RetrogeneDB ID: retro_etel_2034

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_37440:3882..4581(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GLYAT
• Ensembl ID: ENSETEG00000004661
• Aliases: None
• Description: glycine-N-acyltransferase [Source:HGNC Symbol;Acc:13734]

Sequence

>retro_etel_2034
ATGACAGATAACTTTGGTCACTACACCAACACTTACCAAATCTATTCTAAGGATCCATGGAACTGCCAGGAATTCCTTGG
CATCTCAGAAGTCACCAACTGGAAACAGCATTTGCAGATTCGAAGCTCACATTCCAGTCTGGATGAAGTGATTCCAAATC
TTGCGTCCACTAAATCCATTAAGGTCAAGAGAACACAACGCATTCTTTATATGATGCCGAAAACAGCGAGGACCTTGGTT
CTCTCTCTGCTGCAGGCAAAAAACTTACCCCCTGAAATGAGAAGACCCAAACCCATTAATGAAGAGCTGTTTAAACACGC
ATCCCTGGACATCACCCACCCTGCCTTGGTGACTAGATTTTGGCATTTCTGTGGCAATGAGAGTAGCCAAAGATTGATTG
AGCGCTGTATCCGGACCTTCCCCACCGCGTGCTTGCTGGGGCCTGAGGGAACCCCTGTGAGCTGGATGTGGATGGACCAG
ACTGGAGAACTGAGAACGGGAGCTACTGTTGTTCCCAAGCACCGGGCCCAGGGCCTCATATCCCATCTTCTCTATTTCCA
TATCCAGGCTCTGGACGAACTTGGCTTCCCCACATCTAACCATAGGGACAGAGCCAACAAGTTCATACAGAAAATGAGCG
AAAGTCTGCAGCTTGTCCACCTGCCCTGTGACTGGAGCCAGTGGAACTGTGTGCCTGTG

Alignment

ORF - retro_etel_2034 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.38 %
• Parental protein coverage: 78.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTDDLDHYTNSYQIYSKDPKSCQEFLDSATVINWKQHLQI--SQSSLNEVIQSLAATKAFNVKQTQCFLF
          MTD...HYTN.YQIYSKDP..CQEFL....V.NWKQHLQI..S.SSL.EVI..LA.TK...VK.TQ..L.
Retrocopy MTDNFGHYTNTYQIYSKDPWNCQEFLGISEVTNWKQHLQIRSSHSSLDEVIPNLASTKSIKVKRTQRILY

Parental  VMPETAKRLVPSLVDAKNVSSTSGRPKAINQEEFKLSSLDITHAALVNKFWHFGGNERSQRFIERCIRTF
          .MP.TA..LV.SL..AKN......RPK.IN.E.FK..SLDITH.ALV..FWHF.GNE.SQR.IERCIRTF
Retrocopy MMPKTARTLVLSLLQAKNLPPEMRRPKPINEELFKHASLDITHPALVTRFWHFCGNESSQRLIERCIRTF

Parental  PTFCLLGPERSPVSWTLMDQTGELRMAGT-VPQYRAQGLISSVIYSQIQALDKLGFPLYAHTDKSHKIMQ
          PT.CLLGPE..PVSW..MDQTGELR...T.VP..RAQGLIS...Y..IQALD.LGFP...H.D...K..Q
Retrocopy PTACLLGPEGTPVSWMWMDQTGELRTGATVVPKHRAQGLISHLLYFHIQALDELGFPTSNHRDRANKFIQ

Parental  KMSYNLQHIQMPCDWNQWNCVPL
          KMS..LQ....PCDW.QWNCVP.
Retrocopy KMSESLQLVHLPCDWSQWNCVPV

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_2034 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000004661	1 retrocopy	retro_etel_2034 ,
Otolemur garnettii	ENSOGAG00000007533	1 retrocopy	retro_ogar_1261,