RetrogeneDB ID: retro_nleu_2477

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397359.1:3678009..3678807(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPS2
• Ensembl ID: ENSNLEG00000009364
• Aliases: None
• Description: None

Sequence

>retro_nleu_2477
TCACTAGAGGAGACCAAGAAACAAATTCTGAAGTTGCAGGAGAAGCTTTTGGCCCTATAGGAAGAGAAGCACCAGCTTTT
CCTGCAGCTCAAGAAAGTTTTACATGAGGAAGAAACACGGAGGCGAAAGGAACAGAGTGACCTGACCACGTTGGCATCAG
CTGCATACCAGCAGAGCCTGACTGTTCACACCGGAACATTACTCCTCAGCATGCAGGGGAGCCCTGGAGGACACAATCGC
CCGGGCACCCTCATGGCAGCTGACAGAGCCAAACAAATGTTTGGACCCAAAGTGGTTACGACCCGGCACTACGTTGGCCC
AGCAGCTGCTTTTGCAGAGACACCAGAGCATGGACAATTCCAAGGCAGTCCTGGTGGTGCCTATGGTACTGCTTAGCCCC
CACCTCACTATGGGCCCACACAGCCAGCTTATAGTCCTATTCAGCAGCTCAGAGCTCCTTCGTCCTTCCCTGCAGTGCAG
TACATATCTCAGCCATAGCCACAGCCCTGTGTCCTGCACGGCCACTTTCAGCCCACTGAGACAGATTTCCTCTGGCCTGG
TGGTGCCCTATGCTTGCAAAAGCAGATGGAACATGCTTACCAGCAGACTGGCTTCTCCGACTCATCGTCTTTGCGTCCCA
TGCACCCCCAGGCGCTGCATCCAGCCCCTGGACTCCTTGCTTTCCCGCAGCTCCCTGTGCAGATGCAACCAGCAGGAAAG
TCGGGCTTTGCAGCTACCAGCCAACCTGGCCCTTGGTTCCCCTTCATCCAACACAGCCGGAACCTACGATTCTACCAC

Alignment

ORF - retro_nleu_2477 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.47 %
• Parental protein coverage: 81.35 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SLEETKEQILKLEEKLLALQEEKHQLFLQLKKVLHEEEKRRRKEQSDLTTLTSAAYQQSLTVHTGTHLLS
          SLEETK.QILKL.EKLLAL.EEKHQLFLQLKKVLHEEE.RRRKEQSDLTTL.SAAYQQSLTVHTGT.LLS
Retrocopy SLEETKKQILKLQEKLLAL*EEKHQLFLQLKKVLHEEETRRRKEQSDLTTLASAAYQQSLTVHTGTLLLS

Parental  MQGSPGGHNRPGTLMAADRAKQMFGPQVLTTRHYVGSAAAFAGTPEHGQFQGSPGGAYGTAQPPPHYGPT
          MQGSPGGHNRPGTLMAADRAKQMFGP.V.TTRHYVG.AAAFA.TPEHGQFQGSPGGAYGTA.PPPHYGPT
Retrocopy MQGSPGGHNRPGTLMAADRAKQMFGPKVVTTRHYVGPAAAFAETPEHGQFQGSPGGAYGTA*PPPHYGPT

Parental  QPAYSPSQQLRAPSAFPAVQYLSQPQPQPYAVHGHFQPTQTGFLQPGGALSLQKQMEHANQQTGFSDSSS
          QPAYSP.QQLRAPS.FPAVQY.SQP.PQP...HGHFQPT.T.FL.PGGAL.LQKQMEHA.QQTGFSDSSS
Retrocopy QPAYSPIQQLRAPSSFPAVQYISQP*PQPCVLHGHFQPTETDFLWPGGALCLQKQMEHAYQQTGFSDSSS

Parental  LRPMHPQALHPAPGLLASPQLPVQMQPAGKSGFAATSQPGPRLPFIQHSQNPRFYH
          LRPMHPQALHPAPGLLA.PQLPVQMQPAGKSGFAATSQPGP..PFIQHS.N.RFYH
Retrocopy LRPMHPQALHPAPGLLAFPQLPVQMQPAGKSGFAATSQPGPWFPFIQHSRNLRFYH

Legend:

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

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_2477 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys 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 11 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016576	2 retrocopies	retro_amel_1236, retro_amel_362,
Equus caballus	ENSECAG00000010635	2 retrocopies	retro_ecab_124, retro_ecab_480,
Homo sapiens	ENSG00000132522	2 retrocopies	retro_hsap_2738, retro_hsap_4222,
Gorilla gorilla	ENSGGOG00000001672	1 retrocopy	retro_ggor_1907,
Macropus eugenii	ENSMEUG00000010645	2 retrocopies	retro_meug_1327, retro_meug_182,
Myotis lucifugus	ENSMLUG00000026169	1 retrocopy	retro_mluc_1045,
Mus musculus	ENSMUSG00000023170	1 retrocopy	retro_mmus_1476,
Nomascus leucogenys	ENSNLEG00000009364	2 retrocopies	retro_nleu_2477 , retro_nleu_600,
Pan troglodytes	ENSPTRG00000023046	1 retrocopy	retro_ptro_1852,
Pteropus vampyrus	ENSPVAG00000005052	1 retrocopy	retro_pvam_35,
Sus scrofa	ENSSSCG00000017940	1 retrocopy	retro_sscr_742,