RetrogeneDB ID: retro_etel_1667

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_286624:41518..42556(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000014234
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CKB
• Ensembl ID: ENSETEG00000008667
• Aliases: None
• Description: creatine kinase, brain [Source:HGNC Symbol;Acc:1991]

Sequence

>retro_etel_1667
CCCGAGCTGTACGCCGAACTGCGCGCCAAATGCACGCCGAGCGGCTTCACGGTGGACGACGTCATCCAGACCGGCGTGGA
CAACCCCGGCCACCCGTACATGTTGACCGTGGGCTGCGTGGCGGGCGACGAGGAGTCCTATGTTGTCTTCAAGGAGCTTT
TTGACCCCATCATCGAGGACCGTCACGGGGGCTACAAGCCCAGCGACGAGCACAAGACGGACCTCAACGCCGACCACCTG
CAGGGCGGCGACGACCTGGACCCCAACTATGTGCTGAGCTCGCGGGTCCGCACCGGGCGCAGCATCCGCGGCTTCTGCCT
CCCCCCGCACTGCAGCCGCGGGGAGCGCCGCGCCATTGAGAAGCTGGCAGTGGAAGCCCTGTCCAGCCTGGACGGCGACC
TGTCTGGCAGGTACTACGCGCTCAAGAGCATGACCGAGGCGGAGCAACAGCAGCTCATAGACGACCACTTCCTCTTTGAT
AAGCCTGTGTCACCGCTGCTGCTGGCCTCTGGCATGGCCCGTGACTGGCCGGACGCCCGCGGCATCTGGCACAATGACAA
TAAGACCTTCCTGGTGTGGATCAACGAGGAGGACCACCTGCGGGTCATCTCCATGCAGAAAGGGGGGAACATGAAGGAGG
TCTTCACCCGTTTCTGCACTGGCCTCACCCAGATCGAGACACTCTTCAAGTCCAAGAACTACGAGTTCATGTGGAATCCT
CACCTTGGCTACGTGCTCACTTGCCCGTCCAACCTGGGCACCGGGCTTCGGGCTGGAGTGCATATTAAGCTACCCCACCT
GGGCAAGCACGAGAAGTTCTCCGAGGTGCTCAAGCGGCTGCGGCTGCAGAAGCGGGGCACAGGTGGTGTGGACACGGCTG
CCGTGGGCGGGGTCTTTGACGTCTCCAATGCCGACCGGCTGGGCTTCTCAGAGGTGGAGCTGGTGCAGATGGTGGTGGAC
GGCGTGAAGCTGCTCATCGACATGGAGCAGCGGCTGGAACAGGGCCAGCCCATCGACGACCTGATGCCCGCCCAGAAG

Alignment

ORF - retro_etel_1667 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.22 %
• Parental protein coverage: 90.81 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PELYAELRAKCTPSGFTVDDVIQTGVDNPGHPYILTVGXXXXXXXXXXXXXXXXXXIIEDRHGGYKPSDD
          PELYAELRAKCTPSGFTVDDVIQTGVDNPGHPY.LTVG..................IIEDRHGGYKPSD.
Retrocopy PELYAELRAKCTPSGFTVDDVIQTGVDNPGHPYMLTVGCVAGDEESYVVFKELFDPIIEDRHGGYKPSDE

Parental  HKTDLNADHLQGGDDLDPNYVLSSRVRTGRSIRGFCLPPHCSRGERRAIEKLAVEALSSLDGDLSGRYYA
          HKTDLNADHLQGGDDLDPNYVLSSRVRTGRSIRGFCLPPHCSRGERRAIEKLAVEALSSLDGDLSGRYYA
Retrocopy HKTDLNADHLQGGDDLDPNYVLSSRVRTGRSIRGFCLPPHCSRGERRAIEKLAVEALSSLDGDLSGRYYA

Parental  LKSMTEAEQQQLIDDHFLFDKPVSPLLLASGMARDWPDARGIWHNDNKTFLVWINEEDHLRVISMQKGGN
          LKSMTEAEQQQLIDDHFLFDKPVSPLLLASGMARDWPDARGIWHNDNKTFLVWINEEDHLRVISMQKGGN
Retrocopy LKSMTEAEQQQLIDDHFLFDKPVSPLLLASGMARDWPDARGIWHNDNKTFLVWINEEDHLRVISMQKGGN

Parental  MKEVFTRFCTGLTQIETLFKSKNYEFMWNPHLGYVLTCPSNLGTGLRAGVHIKLPHLGKHEKFSEVLKRL
          MKEVFTRFCTGLTQIETLFKSKNYEFMWNPHLGYVLTCPSNLGTGLRAGVHIKLPHLGKHEKFSEVLKRL
Retrocopy MKEVFTRFCTGLTQIETLFKSKNYEFMWNPHLGYVLTCPSNLGTGLRAGVHIKLPHLGKHEKFSEVLKRL

Parental  RLQKRGTGGVDTAAVGGVFDVSNADRLGFSEVELVQMVVDGVKLLIDMEQRLEQGQPIDDLMPAQK
          RLQKRGTGGVDTAAVGGVFDVSNADRLGFSEVELVQMVVDGVKLLIDMEQRLEQGQPIDDLMPAQK
Retrocopy RLQKRGTGGVDTAAVGGVFDVSNADRLGFSEVELVQMVVDGVKLLIDMEQRLEQGQPIDDLMPAQK

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_1667 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 7 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018277	5 retrocopies	retro_cfam_1828, retro_cfam_2061, retro_cfam_2159, retro_cfam_274, retro_cfam_664,
Ciona intestinalis	ENSCING00000007141	1 retrocopy	retro_cint_27,
Echinops telfairi	ENSETEG00000008667	1 retrocopy	retro_etel_1667 ,
Echinops telfairi	ENSETEG00000019748	2 retrocopies	retro_etel_1343, retro_etel_2075,
Macropus eugenii	ENSMEUG00000002979	3 retrocopies	retro_meug_1069, retro_meug_1569, retro_meug_2156,
Mus musculus	ENSMUSG00000001270	4 retrocopies	retro_mmus_1460, retro_mmus_1578, retro_mmus_1647, retro_mmus_2390,
Sarcophilus harrisii	ENSSHAG00000016459	2 retrocopies	retro_shar_432, retro_shar_645,