RetrogeneDB ID: retro_amel_1255

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193110.1:863871..864242(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM216
• Ensembl ID: ENSAMEG00000016592
• Aliases: None
• Description: None

Sequence

>retro_amel_1255
CTGGAAATCCTCTTCTTTCTGAACAGGTGGTATTATGTTACCTGTTTCTTGCAGGAACTCTTCGTATTTCTGTATGAAGC
TCTCCTGCTACCATATCCAAAAGCCAATCTAGTGATAGATGTGGTGATGCTTCTCCTTTACCTTGGAGTTGAAGGAATTT
GACTGTTTTTTGGTACAAAGGGAAACCTCTGCCAACAAAAGATGCCACTTGGTGTTAATATGGCCTTGACCTTCCCATCT
GCCAGGATGACCTCCTATTATCTGCCGCTGCAGACCTACGTGCTCCGCCTGGAAGCCATCATGAATGGCATCTACTCTTC
TTCTGTGGTTCAGAGCTGCTGCTTGGGGTGCTCACCCTGACGGCTTTCTCC

Alignment

ORF - retro_amel_1255 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.95 %
• Parental protein coverage: 74.25 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LEILFFLNGWYYATYFLLELFLFLYKAALLLPYPTANLVLDVVMLLLYLGIEVIRLFFGTKGNLCQRKMP
          LEILFFLN.WYY.T.FL.ELF.FLY.A.LLLPYP.ANLV.DVVMLLLYLG.E.I.LFFGTKGNLCQ.KMP
Retrocopy LEILFFLNRWYYVTCFLQELFVFLYEA-LLLPYPKANLVIDVVMLLLYLGVEGI*LFFGTKGNLCQQKMP

Parental  LGISVALTFPSAMMASYYLLLQTYVLRLEAIMNGL-LFF-CGSELLLEVLTLTAFS
          LG...ALTFPSA.M.SYYL.LQTYVLRLEAIMNG..L.F.CGSELLL.VLTLTAFS
Retrocopy LGVNMALTFPSARMTSYYLPLQTYVLRLEAIMNGI<LLFFCGSELLLGVLTLTAFS

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_1255 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1255 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016592	1 retrocopy	retro_amel_1255 ,
Bos taurus	ENSBTAG00000021517	1 retrocopy	retro_btau_1184,
Canis familiaris	ENSCAFG00000016171	4 retrocopies	retro_cfam_1342, retro_cfam_331, retro_cfam_332, retro_cfam_333,
Monodelphis domestica	ENSMODG00000020362	1 retrocopy	retro_mdom_232,
Mustela putorius furo	ENSMPUG00000014169	4 retrocopies	retro_mputfur_1341, retro_mputfur_1536, retro_mputfur_1537, retro_mputfur_1538,
Oryctolagus cuniculus	ENSOCUG00000001682	1 retrocopy	retro_ocun_799,