RetrogeneDB ID:

retro_mdom_1088

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:55066428..55066866(-)
Located in intron of:ENSMODG00000015662
Retrocopy
information
Ensembl ID:ENSMODG00000015654
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000009238
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_1088
AAGCACCCAGATGCTTCTGTGAACTTCTCAGAATTTTCTAAAAAATGCTCAGAAAGGTGGAAGACAATGTCAGCTAAAGA
GAAAGGAAAATTTGAGGACATGGCAAAAACTGATGAGGTTCGTTATGAAAGAGAAATGAAGACCTACATACCACCTAAAG
GAGAAACAAAAAAGAAGTTTAAAGATCCCAATGCACCAAAGAGGCCTCCTTCAGCATTTTTCTTATTCTGTTCTGAGTAT
CATTCAAAAATCAAAGGGGAGCATCCTGGTCTTTTTATTGGAGCTGTGGCCAAAAAATTGGTAGAAATGTGGAATAATAC
TGCTGCAGATGACAAACAACCTTATGAAAAGAAGGCAGCTAAGCTGAAGGAAAAGTATGAAAAGGATATTGCTACATACC
GAGCTAAAGGAAAACCTGATGTGGGTAAAAAGGGAGGT

ORF - retro_mdom_1088 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.52 %
Parental protein coverage: 81.56 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKVRYEREMKTYIPPKGETKKKFKDPNAPKRPP
KHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAK.D.VRYEREMKTYIPPKGETKKKFKDPNAPKRPP
RetrocopyKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKTDEVRYEREMKTYIPPKGETKKKFKDPNAPKRPP
ParentalSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPD
SAFFLFCSEY..KIKGEHPGL.IG.VAKKL.EMWNNTAADDKQPYEKKAAKLKEKYEKDIA.YRAKGKPD
RetrocopySAFFLFCSEYHSKIKGEHPGLFIGAVAKKLVEMWNNTAADDKQPYEKKAAKLKEKYEKDIATYRAKGKPD
ParentalVGKKGG
VGKKGG
RetrocopyVGKKGG

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 0 .00 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .00 RPM
SRP007412_liver 0 .00 RPM 0 .00 RPM
SRP007412_testis 0 .00 RPM 0 .00 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1088 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1088 was not experimentally validated.

