RetrogeneDB ID: retro_dmel_36

Retrocopy location

• Organism: Fruit fly (Drosophila melanogaster)
• Coordinates: 2L:7031433..7032105(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: FBgn0031882
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Rab1
• Ensembl ID: FBgn0016700
• Aliases: None
• Description: Rab-protein 1 [Source:FlyBase gene name;Acc:FBgn0016700]

Sequence

>retro_dmel_36
ATGGAGGACTACAAGTTCCTGTTCAAAATCGTCCTGGTGGGCAATGCTGGTGTTGGAAAAACATGCCTAGTGCGCCGCTT
TACTCAGGGTCTATTTCCACCTGGCCAGGGTGCCACCATTGGTGTGGATTTCATGATTAAGACCGTGGAGGTGGAGGGCG
AGAAGATCAAGCTACAAATCTGGGACACCGCCGGCCAGGAGCGGTTCCGATCCATCACGCAAAGCTACTATCGATCGGCT
CACGCCTTGATCCTGGTGTACGACATCAGCTGCCAGCCCACATTTGACTGCCTGCCGGACTGGCTGCGCGAGATCCAGGA
GTATGCCAACTCCAAGGTACTCAAAATCCTGGTGGGTAACAAGACGGACAGGGATGATCGAGAGATACCCACCCAGATTG
GCGAAGAGTTCGCCAAGCAGCATGACATGTACTTCTTGGAGACATCCGCCAAGGAGGCAGAGAATGTAGAGCGTCTGTTC
TACGAGATTGCCGCCGAATTGATTGGTCAGGCAAGGAGCAAGGATGGCAGTAGTTCGGCCGCAGCGGCAGCCGCCCAGCG
TCAGTCGGAGGGCAGCTCCATCGGACTGGGGAGCTTCAGTGCCAAGGCAGCGCAGAGCAATTGCTGTGGCGGACTCGCCA
GCGGCGGCTCCAACTCTAGTCAAGGCGGCTGA

Alignment

ORF - retro_dmel_36 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.2 %
• Parental protein coverage: 80.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTI
          .Y..LFK..L.G..GVGK.CL..RF...........TIGVDF.I.T.E..G..IKLQIWDTAGQERFR.I
Retrocopy DYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVEGEKIKLQIWDTAGQERFRSI

Parental  TSSYYRGAHGIIVVYDCTDQESFNNVKQWLEEIERYACENVNKLLVGNKSDLTTKKVVDHTTAAEYAAQL
          T.SYYR.AH..I.VYD...Q..F.....WL.EI..YA...V.K.LVGNK.D.............E.A.Q.
Retrocopy TQSYYRSAHALILVYDISCQPTFDCLPDWLREIQEYANSKVLKILVGNKTDRDDREIPTQI-GEEFAKQH

Parental  GIPFLETSAKSATNVEQAFMTMAAEI
          ...FLETSAK.A.NVE..F...AAE.
Retrocopy DMYFLETSAKEAENVERLFYEIAAEL

Legend:

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

Expression

RNA-Seq

Drosophila melanogaster was not studied using RNA-Seq expression data.

ChIP-Seq

Drosophila melanogaster was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_dmel_36 retrocopy.

TSS

Drosophila melanogaster was not studied using FANTOM5 data.

Lab

retro_dmel_36 was not experimentally validated.

Homology

Retrocopy orthology:

Drosophila melanogaster 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 19 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000001599	1 retrocopy	retro_cjac_931,
Dipodomys ordii	ENSDORG00000002112	1 retrocopy	retro_dord_305,
Echinops telfairi	ENSETEG00000002205	2 retrocopies	retro_etel_1687, retro_etel_413,
Homo sapiens	ENSG00000138069	2 retrocopies	retro_hsap_2362, retro_hsap_3626,
Homo sapiens	ENSG00000174903	1 retrocopy	retro_hsap_4252,
Gorilla gorilla	ENSGGOG00000009755	2 retrocopies	retro_ggor_1792, retro_ggor_2850,
Macropus eugenii	ENSMEUG00000000023	1 retrocopy	retro_meug_1985,
Macaca mulatta	ENSMMUG00000021721	1 retrocopy	retro_mmul_951,
Monodelphis domestica	ENSMODG00000008371	1 retrocopy	retro_mdom_196,
Oryctolagus cuniculus	ENSOCUG00000017003	1 retrocopy	retro_ocun_800,
Pongo abelii	ENSPPYG00000003031	1 retrocopy	retro_pabe_3386,
Pongo abelii	ENSPPYG00000012360	1 retrocopy	retro_pabe_2135,
Pan troglodytes	ENSPTRG00000003915	1 retrocopy	retro_ptro_2892,
Pan troglodytes	ENSPTRG00000011989	1 retrocopy	retro_ptro_1727,
Rattus norvegicus	ENSRNOG00000004992	1 retrocopy	retro_rnor_110,
Sarcophilus harrisii	ENSSHAG00000010376	1 retrocopy	retro_shar_68,
Ictidomys tridecemlineatus	ENSSTOG00000011052	1 retrocopy	retro_itri_1677,
Ictidomys tridecemlineatus	ENSSTOG00000020693	1 retrocopy	retro_itri_1541,
Drosophila melanogaster	FBgn0016700	1 retrocopy	retro_dmel_36 ,