RetrogeneDB ID: retro_chof_277

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: GeneScaffold_6100:5371..6048(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RRM2B
• Ensembl ID: ENSCHOG00000012265
• Aliases: None
• Description: ribonucleotide reductase M2 B (TP53 inducible) [Source:HGNC Symbol;Acc:17296]

Sequence

>retro_chof_277
TTTGCAGCAAGTGATGGCATAGTAAATCAAAACTTGGTGGAGCTATTTAGCCAAGAAGTTCAGATTACGGAAGCCTGCTG
CTTCTATGGCTTCCAAATTGCCATGGAAAACATGCATTCTGAAATGTATAGTCTCCTTATCAACACTTACATTAACGATT
CCAAAGAAAGGGAATTTCTCTTCAATGCAATTGAAACAATGCCTTGCGTAAAGAAGAAGGCAGACTGGGCCTTGCATTGG
ATTGGGAACAAAGAAGTTACCTATGGAGAACATGTTGTAGCCTTTGCAGCAGTAGAAGGAATCTTCTTTTCTGGTTCTTT
TGCATCCATCTTCTGGCTCAAGAAATGAGGATTGATGCCTGGCCTCACATTTTCCAATGAACTTATTAGCAGAGATGAGG
GTTTACACTGTGACTTTGCCTGCCTCATGTTTAAACACCTGCTTCACAAACCTTCGGAAGGAAAGTAAAAGAAATAATTA
TCAATGCTGTTAGGATAGAACAGGCGTTCCTTATGGGGGCCTTGCTTGTCAAGCTGATGGGAATGAATTGCACTTTAATG
AAGCAGTACATTGAATTCGTGGCAGACAGACTTATGCTGGAACTGGGTTTCAGCAAGGTTTTCAGAGTGCAGAGTCCCTT
TGACTTTATGGAGAATATTTCACAGGAAGGGAAGACA

Alignment

ORF - retro_chof_277 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.3 %
• Parental protein coverage: 64.29 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FAASDGIVNEN-VERFSQEVQVPEARCFYGFQILIENVHSEMYSLLIDTYIRDPKKREFLFNAIETMPYV
          FAASDGIVN.N.VE.FSQEVQ..EA.CFYGFQI..EN.HSEMYSLLI.TYI.D.K.REFLFNAIETMP.V
Retrocopy FAASDGIVNQNLVELFSQEVQITEACCFYGFQIAMENMHSEMYSLLINTYINDSKEREFLFNAIETMPCV

Parental  KKKADWALRWIADRKSTFGERVVAFAAVEGIFFSGSFAAIFWLKKRGLMPGLTFSNELISRDEGLHCDFA
          KKKADWAL.WI.....T.GE.VVAFAAVEGIFFSGSFA.IFWLKK.GLMPGLTFSNELISRDEGLHCDFA
Retrocopy KKKADWALHWIGNKEVTYGEHVVAFAAVEGIFFSGSFASIFWLKK*GLMPGLTFSNELISRDEGLHCDFA

Parental  CLMFQYLVNKPSE-ERVREIIINAVEIEQEFLTEALPVGLIGMNCVLMKQYIEFVADRLLVELGFSKVFQ
          CLMF..L..KPSE...V.EIIINAV.IEQ.FL..AL.V.L.GMNC.LMKQYIEFVADRL..ELGFSKVF.
Retrocopy CLMFKHLLHKPSE<RKVKEIIINAVRIEQAFLMGALLVKLMGMNCTLMKQYIEFVADRLMLELGFSKVFR

Parental  AENPFDFMENISLEGKT
          ...PFDFMENIS.EGKT
Retrocopy VQSPFDFMENISQEGKT

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST

Choloepus hoffmanni was not studied using EST data.

TSS

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab

retro_chof_277 was not experimentally validated.

Homology

Retrocopy orthology:

Choloepus hoffmanni 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012265	4 retrocopies	retro_chof_1118, retro_chof_1233, retro_chof_277 , retro_chof_692,
Callithrix jacchus	ENSCJAG00000015923	1 retrocopy	retro_cjac_4130,
Echinops telfairi	ENSETEG00000020338	1 retrocopy	retro_etel_1219,
Gorilla gorilla	ENSGGOG00000003053	1 retrocopy	retro_ggor_3001,
Mus musculus	ENSMUSG00000022292	1 retrocopy	retro_mmus_988,
Otolemur garnettii	ENSOGAG00000004487	1 retrocopy	retro_ogar_2602,
Pan troglodytes	ENSPTRG00000020481	1 retrocopy	retro_ptro_3204,
Ictidomys tridecemlineatus	ENSSTOG00000008543	2 retrocopies	retro_itri_1555, retro_itri_877,
Tupaia belangeri	ENSTBEG00000008855	1 retrocopy	retro_tbel_3693,