTTACTTGGACAAGATGGGAGATATGGAAAGAATTTTCCTGAAC
AGGATATTCTTGAAGATCTTTATGGAACAATTGCTTTTAAAGACTTCATTCTAAGCAAGGGCTACAGGATGCCAGGCTGC
ATTGAGAAGCTGTTTACCAGGAAGGGATGGAAATACGATTCTGTTAGGACTCCAATACACAAAGTAATAAAA

Alignment

ORF - retro_amel_111 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.27 %
• Parental protein coverage: 99.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLLKVLEVLDPDRKLEDTWAYCQGVGKRTKEPAKLLKKRSTQVDLGLYPEKTPVSHPGQWLYEEKKPSET
          LLLKVLEVLDPD.KL.DTWAYCQ...KRTK.P.KL..KR...V.L.L.P.KTP.SHP.....EE.K.S..
Retrocopy LLLKVLEVLDPDKKLKDTWAYCQNTEKRTKSPTKLREKRPAKVNLEL-PKKTPGSHPDKLPHEERKSSTK

Parental  DLLHEDGPLPHENVRKGVRDFCDWATAFGSSNIDEEFILKQFDIDYQSKPSHDVPLTMRLSQAPLELKKR
          DLL.E..PLP......G.R.FC.W...FG...IDEE.I.KQ.DI....KP..D...T....Q..L.LK.R
Retrocopy DLL-ESPPLPRK-IPRGIRKFCEWVATFGDLGIDEELIMKQLDIGIDCKPTYDKSHTKKINQVALDLKYR

Parental  PGLKKLQGPQFSQKLGH-EQKHQKPQNPHKPKCVKMRYGAWYLDTKLWKKQRADEPLVDPEVSCKAQDEN
          .G..K.....FS......E.K.Q.P.NP.KP..VKMRYGAWYL..KLWKK...DEPL.DP.V....QD..
Retrocopy TGIDKMEDLKFSMYWENWERKLQTPRNPYKPNWVKMRYGAWYLKPKLWKKLINDEPLIDPKV-LLGQDGR

Parental  FKKELQEQEELLADLHGTTAFKDFILSRGSKMPSFLEKMYIRKERKCECNKTSI
          ..K...EQ...L.DL.GT.AFKDFILS.G..MP...EK...RK..K.....T.I
Retrocopy YGKNFPEQ-DILEDLYGTIAFKDFILSKGYRMPGCIEKLFTRKGWKYDSVRTPI

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_111 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_111 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011810	1 retrocopy	retro_amel_111 ,
Mustela putorius furo	ENSMPUG00000008458	1 retrocopy	retro_mputfur_1,