Retrocopy orthology:
Monodelphis domestica 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 36 parental genes, and 586 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000088807 retrocopies
Bos taurus ENSBTAG000000181032 retrocopies
Canis familiaris ENSCAFG0000000659713 retrocopies
Choloepus hoffmanni ENSCHOG0000000242316 retrocopies
Callithrix jacchus ENSCJAG0000002161511 retrocopies
Cavia porcellus ENSCPOG000000039851 retrocopy
Equus caballus ENSECAG000000084392 retrocopies
Echinops telfairi ENSETEG0000000404818 retrocopies
Felis catus ENSFCAG0000000020010 retrocopies
Homo sapiens ENSG0000018940337 retrocopies
Gorilla gorilla ENSGGOG0000002676423 retrocopies
Loxodonta africana ENSLAFG000000002694 retrocopies
Macropus eugenii ENSMEUG000000013802 retrocopies
Microcebus murinus ENSMICG000000005731 retrocopy
Microcebus murinus ENSMICG000000071447 retrocopies
Myotis lucifugus ENSMLUG0000002597917 retrocopies
Macaca mulatta ENSMMUG000000233993 retrocopies
Monodelphis domestica ENSMODG000000035273 retrocopies
Monodelphis domestica ENSMODG000000057357 retrocopies
Monodelphis domestica ENSMODG00000009238 14 retrocopies
Mus musculus ENSMUSG00000066551129 retrocopies
retro_mmus_1025, retro_mmus_1037, retro_mmus_1047, retro_mmus_1065, retro_mmus_1094, retro_mmus_1112, retro_mmus_1113, retro_mmus_1114, retro_mmus_1115, retro_mmus_1128, retro_mmus_1135, retro_mmus_1140, retro_mmus_1178, retro_mmus_1181, retro_mmus_1209, retro_mmus_1284, retro_mmus_1302, retro_mmus_1351, retro_mmus_1407, retro_mmus_1423, retro_mmus_1508, retro_mmus_1553, retro_mmus_1554, retro_mmus_1584, retro_mmus_1672, retro_mmus_1705, retro_mmus_1706, retro_mmus_1712, retro_mmus_1716, retro_mmus_1725, retro_mmus_1775, retro_mmus_1794, retro_mmus_1800, retro_mmus_1822, retro_mmus_1845, retro_mmus_1871, retro_mmus_1989, retro_mmus_2015, retro_mmus_2077, retro_mmus_2080, retro_mmus_2096, retro_mmus_2191, retro_mmus_2194, retro_mmus_2199, retro_mmus_2209, retro_mmus_2224, retro_mmus_2229, retro_mmus_2280, retro_mmus_2300, retro_mmus_2324, retro_mmus_2404, retro_mmus_2407, retro_mmus_2409, retro_mmus_2414, retro_mmus_2420, retro_mmus_2425, retro_mmus_2467, retro_mmus_2469, retro_mmus_2524, retro_mmus_2532, retro_mmus_2627, retro_mmus_2670, retro_mmus_2682, retro_mmus_2702, retro_mmus_2719, retro_mmus_2754, retro_mmus_2789, retro_mmus_2815, retro_mmus_2823, retro_mmus_2866, retro_mmus_2877, retro_mmus_2886, retro_mmus_292, retro_mmus_2923, retro_mmus_2936, retro_mmus_2940, retro_mmus_2954, retro_mmus_2965, retro_mmus_2977, retro_mmus_303, retro_mmus_3046, retro_mmus_3056, retro_mmus_3059, retro_mmus_3067, retro_mmus_3070, retro_mmus_3075, retro_mmus_3102, retro_mmus_3106, retro_mmus_3121, retro_mmus_3169, retro_mmus_3175, retro_mmus_319, retro_mmus_3190, retro_mmus_3199, retro_mmus_3207, retro_mmus_3239, retro_mmus_3289, retro_mmus_3322, retro_mmus_3353, retro_mmus_3375, retro_mmus_3476, retro_mmus_3494, retro_mmus_3533, retro_mmus_359, retro_mmus_3612, retro_mmus_3676, retro_mmus_3692, retro_mmus_3715, retro_mmus_418, retro_mmus_515, retro_mmus_530, retro_mmus_574, retro_mmus_599, retro_mmus_618, retro_mmus_623, retro_mmus_624, retro_mmus_634, retro_mmus_704, retro_mmus_705, retro_mmus_785, retro_mmus_813, retro_mmus_839, retro_mmus_855, retro_mmus_881, retro_mmus_903, retro_mmus_906, retro_mmus_930, retro_mmus_965, retro_mmus_981,
Nomascus leucogenys ENSNLEG0000000072033 retrocopies
Oryctolagus cuniculus ENSOCUG0000002133516 retrocopies
Otolemur garnettii ENSOGAG00000003205104 retrocopies
retro_ogar_1008, retro_ogar_1043, retro_ogar_106, retro_ogar_1133, retro_ogar_123, retro_ogar_1232, retro_ogar_1296, retro_ogar_1299, retro_ogar_1330, retro_ogar_1386, retro_ogar_1398, retro_ogar_1399, retro_ogar_1421, retro_ogar_1423, retro_ogar_1424, retro_ogar_1431, retro_ogar_1461, retro_ogar_1560, retro_ogar_1571, retro_ogar_1585, retro_ogar_1597, retro_ogar_1600, retro_ogar_1607, retro_ogar_1628, retro_ogar_163, retro_ogar_1664, retro_ogar_1698, retro_ogar_17, retro_ogar_172, retro_ogar_1738, retro_ogar_1758, retro_ogar_1781, retro_ogar_1843, retro_ogar_1844, retro_ogar_1861, retro_ogar_1867, retro_ogar_1878, retro_ogar_1894, retro_ogar_1896, retro_ogar_198, retro_ogar_1991, retro_ogar_2136, retro_ogar_2165, retro_ogar_219, retro_ogar_2282, retro_ogar_2318, retro_ogar_2319, retro_ogar_2352, retro_ogar_2385, retro_ogar_2403, retro_ogar_2429, retro_ogar_2436, retro_ogar_2458, retro_ogar_250, retro_ogar_2559, retro_ogar_2598, retro_ogar_2615, retro_ogar_2618, retro_ogar_2730, retro_ogar_2777, retro_ogar_2778, retro_ogar_2814, retro_ogar_2824, retro_ogar_2836, retro_ogar_284, retro_ogar_2845, retro_ogar_2891, retro_ogar_2894, retro_ogar_2906, retro_ogar_2961, retro_ogar_3008, retro_ogar_3018, retro_ogar_3028, retro_ogar_304, retro_ogar_311, retro_ogar_3136, retro_ogar_317, retro_ogar_320, retro_ogar_3208, retro_ogar_3230, retro_ogar_3325, retro_ogar_3330, retro_ogar_3355, retro_ogar_3374, retro_ogar_3500, retro_ogar_422, retro_ogar_435, retro_ogar_511, retro_ogar_542, retro_ogar_547, retro_ogar_634, retro_ogar_663, retro_ogar_698, retro_ogar_716, retro_ogar_772, retro_ogar_778, retro_ogar_8, retro_ogar_835, retro_ogar_890, retro_ogar_904, retro_ogar_912, retro_ogar_918, retro_ogar_92, retro_ogar_933,
Otolemur garnettii ENSOGAG000000321471 retrocopy
Ochotona princeps ENSOPRG000000035078 retrocopies
Procavia capensis ENSPCAG000000022012 retrocopies
Pongo abelii ENSPPYG0000000554635 retrocopies
Pteropus vampyrus ENSPVAG000000014316 retrocopies
Rattus norvegicus ENSRNOG000000298131 retrocopy
Sorex araneus ENSSARG0000000447014 retrocopies
Sarcophilus harrisii ENSSHAG000000140342 retrocopies
Sus scrofa ENSSSCG000000093273 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000000044319 retrocopies
Tarsius syrichta ENSTSYG000000063287 retrocopies
Tursiops truncatus ENSTTRG000000103278 retrocopies



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