RetrogeneDB ID: retro_meug_1374

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold384:37699..38372(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACTA2
• Ensembl ID: ENSMEUG00000010843
• Aliases: None
• Description: actin, alpha 2, smooth muscle, aorta [Source:HGNC Symbol;Acc:130]

Sequence

>retro_meug_1374
ACTGGTATTGTGATGGACTCTGGTGATGGTGTGACCCAAACTGTGCCCATTTATGAAGCTTATGCCCTTCCACACCATCC
TCCATTTCATCTGGCTGGCTCTGATCTGACAGACTACCTTACAAAGATCCTGAAGGAGAGAGGTTCAAGTTTCACTACCA
CAGTCGAGAGGGACATCGTGCTTAACAACAAGGAGAATCTGTGTTATGTTATTCTAGACTTTGAGCAGGAGATGGCCATT
GATGCATCTAGCTCCTCCCTGGAAAAGAGCTATGAGTTCCCTAATGGTCAGTTTATCACTATTGGCAATGAAAGATTCGG
GTGCACAGAAGCTCTCTTCCAGCCATTTTTCTTAGGTATTGAATCCTGTGGAATTCATGAAACTACCTTCAACTCAATCA
TGAAGTATGATGTTGACATCTATAAGGGTTTGTATGCGAACACCATATTGTCTGGTGGTAACACCATGCACCCAGGCATT
GCCAACAGGATGCAGAAGGAGATTGCAGCCCTAGCTCCCAGTATATTGAAAATTCAAGATTATTGTCCCACCTGAGCCCA
AATACTCAACTGGAGGCTCTATTCTAGTGTCACTTTCCACCTTCCAGCAGATGTGGATGAGGAAGCAGGAGTATGATAAA
TCTGGGCCCTCCATTGTCTACCGCAAATACTTC

Alignment

ORF - retro_meug_1374 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.81 %
• Parental protein coverage: 65.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TQIVLDSGDGVTHNVPIYEGYALPHAIMRLDLAGRDLTDYLMKILTERGYSFVTTAEREIVRDIKEKLCY
          T.IV.DSGDGVT..VPIYE.YALPH......LAG.DLTDYL.KIL.ERG.SF.TT.ER.IV...KE.LCY
Retrocopy TGIVMDSGDGVTQTVPIYEAYALPHH-PPFHLAGSDLTDYLTKILKERGSSFTTTVERDIVLNNKENLCY

Parental  VALDFENEMATAASSSSLEKSYELPDGQVITIGNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDID
          V.LDFE.EMA..ASSSSLEKSYE.P.GQ.ITIGNERF.C.E.LFQP.F.G.ES.GIHETT.NSIMK.D.D
Retrocopy VILDFEQEMAIDASSSSLEKSYEFPNGQFITIGNERFGCTEALFQPFFLGIESCGIHETTFNSIMKYDVD

Parental  IRKDLYANNVLSGGTTMYPGIADRMQKEITALAPSTMKI-KIIAPPERKYSVWIGGSILASLSTFQQMWI
          I.K.LYAN..LSGG.TM.PGIA.RMQKEI.ALAPS..KI.KII.PPE.KYS...GGSIL.SLSTFQQMW.
Retrocopy IYKGLYANTILSGGNTMHPGIANRMQKEIAALAPSILKI>KIIVPPEPKYST--GGSILVSLSTFQQMWM

Parental  SKQEYDEAGPSIVHRKCF
          .KQEYD..GPSIV.RK.F
Retrocopy RKQEYDKSGPSIVYRKYF

Legend:

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

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1374 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1374 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 14 parental genes, and 84 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000759	3 retrocopies	retro_chof_1909, retro_chof_2042, retro_chof_21,
Dasypus novemcinctus	ENSDNOG00000006719	1 retrocopy	retro_dnov_32,
Echinops telfairi	ENSETEG00000008526	1 retrocopy	retro_etel_41,
Macropus eugenii	ENSMEUG00000005463	1 retrocopy	retro_meug_970,
Macropus eugenii	ENSMEUG00000010843	1 retrocopy	retro_meug_1374 ,
Macropus eugenii	ENSMEUG00000016247	57 retrocopies	retro_meug_1006, retro_meug_1010, retro_meug_1018, retro_meug_1042, retro_meug_105, retro_meug_1085, retro_meug_1147, retro_meug_1186, retro_meug_1200, retro_meug_1230, retro_meug_1237, retro_meug_1380, retro_meug_1414, retro_meug_1437, retro_meug_1529, retro_meug_1534, retro_meug_1557, retro_meug_1588, retro_meug_1613, retro_meug_1624, retro_meug_1654, retro_meug_1656, retro_meug_1664, retro_meug_1669, retro_meug_1708, retro_meug_1716, retro_meug_1723, retro_meug_1753, retro_meug_1763, retro_meug_18, retro_meug_1935, retro_meug_1969, retro_meug_197, retro_meug_1982, retro_meug_1991, retro_meug_2100, retro_meug_2176, retro_meug_218, retro_meug_270, retro_meug_333, retro_meug_370, retro_meug_379, retro_meug_468, retro_meug_506, retro_meug_556, retro_meug_574, retro_meug_581, retro_meug_61, retro_meug_735, retro_meug_790, retro_meug_833, retro_meug_90, retro_meug_900, retro_meug_915, retro_meug_924, retro_meug_925, retro_meug_959,
Myotis lucifugus	ENSMLUG00000015509	3 retrocopies	retro_mluc_190, retro_mluc_427, retro_mluc_90,
Nomascus leucogenys	ENSNLEG00000012233	1 retrocopy	retro_nleu_2313,
Oryctolagus cuniculus	ENSOCUG00000008193	3 retrocopies	retro_ocun_1306, retro_ocun_1421, retro_ocun_919,
Pongo abelii	ENSPPYG00000002459	1 retrocopy	retro_pabe_3027,
Sorex araneus	ENSSARG00000005778	1 retrocopy	retro_sara_732,
Tupaia belangeri	ENSTBEG00000017616	3 retrocopies	retro_tbel_1555, retro_tbel_3014, retro_tbel_4616,
Tarsius syrichta	ENSTSYG00000008155	5 retrocopies	retro_tsyr_1282, retro_tsyr_2102, retro_tsyr_858, retro_tsyr_9, retro_tsyr_92,
Vicugna pacos	ENSVPAG00000010621	3 retrocopies	retro_vpac_12, retro_vpac_355, retro_vpac_651,