RetrogeneDB - Retrocopy retro_mmur

						
>retro_mmur_877
ATGGGGAAGGAAAAGACATCAGTTATCATCGTCATCGGACACGTAGATTCAGGCAAGTCCACCACTACTGGCCATCTGAT

CTACAAATGTGCTGGGATCGACAAAAGAACCATCAAAAAATTTGAGAAGGAGGTGGCTGAAATGGGAAAGGACTCCTTCA

GGTACGCCTGGGTCTTGGATAAACTGAAAGCTGAGCGTGAGCCTGGTATCACCATTGATATCTCCCTGTGGAAATTTGAG

ACCAGCAAATATTATGTGACTCTTATTGATGCCCCAGGACACAGAGACTTCATCAAAAAACATGATTATAGGCACATCTC

AGGCTGACTGTGCTGTCCTGATTGTTGCTGCTGGTGTTGGTGAACTTGAAGCTGGTATCTCAAAGAATGGGCAGACTCGT

GAGCATGCCCTTCTGGCTTACACACTAGGTGTGAAACAACTGATTGTTGGTGTTAACAAAATGGATTCCACTGAGCCGCC

CTACAACCAGAAGAGATACGAGGATATTGTTAAAGAAGTCAGCACTGACATTAATAAAATTGGCTACAACCCTGACACAG

TAGCATTTATGCCAATTTCTGGCTGGAATGGTGACAACATGTTGGAGCCAAGTGCTAGCATGCCTTGGTTCAAGGGATGG

AAAGTCACCCGTAAAGATGGCAATGCCAGTGGAACCACACTGCTTGAAGCTCTGGGTTGCATCCTGCTACCAACTCGTCC

AACTGACAAGCCCTTGCGTCTGCCTCTCCAGGATGTCTACAAAATTGGTGGTATTGGCACTGTCCCTGTGGGCCGAGTGG

AGACTGGTGTTCTCAAACCCGGCATGATGGTCACCTTTGCTCCAGTCAATGTTACAACTGAAGTAAAG

ORF - retro_mmur_877 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	92.1 %
Parental protein coverage:	62.77 %
Number of stop codons detected:	0
Number of frameshifts detected	1

Retrocopy - Parental Gene Alignment:

									ParentalMGKEKTHINIVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERG
		MGKEKT...I.VIGHVDSGKSTTTGHLIYKC.GIDKRTI.KFEKE.AEMGK.SF.YAWVLDKLKAERE.G
RetrocopyMGKEKTSV-IIVIGHVDSGKSTTTGHLIYKCAGIDKRTIKKFEKEVAEMGKDSFRYAWVLDKLKAEREPG
ParentalITIDISLWKFETSKYYVTIIDAPGHRDFIK-NMITGTSQADCAVLIVAAGVGEFEAGISKNGQTREHALL
		ITIDISLWKFETSKYYVT.IDAPGHRDFIK.NMI.GTSQADCAVLIVAAGVGE.EAGISKNGQTREHALL
RetrocopyITIDISLWKFETSKYYVTLIDAPGHRDFIK>NMIIGTSQADCAVLIVAAGVGELEAGISKNGQTREHALL
ParentalAYTLGVKQLIVGVNKMDSTEPPYSQKRYEEIVKEVSTYIKKIGYNPDTVAFVPISGWNGDNMLEPSANMP
		AYTLGVKQLIVGVNKMDSTEPPY.QKRYE.IVKEVST.I.KIGYNPDTVAF.PISGWNGDNMLEPSA.MP
RetrocopyAYTLGVKQLIVGVNKMDSTEPPYNQKRYEDIVKEVSTDINKIGYNPDTVAFMPISGWNGDNMLEPSASMP
ParentalWFKGWKVTRKDGNASGTTLLEALDCILPPTRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVLKPGMVVT
		WFKGWKVTRKDGNASGTTLLEAL.CIL.PTRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVLKPGM.VT
RetrocopyWFKGWKVTRKDGNASGTTLLEALGCILLPTRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVLKPGMMVT
ParentalFAPVNVTTEVK
		FAPVNVTTEVK
RetrocopyFAPVNVTTEVK

							

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

						

RNA-Seq - click to see more details

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Microcebus murinus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmur_877 retrocopy.

TSS - click to see more details

Microcebus murinus was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmur_877 was not experimentally validated.

Retrocopy orthology:

