RetrogeneDB ID:

retro_mmus_1833

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:19:41525339..41526308(+)
Located in intron of:ENSMUSG00000025019
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Morf4l1
Ensembl ID:ENSMUSG00000062270
Aliases:Morf4l1, MORFRG15, MRG15, TEG-189, Tex189, mKIAA4002
Description:mortality factor 4 like 1 [Source:MGI Symbol;Acc:MGI:1096551]


Retrocopy-Parental alignment summary:






>retro_mmus_1833
ATGGCGCCCAAGCAGGACCCTAAGCCGAAATTCCAGGAGGGCGAGCGAGTGCTGTGCTTTCATGGGCCTCTTCTCTATGA
AGCAAAGTGTGTAAAGGTTGCCATAAAGGACAAACAAGTGAAATACTTCATCCATTACAGTGGCTGGAATAAAAATTGGG
ATGAATGGGTGCCAGAAAGCAGAGTACTCAAATACGTGGACACCAATTTGCAGAAACAGCGAGAACTTCAAAAGGCCAAT
CAGGAACAATATGCAGAGGGCAAGATGAGAGGGGCTGCTCCGGGGAAGAAGACATCCGGCCTGCAACAGAAAAATGTCGA
AGTGAAAACAAAAAAGAACAAGCAGAAAACACCTGGAAATGGAGATGGTGGCAGTACCAGTGAGACACCTCAGCCTCCTA
GGAAGAAGAGAGCCCGGGTAGATCCTACCGTTGAAAATGAAGAAACCTTCATGAACAGAGTTGAAGTTAAAGTGAAGATC
CCTGAAGAGCTGAAACCCTGGCTTGTGGATGACTGGGACTTGATCACCAGACAAAAGCAGCTTTTTTATCTTCCTGCCAA
GAAGAATGTGGATTCCATTTTGGAGGATTATGCAAATTATAAGAAGTCTCGAGGAAATACAGATAATAAAGAGTATGCTG
TTAATGAGGTGGTGGCAGGCATAAAGGAGTACTTCAATGTCATGTTGGGCACTCAGCTTCTCTACAAGTTTGAGAGACCA
CAGTACGCTGAAATCCTCACCGACCACCCGGATGCGCCCATGTCCCAGGTGTACGGAGCGCCACATTTGCTGAGATTATT
TGTGCGAATTGGAGCGATGTTGGCCTACACGCCTCTAGATGAGAAAAGCCTTGCTTTATTACTGAACTATCTACATGATT
TTCTCAAGTACCTGGCGAAGAATTCTGCAACCTTGTTCAGTGCCAGTGATTATGAAGTGGCCCCTCCTGAGTACCATCGG
AAAGCCGTG

ORF - retro_mmus_1833 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.69 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMAPKQDPKPKFQEGERVLCFHGPLLYEAKCVKVAIKDKQVKYFIHYSGWNKNWDEWVPESRVLKYVDTNL
MAPKQDPKPKFQEGERVLCFHGPLLYEAKCVKVAIKDKQVKYFIHYSGWNKNWDEWVPESRVLKYVDTNL
RetrocopyMAPKQDPKPKFQEGERVLCFHGPLLYEAKCVKVAIKDKQVKYFIHYSGWNKNWDEWVPESRVLKYVDTNL
ParentalQKQRELQKANQEQYAEGKMRGAAPGKKTSGLQQKNVEVKTKKNKQKTPGNGDGGSTSETPQPPRKKRARV
QKQRELQKANQEQYAEGKMRGAAPGKKTSGLQQKNVEVKTKKNKQKTPGNGDGGSTSETPQPPRKKRARV
RetrocopyQKQRELQKANQEQYAEGKMRGAAPGKKTSGLQQKNVEVKTKKNKQKTPGNGDGGSTSETPQPPRKKRARV
ParentalDPTVENEETFMNRVEVKVKIPEELKPWLVDDWDLITRQKQLFYLPAKKNVDSILEDYANYKKSRGNTDNK
DPTVENEETFMNRVEVKVKIPEELKPWLVDDWDLITRQKQLFYLPAKKNVDSILEDYANYKKSRGNTDNK
RetrocopyDPTVENEETFMNRVEVKVKIPEELKPWLVDDWDLITRQKQLFYLPAKKNVDSILEDYANYKKSRGNTDNK
ParentalEYAVNEVVAGIKEYFNVMLGTQLLYKFERPQYAEILADHPDAPMSQVYGAPHLLRLFVRIGAMLAYTPLD
EYAVNEVVAGIKEYFNVMLGTQLLYKFERPQYAEIL.DHPDAPMSQVYGAPHLLRLFVRIGAMLAYTPLD
RetrocopyEYAVNEVVAGIKEYFNVMLGTQLLYKFERPQYAEILTDHPDAPMSQVYGAPHLLRLFVRIGAMLAYTPLD
ParentalEKSLALLLNYLHDFLKYLAKNSATLFSASDYEVAPPEYHRKAV
EKSLALLLNYLHDFLKYLAKNSATLFSASDYEVAPPEYHRKAV
RetrocopyEKSLALLLNYLHDFLKYLAKNSATLFSASDYEVAPPEYHRKAV

