RetrogeneDB ID:

retro_amel_203

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192352.1:3312331..3312886(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSAMEG00000016712
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_amel_203
TGCAACTATCTTCGGTCATCCAGAATCCAGGTTCATCCAACACCAGCTGCCTCCACCATGCCCCCTGAGTTCGACTCCTA
TGAGATCAAAGTTGTGTACCTGAGGTGCACTTGTGGCAAAGTTGGTGCCACCAGGGTCTGCCCTGGCCCTGAAGATCGGC
CCATTGGGTCTGTCTCCAAAAATGTTGGTGATGACATCGCCAAAGTGACCAGTGATTGGAAGGGTTTAAGGATTATAGTG
AAACTGACCATTCAGAACAGACAGGCCCAGATTGAAGTGGTATCTTCTGCCTCTATCCTGATTATCAAAGCCTTCAAAGA
CCCACCAAGAGATAGAAAGAGACAGAAAACCATTAAGCACAGTGGAAATACCACTTTTGATGAGATTGTCAATATTGCCT
GACAAATGCAAAACCGTTCTTTAGCCAGACAACTCCCTGGAACCATTAAAGAGATCCTGGGGACTGCCCAGTCTGTGGGC
TGCAATGTTGATGGCCACCACTCTCATAACATCATGGATGACATCAATAGTGGTGCAGTAGAATGCCCAGCTATT

ORF - retro_amel_203 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.3 %
Parental protein coverage: 95.83 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalCNCLRSSRIRVHPTPATSAMPPKFDPNEIKVVYLRCTGGEVGATSAL-APKIGPLGLSPKKVGDDIAKAT
CN.LRSSRI.VHPTPA.S.MPP.FD..EIKVVYLRCT.G.VGAT.....P...P.G...K.VGDDIAK.T
RetrocopyCNYLRSSRIQVHPTPAASTMPPEFDSYEIKVVYLRCTCGKVGATRVCPGPEDRPIGSVSKNVGDDIAKVT
ParentalGDWKGLRITVKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHRS
.DWKGLRI.VKLTIQNRQAQIEVV.SAS.LIIKA.K.PPRDRK.QK.IKHSGN.TFDEIVNIA.QM..RS
RetrocopySDWKGLRIIVKLTIQNRQAQIEVVSSASILIIKAFKDPPRDRKRQKTIKHSGNTTFDEIVNIA*QMQNRS
ParentalLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGAVECPAV
LAR.L.GTIKEILGTAQSVGCNVDG.H.H.I.DDINSGAVECPA.
RetrocopyLARQLPGTIKEILGTAQSVGCNVDGHHSHNIMDDINSGAVECPAI

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






Ailuropoda melanoleuca was not studied using RNA-Seq expression data.
Ailuropoda melanoleuca was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_amel_203 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_203 was not experimentally validated.

Retrocopy orthology:
Ailuropoda melanoleuca 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 17 parental genes, and 344 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000016712 15 retrocopies
Canis familiaris ENSCAFG0000002013631 retrocopies
Cavia porcellus ENSCPOG0000001376918 retrocopies
Equus caballus ENSECAG0000001062217 retrocopies
Echinops telfairi ENSETEG000000069417 retrocopies
Felis catus ENSFCAG0000001030231 retrocopies
Latimeria chalumnae ENSLACG000000153733 retrocopies
Macropus eugenii ENSMEUG0000000738012 retrocopies
Myotis lucifugus ENSMLUG000000095512 retrocopies
Myotis lucifugus ENSMLUG000000134041 retrocopy
Monodelphis domestica ENSMODG000000045719 retrocopies
Mustela putorius furoENSMPUG0000001383234 retrocopies
Otolemur garnettii ENSOGAG00000000597120 retrocopies
retro_ogar_1002, retro_ogar_1010, retro_ogar_1049, retro_ogar_1069, retro_ogar_1106, retro_ogar_1117, retro_ogar_1137, retro_ogar_1140, retro_ogar_1181, retro_ogar_1188, retro_ogar_1189, retro_ogar_1192, retro_ogar_1230, retro_ogar_1247, retro_ogar_1263, retro_ogar_1295, retro_ogar_1331, retro_ogar_1341, retro_ogar_1408, retro_ogar_1409, retro_ogar_1427, retro_ogar_1457, retro_ogar_1464, retro_ogar_1489, retro_ogar_1503, retro_ogar_1534, retro_ogar_1536, retro_ogar_1550, retro_ogar_1569, retro_ogar_1570, retro_ogar_1579, retro_ogar_1606, retro_ogar_1621, retro_ogar_1709, retro_ogar_1717, retro_ogar_1739, retro_ogar_1789, retro_ogar_1803, retro_ogar_1810, retro_ogar_1825, retro_ogar_1836, retro_ogar_1881, retro_ogar_1885, retro_ogar_1916, retro_ogar_1923, retro_ogar_1937, retro_ogar_1941, retro_ogar_1948, retro_ogar_1969, retro_ogar_1975, retro_ogar_1987, retro_ogar_2055, retro_ogar_2115, retro_ogar_2134, retro_ogar_2172, retro_ogar_2179, retro_ogar_2180, retro_ogar_2208, retro_ogar_2209, retro_ogar_2230, retro_ogar_2291, retro_ogar_2323, retro_ogar_2387, retro_ogar_2483, retro_ogar_2495, retro_ogar_2511, retro_ogar_2570, retro_ogar_2620, retro_ogar_2622, retro_ogar_2624, retro_ogar_2749, retro_ogar_2768, retro_ogar_2809, retro_ogar_2904, retro_ogar_2935, retro_ogar_2945, retro_ogar_2953, retro_ogar_2980, retro_ogar_3004, retro_ogar_3017, retro_ogar_303, retro_ogar_3035, retro_ogar_3128, retro_ogar_3135, retro_ogar_3164, retro_ogar_3394, retro_ogar_3489, retro_ogar_395, retro_ogar_398, retro_ogar_412, retro_ogar_427, retro_ogar_452, retro_ogar_480, retro_ogar_512, retro_ogar_513, retro_ogar_538, retro_ogar_560, retro_ogar_587, retro_ogar_624, retro_ogar_636, retro_ogar_653, retro_ogar_655, retro_ogar_667, retro_ogar_668, retro_ogar_669, retro_ogar_683, retro_ogar_700, retro_ogar_734, retro_ogar_737, retro_ogar_744, retro_ogar_747, retro_ogar_775, retro_ogar_818, retro_ogar_853, retro_ogar_868, retro_ogar_901, retro_ogar_927, retro_ogar_956, retro_ogar_962, retro_ogar_964,
Rattus norvegicus ENSRNOG000000162204 retrocopies
Sarcophilus harrisii ENSSHAG000000178648 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000274257 retrocopies
Tupaia belangeri ENSTBEG0000000630425 retrocopies



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