RetrogeneDB ID: retro_amel_1668

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193915.1:355840..356406(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SH3GL2
• Ensembl ID: ENSAMEG00000010823
• Aliases: None
• Description: SH3-domain GRB2-like 2 [Source:HGNC Symbol;Acc:10831]

Sequence

>retro_amel_1668
AAAGTGGGTGAGAAGTTTGGAGAGGCTAGAGGAGCCAAGTGAGATGATGACTACAAAGAGGTGGAGAGGAAAGTAGGAGT
CACCACCATGCTTGTGATGAAAATAATTACCAAAACAATTGAATATCTTCAAGTCAACCCAGCTTCCAGAGCTAAACTCT
GTATGATCTGCACCATGTCAAAAATCTGCAGCCAGGAGAAGGAGCCAGGATATCCCCAGAGAGAAGCGTTGCTGACAGTG
GACAAGCTCAAGTTTAAAAGAAAGTTTAGAGATCATTGTAACTTTGGCCCAGCACTTTGTAAGGTGGGAGAGGCCATTCA
AGAACTCTTGGAGGTTTACGACTCTTTGGAGATGGAAGTGAAGTGGAACTTCATTGACCTCCTTCAGAACCTTCATGACA
GAGAGCTGAAGGAAATTCAGCATCAACTACAGAGGTTGGAGGGTTGAAGCCTGGACTTTGATTATAAGAAGAAACAACAA
GGCAAGATTCCAAATGAAGAGCTCCATGAGGATCTGGAGAAATTTATGAGTCTCAAGAAGTTTCTGAGTCAAGCATGTTC
AACATG

Alignment

ORF - retro_amel_1668 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.47 %
• Parental protein coverage: 56.08 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KVSEKVGGAEGTKLDDDFKEMERKVDVTSRAVMEIMTKTIEYLQPNPASRAKLSMINTMSKIRGQEKGPG
          KV.EK.G.A.G.K.DDD.KE.ERKV.VT...VM.I.TKTIEYLQ.NPASRAKL.MI.TMSKI..QEK.PG
Retrocopy KVGEKFGEARGAK*DDDYKEVERKVGVTTMLVMKIITKTIEYLQVNPASRAKLCMICTMSKICSQEKEPG

Parental  YPQAEALLAEAMLKFGRELGDDCNFGPALGEVGEAMRELSEVKDSLDMEVKQNFIDPLQNLHDKDLREIQ
          YPQ.EALL....LKF.R...D.CNFGPAL..VGEA..EL.EV.DSL.MEVK.NFID.LQNLHD..L.EIQ
Retrocopy YPQREALLTVDKLKFKRKFRDHCNFGPALCKVGEAIQELLEVYDSLEMEVKWNFIDLLQNLHDRELKEIQ

Parental  HHLKKLEGRRLDFDYKKKRQGKIPDEELRQALEKF-DESKEIAESSMFNL
          H.L..LEG..LDFDYKKK.QGKIP.EEL...LEKF..ES.E..ESSMFN.
Retrocopy HQLQRLEG*SLDFDYKKKQQGKIPNEELHEDLEKF<YESQEVSESSMFNM

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_1668 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1668 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.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010823	1 retrocopy	retro_amel_1668 ,
Choloepus hoffmanni	ENSCHOG00000001689	2 retrocopies	retro_chof_1007, retro_chof_24,
Macropus eugenii	ENSMEUG00000015197	1 retrocopy	retro_meug_523,
Macaca mulatta	ENSMMUG00000000273	1 retrocopy	retro_mmul_1264,
Pan troglodytes	ENSPTRG00000020792	1 retrocopy	retro_ptro_576,