RetrogeneDB ID: retro_mluc_2456

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430438:345605..346168(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDC42
• Ensembl ID: ENSMLUG00000013365
• Aliases: None
• Description: None

Sequence

>retro_mluc_2456
ATGCAGACAATTAAATGCATTATTGTGGGCGATGGTGCCATTGTTAAGACATGTCTCCTAATATCCTACACAATAAGCAA
ATTTCCATCTGACTATGTACCAACTGTTTTTGACAACTATGTAGTCACAATTGTGATTGGTGGAGAGCCATACTCTTAGA
CTTTTTGATACAGCAGGGCAAGAGAATATGACAAGATTTTGACTGCTGAGTTATCCACAAGCAGATGTATTTCTAGTCTG
TTTTTCAGTGGTCTCTCCATCCTCATTTGAAAACATTAAAGAAAAGTGGTGCCTGAAATAACTCACTACTGTCCATAGAC
TCCTTTTTCTTGCTTGTTGGGACCCAAATTGATCTCAGAGATGACCCCTCTACTATTGAAACTTGCCAAGAACAAACAAA
AGCCTATCATTCAGGCTGCTGAAAAACTGGCCCGTGACCTGAAGGCCGTCAAATATGTGGAGCATTCTGCACTCACACAG
AAAGGCCTAAAGAATATATTTGATGAAGCAAATTGGCTGCCCTGGAGCCCCCAGAACAGAAGAGCTGCAGGTGTGTGTTG
CTA

Alignment

ORF - retro_mluc_2456 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.31 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGG-EPYTLGLFDTAGQEDYDRLRP
          MQTIKC..VGDGA..KTCLLISYT..KFPS.YVPTVFDNY.V.....G.E..TL.LFDTAGQE...R...
Retrocopy MQTIKCIIVGDGAIVKTCLLISYTISKFPSDYVPTVFDNY-VVTIVIG>ESHTLRLFDTAGQENMTRF*L

Parental  LSYPQTDVFLVCFSVVSPSSFENVKEKW-VPEITHHCPKTPF-LLVGTQIDLRDDPSTIEKLAKNKQKPI
          LSYPQ.DVFLVCFSVVSPSSFEN.KEKW.VPEITH.CP.TPF..L.G........P....KLAKNKQKPI
Retrocopy LSYPQADVFLVCFSVVSPSSFENIKEKW<VPEITHYCP*TPFSCLLGPKLISEMTPLLL-KLAKNKQKPI

Parental  TPETAEKLARDLKAVKYVECSALTQKGLKNVFDEA-ILAALEPPEPKKSRRCVLL
          ....AEKLARDLKAVKYVE.SALTQKGLKN.FDEA..LAALEPPE..KS.RCVLL
Retrocopy I-QAAEKLARDLKAVKYVEHSALTQKGLKNIFDEA<KLAALEPPE-QKSCRCVLL

Legend:

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

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_2456 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 17 parental genes, and 55 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014707	5 retrocopies	retro_cfam_1587, retro_cfam_1970, retro_cfam_2189, retro_cfam_88, retro_cfam_89,
Choloepus hoffmanni	ENSCHOG00000005306	10 retrocopies	retro_chof_103, retro_chof_1044, retro_chof_1195, retro_chof_1853, retro_chof_2055, retro_chof_2105, retro_chof_2331, retro_chof_2407, retro_chof_50, retro_chof_800,
Callithrix jacchus	ENSCJAG00000005912	6 retrocopies	retro_cjac_1275, retro_cjac_1808, retro_cjac_1826, retro_cjac_2251, retro_cjac_751, retro_cjac_911,
Cavia porcellus	ENSCPOG00000006543	4 retrocopies	retro_cpor_1168, retro_cpor_286, retro_cpor_33, retro_cpor_887,
Equus caballus	ENSECAG00000019180	1 retrocopy	retro_ecab_11,
Felis catus	ENSFCAG00000004853	4 retrocopies	retro_fcat_129, retro_fcat_1421, retro_fcat_1579, retro_fcat_896,
Homo sapiens	ENSG00000070831	6 retrocopies	retro_hsap_2775, retro_hsap_2968, retro_hsap_3028, retro_hsap_3404, retro_hsap_3848, retro_hsap_4013,
Myotis lucifugus	ENSMLUG00000001567	1 retrocopy	retro_mluc_595,
Myotis lucifugus	ENSMLUG00000009701	1 retrocopy	retro_mluc_1059,
Myotis lucifugus	ENSMLUG00000012668	2 retrocopies	retro_mluc_326, retro_mluc_860,
Myotis lucifugus	ENSMLUG00000013365	4 retrocopies	retro_mluc_1076, retro_mluc_1864, retro_mluc_2456 , retro_mluc_905,
Monodelphis domestica	ENSMODG00000016078	3 retrocopies	retro_mdom_18, retro_mdom_181, retro_mdom_537,
Mustela putorius furo	ENSMPUG00000015999	2 retrocopies	retro_mputfur_308, retro_mputfur_957,
Oryctolagus cuniculus	ENSOCUG00000009986	1 retrocopy	retro_ocun_60,
Otolemur garnettii	ENSOGAG00000014261	1 retrocopy	retro_ogar_131,
Sorex araneus	ENSSARG00000005184	3 retrocopies	retro_sara_10, retro_sara_220, retro_sara_3,
Sus scrofa	ENSSSCG00000003520	1 retrocopy	retro_sscr_899,