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .21 RPM 63 .48 RPM
SRP007412_cerebellum 0 .52 RPM 59 .70 RPM
SRP007412_heart 0 .06 RPM 56 .63 RPM
SRP007412_kidney 0 .52 RPM 53 .38 RPM
SRP007412_liver 0 .36 RPM 54 .75 RPM
SRP007412_testis 4 .03 RPM 301 .19 RPM

ChIP-Seq - click to see more details

RNA Polymerase II activity near the 5' end of retro_mmus_1833 was not detected

EST - click to see more details

86 EST(s) were mapped to retro_mmus_1833 retrocopy
EST ID Start End Identity Match Mis-match Score
BI109473 41525306 41525676 100 370 0 370
BM877288 41525311 41525837 99.7 524 1 521
BQ569188 41525297 41525668 100 371 0 371
BU554770 41525304 41525661 99.8 355 1 353
BU605110 41525267 41525801 100 534 0 534
BY035107 41525301 41525655 100 354 0 354
BY040931 41525299 41525721 100 422 0 422
BY051962 41525274 41525648 99.8 373 1 372
BY055454 41525310 41525678 100 368 0 368
BY066072 41525326 41525699 100 373 0 373
BY073119 41525294 41525662 100 368 0 368
BY081362 41525294 41525649 100 355 0 355
BY086743 41525277 41525648 100 370 0 369
BY105891 41525309 41525697 100 388 0 388
BY126973 41525316 41525682 100 366 0 366
BY136865 41525324 41525693 99.8 368 1 367
BY142823 41525335 41525698 100 363 0 363
BY228275 41525263 41525695 99.4 429 3 426
BY300385 41525329 41525700 100 371 0 371
BY306251 41525333 41525674 100 341 0 341
BY308990 41525294 41525684 99.5 388 2 386
BY310792 41525326 41525677 100 351 0 351
BY312008 41525278 41525679 100 401 0 401
BY321399 41525264 41525647 100 383 0 383
BY326970 41525326 41525652 100 326 0 326
BY335465 41525307 41525671 100 364 0 364
CA539070 41525315 41525768 100 453 0 453
CA947861 41525317 41525851 99.3 530 4 526
CJ043226 41525317 41525795 99.8 477 1 476
CJ048723 41525335 41525821 100 486 0 486
CJ049463 41525315 41525739 100 424 0 424
CJ051379 41525291 41525752 100 461 0 461
CJ051652 41525307 41525774 100 467 0 467
CJ053419 41525311 41525753 100 442 0 442
CJ053558 41525309 41525726 100 417 0 417
CJ054822 41525310 41525745 100 435 0 435
CJ055334 41525301 41525715 100 414 0 414
CJ063193 41525331 41525779 100 448 0 448
CJ064463 41525294 41525659 100 365 0 365
CJ064961 41525316 41525745 100 429 0 429
CJ065064 41525316 41525697 100 381 0 381
CJ078552 41525272 41525660 100 388 0 388
CJ144594 41525317 41525795 100 478 0 478
CJ144623 41525326 41525816 99.6 484 2 481
CJ144819 41525272 41525731 100 459 0 459
CJ145899 41525324 41525772 99.4 445 3 442
CJ146686 41525263 41525750 100 487 0 487
CJ148217 41525326 41525807 99.6 479 2 477
CJ153564 41525291 41525681 99.8 389 1 388
CJ153731 41525269 41525689 100 388 0 387
CJ155636 41525263 41525674 99.8 410 1 409
CJ156162 41525278 41525690 100 412 0 412
CJ156180 41525285 41525702 100 417 0 417
CJ156694 41525291 41525702 99.8 409 1 408
CJ156928 41525285 41525713 100 428 0 428
CJ157339 41525294 41525757 100 463 0 463
CJ157674 41525294 41525669 99.8 373 1 372
CJ157886 41525294 41525650 100 356 0 356
CJ158654 41525280 41525658 100 378 0 378
CJ158747 41525315 41525736 100 421 0 421
CJ159734 41525273 41525739 100 466 0 466
CJ161451 41525291 41525686 100 395 0 395
CJ161476 41525274 41525659 99.8 384 1 383
CJ163441 41525263 41525713 100 450 0 450
CJ163622 41525272 41525761 100 455 0 454
CJ164479 41525333 41525755 100 422 0 422
CJ164725 41525333 41525747 100 414 0 414
CJ164903 41525304 41525706 100 402 0 402
CJ166275 41525272 41525778 100 472 0 471
CJ166598 41525333 41525806 100 473 0 473
CJ167770 41525304 41525741 100 437 0 437
CJ168134 41525315 41525754 100 439 0 439
CJ170178 41525308 41525703 100 395 0 395
CJ171293 41525313 41525743 100 430 0 430
CJ173466 41525271 41525738 100 467 0 467
CJ174176 41525263 41525725 100 432 0 431
CJ174631 41525291 41525719 100 428 0 428
CJ175062 41525263 41525698 100 405 0 404
CJ175374 41525274 41525736 99.8 461 1 460
CJ178244 41525263 41525745 100 482 0 482
CJ181107 41525271 41525676 100 405 0 405
CJ183552 41525294 41525702 100 408 0 408
CJ184172 41525294 41525711 100 417 0 417
CJ186159 41525317 41525713 100 396 0 396
CO800016 41525322 41525642 99.7 319 1 318
W17976 41525317 41525799 99.8 481 1 480

