RetrogeneDB ID: retro_etel_1295

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_243559:8071..9074(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000019895
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: FGG
• Ensembl ID: ENSETEG00000011686
• Aliases: None
• Description: fibrinogen gamma chain [Source:HGNC Symbol;Acc:3694]

Sequence

>retro_etel_1295
TTAAACCAAGTAGAAAACAAAACGTCAGAAGCTTCAGAACTGATCATAGCAATCCAAGTCAACTATAATCCCGATGAGGC
ACCAAGACCAAATACGATAGAGGGTGCTACTAAGAAGTCCAAGAGAATGTTAGAAGAAATTATGAAGTATGAGTCAATGA
TTATAACACATGAATCAACTATTCGATTTTTGCAGGAACTATATACTTCAAATAGCCAAAAGATTAGTAGCCTGAAACAG
AAGGTAGCCCAGCTTGAAGCAAAGTGTCAGGAACCTTGCAAAGATACAGTGAAAATACATGATACGACAGGGAAAGATTG
TCAAGATATTGCAAACAAAGGAGCCAAAGAAAGTGGACTTTATTTTATAAAGCCTCTGAGAGCTAAGCAGCAGTTCTTAG
TCTACTGTGAAATTGATGCATCTGGAAATGGGTGGACTGTACTTCAGAAGAGACTTGCTGGCAGAGGATTTCAAGAAAGA
TTGGATTCAGGATAAAGAAGGCTTTTGACATCTGTCTCCCACTGGCACCACGGAGTTTTGGCTGGGAAATGAGAAGATTC
ATTTGATAAGTACACAGTCTGCAATCCCATATGCATTGAGAGTGGAATTAGAAGACTGGAGTGGCAGAACCAGTACTGCA
GATTATGCCATGTTCAAGGTGGGAGCGGAAGCTGACAAGTATCGCCTGAACTATGCATACTTCATTAGTGGAGAGGCTGG
AGATGGCTTTGATGGCAATGATTTTGGTGATGATCCTAGCGACAAGTTCTTCACTTCCCACAATGGCATGCAGTTCAGTA
CCTGGGACAATGACAACAATAAGTTTGAAGGCAACTGTGCTGAACAGGGTGGCTCTGGTTGGTGGATGAACAAGTGCCAT
GGTGGCCACCTCAATGGGATTTATTACCAAGGTGGCACTTACTCCAAAGCATCGACTCCTAATGGTTATGATAATGGTAT
CATTTCGGCCACCTGGAAATCCCGGTGGTATTCCATGAAGAAA

Alignment

ORF - retro_etel_1295 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.58 %
• Parental protein coverage: 91.53 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LNEVENKTAEASELITAIQVNYNPDEPPRPNIIEGATKKSKKMLEEIMKYESMIITHESSIRFLQEIYTS
          LN.VENKT.EASELI.AIQVNYNPDE.PRPN.IEGATKKSK.MLEEIMKYESMIITHES.IRFLQE.YTS
Retrocopy LNQVENKTSEASELIIAIQVNYNPDEAPRPNTIEGATKKSKRMLEEIMKYESMIITHESTIRFLQELYTS

Parental  NSQKISNLKQKVAQLETKCQEPCKDTVKIYDTTGKDCQDIANKGAKESGLYFIKPLKAKQQFLVYCEIDA
          NSQKIS.LKQKVAQLE.KCQEPCKDTVKI.DTTGKDCQDIANKGAKESGLYFIKPL.AKQQFLVYCEIDA
Retrocopy NSQKISSLKQKVAQLEAKCQEPCKDTVKIHDTTGKDCQDIANKGAKESGLYFIKPLRAKQQFLVYCEIDA

Parental  SGNGWTVLQKRLDGSEDFKKR-WTQYKEGFGHLSPTGTTEFWLGNEKIHLISTQSAIPYALRVELEDWSG
          SGNGWTVLQKRL.G...F..R.W.Q.KEGF.HLSPTGTTEFWLGNEKIHLISTQSAIPYALRVELEDWSG
Retrocopy SGNGWTVLQKRLAG-RGFQER>WIQDKEGF*HLSPTGTTEFWLGNEKIHLISTQSAIPYALRVELEDWSG

Parental  RTSTADYAMFKVGPEADKYRLTYAYFISGDAGDAFDGYDFGDDPSDKFFTSHNGMQFSTWDNDNDKFEGN
          RTSTADYAMFKVG.EADKYRL.YAYFISG.AGD.FDG.DFGDDPSDKFFTSHNGMQFSTWDNDN.KFEGN
Retrocopy RTSTADYAMFKVGAEADKYRLNYAYFISGEAGDGFDGNDFGDDPSDKFFTSHNGMQFSTWDNDNNKFEGN

Parental  CAEQDGSGWWMNKCHAGHLNGIYYQGGVYSTASTPNGYDNGIIWATWKPRWYSLKK
          CAEQ.GSGWWMNKCH.GHLNGIYYQGG.YS.ASTPNGYDNGII.ATWK.RWYS.KK
Retrocopy CAEQGGSGWWMNKCHGGHLNGIYYQGGTYSKASTPNGYDNGIISATWKSRWYSMKK

Legend:

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

Expression

RNA-Seq

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_1295 was not experimentally validated.

Homology

Retrocopy orthology:

Echinops telfairi 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011686	1 retrocopy	retro_etel_1295 ,