RetrogeneDB ID: retro_etel_24

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_322028:7310..8078(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000006002
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000000324
• Aliases: None
• Description: None

Sequence

>retro_etel_24
CAGTACCAGATGGAAATGATGCGGAGCCTTCGCCACGTGAACAATGATCACCTCCACGTGGGTTGGTACCAGTCCACGTT
CTATGGCTCGTTCGTCACGCGGGCGCTCCTGGACTCGCAGTTCAGTTACCAGCACGCCATCGAGGAGTCCGTGGTGCTTA
TTTACGATCCCATAAAAACTGCCCAAGGATCTCTTTCGCTGAAGGCATACAGACTGACTCCTAAACTGATGGAAGTTTGT
AAAGAAAAGGATTTTTCTCCTGAAGCATTGAAAAAGGCAACTATCACCTTTGAGCACATGTTTGAAGAGGTGCCGATCGT
AATAAAGAATTCACATCTGATCAACGTTCTCATGTGGGAACTTGAGAAGAAATCGGCCGTTGCAGATAAACATGAATTGC
TCAGCCTTGCGAGCAGCAATCATTTGGCGAAGAATCTACAGTTGCTGATGGGCAGAGTGGATGAAATGAGCCAGGACATA
GTTAAATATAACACATACATGAGGAACACCAGCAAGCAGCAGCAGCAGAAACACCAGTACCAGCAGCGGCGCCAGCAGGA
GAATATGCAGCGTCAGAGCCGAGGAGAGCCGCCACTCCCTGAGGAGGACTTGTCCAAACTCTTCAAACCCCCGCAAGCCC
CGGCCAGGATGGACTCGCTGCTCATTGCAGGCCAGATTAACACTTACTGCCAGAATATTAAGGAGTTCACCGCCCAAAAC
CTAGGCAAACTCTTCATGGCCCAGGCTCTACAAGAATATAACAATTAA

Alignment

ORF - retro_etel_24 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.43 %
• Parental protein coverage: 72.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QYQMEMMRSLRHVNIDHLHVGWYQSTFYGSFVTRALLDSQFSYQHAIEESVVLIYDPIKTAQGSLSLKAY
          QYQMEMMRSLRHVN.DHLHVGWYQSTFYGSFVTRALLDSQFSYQHAIEESVVLIYDPIKTAQGSLSLKAY
Retrocopy QYQMEMMRSLRHVNNDHLHVGWYQSTFYGSFVTRALLDSQFSYQHAIEESVVLIYDPIKTAQGSLSLKAY

Parental  RLTPKLMEVCKEKDFSPEALKKATITFEHMFEEVPIVIKNSHLINVLMWELEKKSAVADKHELLSLASSS
          RLTPKLMEVCKEKDFSPEALKKATITFEHMFEEVPIVIKNSHLINVLMWELEKKSAVADKHELLSLASS.
Retrocopy RLTPKLMEVCKEKDFSPEALKKATITFEHMFEEVPIVIKNSHLINVLMWELEKKSAVADKHELLSLASSN

Parental  HLGKNLQLLMDRVDEMSQDIVKYNTYMRNTSKQQQQKHQYQQRRQQENMQRQSRGEPPLPEEDLSKLFKP
          HL.KNLQLLM.RVDEMSQDIVKYNTYMRNTSKQQQQKHQYQQRRQQENMQRQSRGEPPLPEEDLSKLFKP
Retrocopy HLAKNLQLLMGRVDEMSQDIVKYNTYMRNTSKQQQQKHQYQQRRQQENMQRQSRGEPPLPEEDLSKLFKP

Parental  PQAPARMDSLLIAGQINTYCQNIKEFTAQNLGKLFMAQALQEYNN
          PQAPARMDSLLIAGQINTYCQNIKEFTAQNLGKLFMAQALQEYNN
Retrocopy PQAPARMDSLLIAGQINTYCQNIKEFTAQNLGKLFMAQALQEYNN

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_24 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000000816	1 retrocopy	retro_cfam_2073,
Callithrix jacchus	ENSCJAG00000005910	1 retrocopy	retro_cjac_3023,
Echinops telfairi	ENSETEG00000000324	1 retrocopy	retro_etel_24 ,
Macropus eugenii	ENSMEUG00000015663	4 retrocopies	retro_meug_1223, retro_meug_1244, retro_meug_1790, retro_meug_376,
Monodelphis domestica	ENSMODG00000004154	1 retrocopy	retro_mdom_1243,
Mus musculus	ENSMUSG00000022312	1 retrocopy	retro_mmus_1668,
Oryctolagus cuniculus	ENSOCUG00000007534	1 retrocopy	retro_ocun_608,
Otolemur garnettii	ENSOGAG00000008905	1 retrocopy	retro_ogar_2043,
Sorex araneus	ENSSARG00000009067	1 retrocopy	retro_sara_69,
Sarcophilus harrisii	ENSSHAG00000014977	1 retrocopy	retro_shar_561,
Ictidomys tridecemlineatus	ENSSTOG00000001403	1 retrocopy	retro_itri_420,