TSS - click to see more details

No TSS is located nearby retro_mmus_1833 retrocopy 5' end.

Lab - click to see more details

retro_mmus_1833 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_1833 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 20 parental genes, and 55 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000123441 retrocopy
retro_amel_124,
Bos taurus ENSBTAG000000109881 retrocopy
retro_btau_137,
Canis familiaris ENSCAFG000000141131 retrocopy
retro_cfam_20,
Callithrix jacchus ENSCJAG000000022145 retrocopies
retro_cjac_2113, retro_cjac_2280, retro_cjac_2574, retro_cjac_3026, retro_cjac_3179,
Homo sapiens ENSG000001857873 retrocopies
retro_hsap_309, retro_hsap_3125, retro_hsap_850,
Gorilla gorilla ENSGGOG000000168263 retrocopies
retro_ggor_125, retro_ggor_2141, retro_ggor_694,
Loxodonta africana ENSLAFG000000098511 retrocopy
retro_lafr_62,
Macaca mulatta ENSMMUG000000229261 retrocopy
retro_mmul_1064,
Monodelphis domestica ENSMODG000000115172 retrocopies
retro_mdom_150, retro_mdom_158,
Mustela putorius furoENSMPUG000000154291 retrocopy
retro_mputfur_180,
Mus musculus ENSMUSG00000062270 9 retrocopies
retro_mmus_1454, retro_mmus_1697, retro_mmus_176, retro_mmus_1771, retro_mmus_1825, retro_mmus_1833 , retro_mmus_2500, retro_mmus_2612, retro_mmus_289,
Nomascus leucogenys ENSNLEG000000086783 retrocopies
retro_nleu_417, retro_nleu_445, retro_nleu_51,
Oryctolagus cuniculus ENSOCUG000000151172 retrocopies
retro_ocun_108, retro_ocun_21,
Otolemur garnettii ENSOGAG000000060474 retrocopies
retro_ogar_1594, retro_ogar_2616, retro_ogar_2896, retro_ogar_50,
Pongo abelii ENSPPYG000000067034 retrocopies
retro_pabe_1046, retro_pabe_201, retro_pabe_2581, retro_pabe_695,
Pan troglodytes ENSPTRG000000073513 retrocopies
retro_ptro_2114, retro_ptro_47, retro_ptro_591,
Rattus norvegicus ENSRNOG000000144106 retrocopies
retro_rnor_1076, retro_rnor_2270, retro_rnor_2357, retro_rnor_374, retro_rnor_793, retro_rnor_980,
Sarcophilus harrisii ENSSHAG000000184021 retrocopy
retro_shar_393,
Sus scrofa ENSSSCG000000017691 retrocopy
retro_sscr_93,
Ictidomys tridecemlineatus ENSSTOG000000132943 retrocopies
retro_itri_111, retro_itri_1545, retro_itri_1608,


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