RetrogeneDB ID: retro_amel_45

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192342.1:3967731..3969390(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSAMEG00000019462
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: GK
• Ensembl ID: ENSAMEG00000009161
• Aliases: None
• Description: glycerol kinase [Source:HGNC Symbol;Acc:4289]

Sequence

>retro_amel_45
ATGGCAGCCCAGAAGAAAGCAGTTGTGGGGCCGTTGGTGGGGGCAGTGGTCCAAGGGACTAATTCCACTCGCTTTCTGGT
TTTCAGTTCAAAAACAGCGGATCTACTTAGTCACCATCAAGTGGAATTAACACAAGAGTTCCCGAAAGAAGGATGGGTGG
AACAAGACCCTAAGGAAATTCTTCAGTCTGTCTATGAGTGTATAGAGAGAACGTGTCAGAAACTTGTTGAACTGAATATT
GATATATCCAACATAAGAGCTATTGGTGTCAGCAATCAGAGGGAAACCACTGTAATCTGGGACAAGTTAACTGGAGAGCC
GCTCTACAATGCTGTGGTGTGGCTTGATCTAAGAACCCAGCCTACCGTTGAAAATCTTAGTAAAAAAATTCCAGGAAATA
ATAACTTTGTCAAGTCCAAGACAGGCCTTCCACTTAGCACGTACTTCAGTGCAGTGAAACTTCGTTGGATTCTTGACAAT
GTGAGTCAAGTTCAAAAGGCTGTTGAAGAGGGAAGAGCTCTTTTTGGTACCATTGATTCATGGCTTATCTGGAGTTTGAC
AGGAGGAGTTAATGGAGGTGTCCATTGTACAGATGTAACAAATGCAAGCAGGACAATGCTTTTCAACATCCATTCCTTGG
AATGGGATAAAGAGCTTTGTGACTTTTTTGAGATTCCAATGGACATTCTTCCAAAGGTATTGAGTTCTTCGGAGATCTAT
GGCCTAATGAAAGTAGGGGCCTTGGAAGGTGTGCCAATATCTGGGTGCTTGGGGGATCAGTCTGCTGCATTGGTAGGACA
AATGTGCTTCCAAGAGGGACAAGCCAAAAACACGTATGGGACAGGCGGTTTCTTACTATGTAATACAGGTCATAAGTGTG
TATTTTCTGAACATGGCCTTCTGACCACAGTGGCTTATAAACTAGGCAGAGACAAGCCAGCATGTTATGCATTGGAAGGT
TCTGTTGGTATAGCTGGTGCTGTTATTCGCTGGTTAAGAGATAATCTTGGAATTATACAGACCTCAGAAGAAATTGAAAC
ACTTGCTAAAGATGTTGGTACTTCTTACGGCTGCTATTTTGTCCCAGCCTTTTCAGGGTTATATGCACCTTATTGGGAGC
CCAGTGCAAGAGGAATAATCTGTGGTCTCACTCAGTTTACCAGTAAAAATCATATTGCTTTTGCTGCATTAGAATCTGTT
TGCTTCCAAACCCGAGAGATTTTGGAAGCCATGAACCGTGACTGTGGAATTCCCCTCAGTCATTTGCAGGTAGATGGAGG
AATGACCAACAACAAAATTCTTATGCAACTACAAGCAGACATTCTGCATATTCCAGTAATAAAGGCCTCTATGTCTGAAA
CAACTGCACTGGGAGCTGCCATGGTTGCAGGAGCTGCAGAAGGAGTGGGCGTTTGGAGTCTTAAACCTGAGGATTTGTCA
GGCGTCATCATGCAACGGTTTGAGCCACAGATCAAGGCGACAGAAAGTGAAATTCGTTACGCTACATGGAAGAAAGCTGT
GATGAAGTCAATGGGTTGGGTTACAACTCAGTCTGAAAGTAGTGATCCTACTATCTTCTCTAGTCTGCCCTTGGGTTTTT
TTATAGTGAGTAGCATGATAATGTTAATTGGAGCAAGATACATCTCAGGGATACCATAA

Alignment

ORF - retro_amel_45 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89. %
• Parental protein coverage: 55.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LKAGALEGVPISGCLGDQSAALVGQMCFQDGQAKNTYGTGCFLLCNTGRKCVFSEHGLLTTVAYKLGRDK
          .K.GALEGVPISGCLGDQSAALVGQMCFQ.GQAKNTYGTG.FLLCNTG.KCVFSEHGLLTTVAYKLGRDK
Retrocopy MKVGALEGVPISGCLGDQSAALVGQMCFQEGQAKNTYGTGGFLLCNTGHKCVFSEHGLLTTVAYKLGRDK

Parental  PVYYALEGSVAIAGAVIRWLRDNLGIIKTSEEIEKLAKEVGTSYGCYFVPAFSGLYAPYWEPSARGIICG
          P..YALEGSV.IAGAVIRWLRDNLGII.TSEEIE.LAK.VGTSYGCYFVPAFSGLYAPYWEPSARGIICG
Retrocopy PACYALEGSVGIAGAVIRWLRDNLGIIQTSEEIETLAKDVGTSYGCYFVPAFSGLYAPYWEPSARGIICG

Parental  LTQFTNKCHIAFAALEAVCFQTREILDAMNRDCGIPLSHLQVDGGMTNNKILMQLQADILYIPVVKPSMP
          LTQFT.K.HIAFAALE.VCFQTREIL.AMNRDCGIPLSHLQVDGGMTNNKILMQLQADIL.IPV.K.SM.
Retrocopy LTQFTSKNHIAFAALESVCFQTREILEAMNRDCGIPLSHLQVDGGMTNNKILMQLQADILHIPVIKASMS

Parental  ETTALGAAMAAGAAEGVGVWSLEPEDLSAVTMERFEPQINAEESEIRYSTWKKAVMKSVGWVTTQSSESG
          ETTALGAAM.AGAAEGVGVWSL.PEDLS.V.M.RFEPQI.A.ESEIRY.TWKKAVMKS.GWVTTQ.SES.
Retrocopy ETTALGAAMVAGAAEGVGVWSLKPEDLSGVIMQRFEPQIKATESEIRYATWKKAVMKSMGWVTTQ-SESS

Parental  DPSIFCSLPLGFFIVSSMVMLIGARYFSG
          DP.IF.SLPLGFFIVSSM.MLIGARY.SG
Retrocopy DPTIFSSLPLGFFIVSSMIMLIGARYISG

Legend:

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

Expression

RNA-Seq

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_amel_45 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_45 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009161	1 retrocopy	retro_amel_45 ,
Canis familiaris	ENSCAFG00000013713	1 retrocopy	retro_cfam_19,
Cavia porcellus	ENSCPOG00000003261	2 retrocopies	retro_cpor_11, retro_cpor_20,
Equus caballus	ENSECAG00000003599	1 retrocopy	retro_ecab_9,
Felis catus	ENSFCAG00000004264	1 retrocopy	retro_fcat_140,
Myotis lucifugus	ENSMLUG00000001046	2 retrocopies	retro_mluc_151, retro_mluc_853,
Monodelphis domestica	ENSMODG00000002417	1 retrocopy	retro_mdom_234,
Oryctolagus cuniculus	ENSOCUG00000013023	2 retrocopies	retro_ocun_2, retro_ocun_81,
Sarcophilus harrisii	ENSSHAG00000006470	1 retrocopy	retro_shar_35,