RetrogeneDB ID:

retro_ogar_1788

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873565.1:3246200..3246613(-)
Located in intron of:ENSOGAG00000030971
Retrocopy
information
Ensembl ID:ENSOGAG00000027008
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM136A
Ensembl ID:ENSOGAG00000028265
Aliases:None
Description:family with sequence similarity 136, member A [Source:HGNC Symbol;Acc:25911]


Retrocopy-Parental alignment summary:






>retro_ogar_1788
ATGGCGGAGGTGCAGCAAGGGTGGGTGCAGGAGGCCATGGACTCCCTGGTGAAGAGTCTGGAGAGAGAGAATATCTGGAA
GATGCAGGGCCTCGTGTTCCGGTGCAGCCCCAACTGCTGCGAGGACAGCCAGGCGTCCATGCAGCAGGTTCACCAGTGCA
TCGAGTGCTGCCATGTGCCTTTGGCTCAAGCTCAGGCTCTGTTGAACCTCGAGTTGGAGAAATTCCAGGTCCACCTGGCC
CCTTGCACCGGGCATTGCAACGACAAAGCCAAAGATTCAATAGATGCAGAGAGTAAAGAGGTCCACGTGAAGCAGCCGCT
GACGGCTGTGTGACTAAGTGTGTTGATGACCGCATGCACCTCATCCCAACTATGCCCCAGAAGATGAAAGAGTCTCTCAT
ATCCATTGGGAAA

ORF - retro_ogar_1788 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.45 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAEVQQVRVQEAVDSMVKSLERENIRKMQGLMFRCSANCCEDSQASMQQVHQCIERCHAPLAQAQALVTL
MAEVQQ..VQEA.DS.VKSLERENI.KMQGL.FRCS.NCCEDSQASMQQVHQCIE.CH.PLAQAQAL..L
RetrocopyMAEVQQGWVQEAMDSLVKSLERENIWKMQGLVFRCSPNCCEDSQASMQQVHQCIECCHVPLAQAQALLNL
ParentalELEKFQDRLARCTMHCNDKAKDSIDAGSKELHVKQQL-DSCVTKCVDDHMHLIPTMTKKMKESLISIGK
ELEKFQ..LA.CT.HCNDKAKDSIDA.SKE.HVKQ.L.D.CVTKCVDD.MHLIPTM..KMKESLISIGK
RetrocopyELEKFQVHLAPCTGHCNDKAKDSIDAESKEVHVKQPL<DGCVTKCVDDRMHLIPTMPQKMKESLISIGK

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






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_1788 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 18 parental genes, and 65 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000159921 retrocopy
retro_amel_1454,
Bos taurus ENSBTAG000000086742 retrocopies
retro_btau_37, retro_btau_88,
Canis familiaris ENSCAFG000000033532 retrocopies
retro_cfam_1042, retro_cfam_148,
Cavia porcellus ENSCPOG000000091171 retrocopy
retro_cpor_221,
Dasypus novemcinctus ENSDNOG000000194477 retrocopies
retro_dnov_2036, retro_dnov_2465, retro_dnov_2612, retro_dnov_324, retro_dnov_620, retro_dnov_873, retro_dnov_901,
Dipodomys ordii ENSDORG000000065294 retrocopies
retro_dord_365, retro_dord_391, retro_dord_733, retro_dord_778,
Felis catus ENSFCAG000000081191 retrocopy
retro_fcat_1459,
Gorilla gorilla ENSGGOG000000232476 retrocopies
retro_ggor_1361, retro_ggor_1625, retro_ggor_2155, retro_ggor_2356, retro_ggor_53, retro_ggor_8,
Macropus eugenii ENSMEUG000000157918 retrocopies
retro_meug_1126, retro_meug_1351, retro_meug_1545, retro_meug_167, retro_meug_2131, retro_meug_219, retro_meug_457, retro_meug_719,
Macaca mulatta ENSMMUG000000079625 retrocopies
retro_mmul_1421, retro_mmul_1772, retro_mmul_220, retro_mmul_327, retro_mmul_656,
Monodelphis domestica ENSMODG000000115331 retrocopy
retro_mdom_65,
Mus musculus ENSMUSG000000574972 retrocopies
retro_mmus_240, retro_mmus_3101,
Otolemur garnettii ENSOGAG00000028265 4 retrocopies
retro_ogar_1788 , retro_ogar_2273, retro_ogar_379, retro_ogar_684,
Rattus norvegicus ENSRNOG000000162731 retrocopy
retro_rnor_1679,
Sus scrofa ENSSSCG000000264466 retrocopies
retro_sscr_1075, retro_sscr_229, retro_sscr_230, retro_sscr_309, retro_sscr_335, retro_sscr_914,
Ictidomys tridecemlineatus ENSSTOG000000083431 retrocopy
retro_itri_1026,
Tupaia belangeri ENSTBEG000000174188 retrocopies
retro_tbel_1377, retro_tbel_1875, retro_tbel_2479, retro_tbel_2516, retro_tbel_3373, retro_tbel_3703, retro_tbel_401, retro_tbel_999,
Tursiops truncatus ENSTTRG000000011985 retrocopies
retro_ttru_1110, retro_ttru_1771, retro_ttru_1903, retro_ttru_396, retro_ttru_550,


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