RetrogeneDB ID: retro_etel_1933

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_316448:149112..150066(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ERAL1
• Ensembl ID: ENSETEG00000011551
• Aliases: None
• Description: Era-like 12S mitochondrial rRNA chaperone 1 [Source:HGNC Symbol;Acc:3424]

Sequence

>retro_etel_1933
CCCTGCCGGCGCGGCCCTCGGTTGGTCGGCGCGGTGCTAGGGGTCTGGCAGCGGGGCCCCGAAGCCTCGAGGGACTGGGT
GAGCCGGCTCCCCTCGTCCCCGGGCTCCCCGGGGAGGTGCGTGTCTTGTTTTGCAGGCGCCGCTTTCTCTGGTCCACGCC
TGTCCTCGGCCTCCCGCCGTCATGGCCAGGGCTCTGCCTTGGTCCGGTTCCTCGGACTCCCGCAGTCCAGCAGTCCCCTG
CCTCTGCGTGTCCCCGCAGTGTCCATGGACAAAGGTGAACAGGTTCTCCTCTTGGTTCATCATCTGGACAAGCCTGAGAA
ACCCCCGGGTCCTGCGAGTGGTTTTCCTAGGAGCCCCAAATGCAGGAAAAGTCGACACTCTCCAACCTACTCCTGGGCTG
AAAAGTCTTCCCAGCCTCCAAGAAAGTAAACACCTCGCGTTGCCAAGCTCTGGGCGTCATCACAGAGAAGAAGACCCAGG
TGATTCTCCCTGACACACCTGGCCTTATCAGCCCCATTAAACAGAAGAGGCACCACGTGGAGCTCTCTTTGCTGGAAGAT
CCTTGGAAGGGCATGGAATCTGCGGATCTGGTTGTGGTTCCTGTGGATGTCTCAGACAAGTGGACTCGTAACCAGCTCAG
CCCGCAGGTGCTCCCGGTGCTTGTCACCGTTCTCCCAGGTCCCTAGCCTCCTTGTCTTGAACAAGGTAGATTGTTTGAAG
CAGAAATCAGTTCTCCTGGGGCTCACGGCAGCCCTCACTGAAGGTGTGGTCAATGGGAAGAAGCTCAAGATGAAGCAGGC
CTTCCACTCGCCCTCCTGCACCCATTGTCCCAGCCCAGAAGCCAAGGGCCCAGACGCCCTAGCTGGGGGAGGCCCTCAAA
GGGCAGGCTGGCCACACTTCCAGGAAATCTTCATGTTATCAGCCTTCTGCCCAGAGGATGTGAGAACACTGAAG

Alignment

ORF - retro_etel_1933 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.98 %
• Parental protein coverage: 99.07 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  PCRRGSWLVRAVLGVWQRGPEASRDWVSRLPSAPGSPGRCVSCFAGAAFAGPRLSSASRRHGQGSALDRF
          PCRRG..LV.AVLGVWQRGPEASRDWVSRLPS.PGSPGRCVSCFAGAAF.GPRLSSASRRHGQGSAL.RF
Retrocopy PCRRGPRLVGAVLGVWQRGPEASRDWVSRLPSSPGSPGRCVSCFAGAAFSGPRLSSASRRHGQGSALVRF

Parental  LGLPQASGPLTPCAPAVPMDKGEQDLLLVHHPDMPE-NPRVLRVVLLGAPNAG-KSTLSNQLLGRKVFPV
          LGLPQ.S.PL....PAV.MDKGEQ.LLLVHH.D.PE.NPRVLRVV.LGAPNAG.KSTLSN.LLG.KVFP.
Retrocopy LGLPQSSSPLPLRVPAVSMDKGEQVLLLVHHLDKPE>NPRVLRVVFLGAPNAG>KSTLSNLLLG*KVFPA

Parental  SKKVHTTRCQALGVITEKEAQVVLLDTPGLISPIKQKRHHLELSLLEDPWKSMESADLVVVLVDVSDKWT
          SKKV.T.RCQALGVITEK..QV.L.DTPGLISPIKQKRHH.ELSLLEDPWK.MESADLVVV.VDVSDKWT
Retrocopy SKKVNTSRCQALGVITEKKTQVILPDTPGLISPIKQKRHHVELSLLEDPWKGMESADLVVVPVDVSDKWT

Parental  RNQLSPQVL-QCLSQFSQVPSILVLNKVDCLKQKSVLLGLTAALTEGVVNGKKLKMKQAFHWPSSTHCPS
          RNQLSPQVL..CLS.FSQVPS.LVLNKVDCLKQKSVLLGLTAALTEGVVNGKKLKMKQAFH.PS.THCPS
Retrocopy RNQLSPQVL>RCLSPFSQVPSLLVLNKVDCLKQKSVLLGLTAALTEGVVNGKKLKMKQAFHSPSCTHCPS

Parental  PEAKGSDTQPGGGPQRAGWPHFQEIFMLSAFMLKRDVRTLK
          PEAKG.D...GGGPQRAGWPHFQEIFMLSAF....DVRTLK
Retrocopy PEAKGPDALAGGGPQRAGWPHFQEIFMLSAF-CPEDVRTLK

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_1933 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011551	1 retrocopy	retro_etel_1933 ,
Microcebus murinus	ENSMICG00000005345	1 retrocopy	retro_mmur_1619,
Otolemur garnettii	ENSOGAG00000011082	1 retrocopy	retro_ogar_3218,