Microcebus murinus 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 15 parental genes, and 148 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013249	1 retrocopy	retro_cfam_1007,
Dipodomys ordii	ENSDORG00000009629	1 retrocopy	retro_dord_509,
Equus caballus	ENSECAG00000022260	1 retrocopy	retro_ecab_802,
Erinaceus europaeus	ENSEEUG00000000342	3 retrocopies	retro_eeur_407, retro_eeur_492, retro_eeur_625,
Echinops telfairi	ENSETEG00000004236	14 retrocopies	retro_etel_1189, retro_etel_1248, retro_etel_1260, retro_etel_1429, retro_etel_1436, retro_etel_1472, retro_etel_1578, retro_etel_1602, retro_etel_1682, retro_etel_1808, retro_etel_2135, retro_etel_366, retro_etel_411, retro_etel_830,
Gorilla gorilla	ENSGGOG00000025675	20 retrocopies	retro_ggor_1193, retro_ggor_1258, retro_ggor_1305, retro_ggor_1444, retro_ggor_1529, retro_ggor_20, retro_ggor_2006, retro_ggor_2021, retro_ggor_2056, retro_ggor_2066, retro_ggor_2205, retro_ggor_2526, retro_ggor_2637, retro_ggor_2826, retro_ggor_322, retro_ggor_375, retro_ggor_790, retro_ggor_860, retro_ggor_919, retro_ggor_978,
Loxodonta africana	ENSLAFG00000028081	1 retrocopy	retro_lafr_651,
Microcebus murinus	ENSMICG00000015319	21 retrocopies	retro_mmur_1027, retro_mmur_1116, retro_mmur_1145, retro_mmur_1182, retro_mmur_1190, retro_mmur_12, retro_mmur_1282, retro_mmur_1316, retro_mmur_1339, retro_mmur_1343, retro_mmur_1350, retro_mmur_1568, retro_mmur_171, retro_mmur_26, retro_mmur_273, retro_mmur_49, retro_mmur_682, retro_mmur_729, retro_mmur_825, retro_mmur_877 , retro_mmur_9,
Monodelphis domestica	ENSMODG00000018533	4 retrocopies	retro_mdom_1053, retro_mdom_1146, retro_mdom_311, retro_mdom_792,
Mus musculus	ENSMUSG00000037742	15 retrocopies	retro_mmus_1349, retro_mmus_1518, retro_mmus_1667, retro_mmus_1783, retro_mmus_1816, retro_mmus_1849, retro_mmus_1850, retro_mmus_1864, retro_mmus_1909, retro_mmus_2363, retro_mmus_2583, retro_mmus_2902, retro_mmus_3249, retro_mmus_480, retro_mmus_483,
Otolemur garnettii	ENSOGAG00000009152	10 retrocopies	retro_ogar_1215, retro_ogar_1622, retro_ogar_1779, retro_ogar_1840, retro_ogar_2281, retro_ogar_2526, retro_ogar_2557, retro_ogar_3013, retro_ogar_3046, retro_ogar_3271,
Pongo abelii	ENSPPYG00000016777	1 retrocopy	retro_pabe_12,
Ictidomys tridecemlineatus	ENSSTOG00000007687	4 retrocopies	retro_itri_1509, retro_itri_1740, retro_itri_1816, retro_itri_195,
Tupaia belangeri	ENSTBEG00000012151	51 retrocopies	retro_tbel_1084, retro_tbel_1330, retro_tbel_1373, retro_tbel_1452, retro_tbel_166, retro_tbel_1841, retro_tbel_1969, retro_tbel_1994, retro_tbel_2088, retro_tbel_2091, retro_tbel_2179, retro_tbel_2205, retro_tbel_2206, retro_tbel_2218, retro_tbel_2232, retro_tbel_2419, retro_tbel_2505, retro_tbel_259, retro_tbel_2627, retro_tbel_2718, retro_tbel_2738, retro_tbel_2758, retro_tbel_282, retro_tbel_2976, retro_tbel_3032, retro_tbel_3065, retro_tbel_3067, retro_tbel_3281, retro_tbel_3307, retro_tbel_3315, retro_tbel_338, retro_tbel_354, retro_tbel_360, retro_tbel_372, retro_tbel_3813, retro_tbel_3865, retro_tbel_3967, retro_tbel_4125, retro_tbel_4192, retro_tbel_4282, retro_tbel_4352, retro_tbel_4370, retro_tbel_4466, retro_tbel_4496, retro_tbel_4639, retro_tbel_4660, retro_tbel_4695, retro_tbel_473, retro_tbel_588, retro_tbel_620, retro_tbel_903,
Drosophila melanogaster	FBgn0000557	1 retrocopy	retro_dmel_9,

	RetrogeneDB ID:	retro_mmur_877
Retrocopy location	Organism:	*Mouse Lemur (Microcebus murinus)*
	Coordinates:	scaffold_117905:485..1353(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	ENSMICG00000008185
	Aliases:	None
	Status:	KNOWN_PSEUDOGENE
Parental gene information	Parental gene summary:
	Parental gene symbol:	None
	Ensembl ID:	ENSMICG00000015319
	Aliases:	None
	Description:	None

Parental	MGKEKTHINIVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERG
	MGKEKT...I.VIGHVDSGKSTTTGHLIYKC.GIDKRTI.KFEKE.AEMGK.SF.YAWVLDKLKAERE.G
Retrocopy	MGKEKTSV-IIVIGHVDSGKSTTTGHLIYKCAGIDKRTIKKFEKEVAEMGKDSFRYAWVLDKLKAEREPG

Parental	ITIDISLWKFETSKYYVTIIDAPGHRDFIK-NMITGTSQADCAVLIVAAGVGEFEAGISKNGQTREHALL
	ITIDISLWKFETSKYYVT.IDAPGHRDFIK.NMI.GTSQADCAVLIVAAGVGE.EAGISKNGQTREHALL
Retrocopy	ITIDISLWKFETSKYYVTLIDAPGHRDFIK>NMIIGTSQADCAVLIVAAGVGELEAGISKNGQTREHALL

Parental	AYTLGVKQLIVGVNKMDSTEPPYSQKRYEEIVKEVSTYIKKIGYNPDTVAFVPISGWNGDNMLEPSANMP
	AYTLGVKQLIVGVNKMDSTEPPY.QKRYE.IVKEVST.I.KIGYNPDTVAF.PISGWNGDNMLEPSA.MP
Retrocopy	AYTLGVKQLIVGVNKMDSTEPPYNQKRYEDIVKEVSTDINKIGYNPDTVAFMPISGWNGDNMLEPSASMP

Parental	WFKGWKVTRKDGNASGTTLLEALDCILPPTRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVLKPGMVVT
	WFKGWKVTRKDGNASGTTLLEAL.CIL.PTRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVLKPGM.VT
Retrocopy	WFKGWKVTRKDGNASGTTLLEALGCILLPTRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGVLKPGMMVT

Parental	FAPVNVTTEVK
	FAPVNVTTEVK
Retrocopy	FAPVNVTTEVK

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

RetrogeneDB ID:

retro_mmur_877