RetrogeneDB ID: retro_etel_1522

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_27685:2..466(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BCAP31
• Ensembl ID: ENSETEG00000008662
• Aliases: None
• Description: B-cell receptor-associated protein 31 [Source:HGNC Symbol;Acc:16695]

Sequence

>retro_etel_1522
ATGAGTCTGCAGTGGCCCGCCGAGGCCACCTTCCTGTACGCCGAGGTCTTCGTCGTGCTGCCTTGGCATCGCCTGCATCC
CCGCGAAAAGGTGGCAGCAGATCTTCAAGTCACGCCTGGTGGAGTTGGTAGTGACATACGGCAACACCTTCTTTGTGGCC
CTCATTGTCATTCTCATACTTCTGCTTGTGGATGCTGGCCGGGAGATCTGGAAGAATGACGACATAACGGAGAAGGTGAG
CCTCCAGCACAACCCTGGCGCCCCGGAGCATTTCCACATGAAGCTGTTGCGTGCTCAGAGGAACCTCTCCATCGCTGGCT
TCGCCTTGCTGCTGTCCTTCCTCTTCGACGCCTGGTGACTCTCATCTCCCAGCAGGCCACCCTGCTGGCCTCCAGTGAAG
CCTTTAAAAAGCAGCAGGGAGCGCCAGTGAGGCGCCCAAGAGGTACATGGAGGAGGACGAGCAG

Alignment

ORF - retro_etel_1522 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.02 %
• Parental protein coverage: 66.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MSLQWTAVATFLYAEVFVVLL-LCIPFIPPKRWQKIFKSRLVELVVTYGNTFFVVLIVILVLLLVDAGRE
          MSLQW.A.ATFLYAEVF.V.L.L.I..IP.KRWQ.IFKSRLVELVVTYGNTFFV.LIVIL.LLLVDAGRE
Retrocopy MSLQWPAEATFLYAEVF-VVL>LGIACIPAKRWQQIFKSRLVELVVTYGNTFFVALIVILILLLVDAGRE

Parental  IWKYDDVTEKVNLQNNPGAMEHFHMKLFRAQRNLYIAGFALLLSFL-LRRLVTLISQQATLLASNEAIKK
          IWK.DD.TEKV.LQ.NPGA.EHFHMKL.RAQRNL.IAGFALLLSFL.LRRLVTLISQQATLLAS.EA.KK
Retrocopy IWKNDDITEKVSLQHNPGAPEHFHMKLLRAQRNLSIAGFALLLSFL<LRRLVTLISQQATLLASSEAFKK

Parental  Q-AESASEAAKKYMEENEQ
          Q.A.SASEA.K.YMEE.EQ
Retrocopy Q<AGSASEAPKRYMEEDEQ

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_1522 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019245	1 retrocopy	retro_cfam_482,
Callithrix jacchus	ENSCJAG00000011348	1 retrocopy	retro_cjac_2552,
Echinops telfairi	ENSETEG00000008025	1 retrocopy	retro_etel_194,
Echinops telfairi	ENSETEG00000008662	1 retrocopy	retro_etel_1522 ,
Macropus eugenii	ENSMEUG00000007345	3 retrocopies	retro_meug_1017, retro_meug_1867, retro_meug_208,
Monodelphis domestica	ENSMODG00000008300	2 retrocopies	retro_mdom_1110, retro_mdom_24,
Sarcophilus harrisii	ENSSHAG00000009111	1 retrocopy	retro_shar_31,