Rmu_co8344017.1_g000001

carotenoid cleavage dioxygenase 4

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_co8344017.1
OG0012126
Physical Location & Seq
Forward (+)
1 .. 975
975 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_co8344017.1_g000001.1.cds

Sequence Viewer

Length: 975 bp
gacgtcgagaccgtgggacggaacgactttaacggcgagctgttcatgagcatgacggctcatccgaagatcgatccagacaccggcgagaccttcgctttccgttacggcccggtgccgccgtttctcacttacttccggttcgaccctaccggagcgaaacaagccgacgtgccggtgttctccctgaccagtccttctatgctccacgacttcgcgatcactaaaaagtacgccgtgttcaccgacattcagatcggaatgaacccgatggagatgatcggcggcggatctccggtggggttggacgcttctaaagtatctagaataggaataattccgaaatacgcgaaggacgattccgagatgaggtggtttgaggtgcccgggttcaacatcatgcacgcggttaacgcatgggacgaagacgacgccgttgtgatggtggcgccgaacctcttatcggcggagcacactctcgagagaatggagctcgtccacgcgctcgtggagaaggtgaggatcgatctcaagaccgggatcgtttcgcgccaaccgatctcgacccggaatctggacttcgcggtgataaacccggcttaccaggggaaaaagaaccggttcgtgtacgcgggtgtcggggatccgatgccgaagatatcgggagtggtgaagctcgacgtgtcgggtgatgagcataaggagagcatagtggcgagcaggatgtacggtcagggttgcttcgggggagagccgtttttcgtggcgagggatccggagaatccggaggcggaggaggacgacgggtacgtggtgtcgtatgttcatgatgagaagacgggagagtcgaggtttttggtgatggacgccaagtcgtctgagctggaaaccgtggcggaagttaagctgccgcggcgggtgccttacggttttcacggactgtttgtgagggagagtgacctgaagaagttgtag
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00906 ko01100 ko01110 map00906 map01100 map01110
Pfam Domains
Protein Families
RPE65

Protein Analysis

324

Amino Acids

36.02

Weight (kDa)

5.07

Isoelectric Point (pI)

35.76

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0012126)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G19170
fragaria_vesca FvH4_4g34690
malus_domestica MD13G1090300.v1.1 MD16G1090700.v1.1
prunus_persica Prupe.1G255500_v2.0.a1 Prupe.1G255500_v2.0.a1
pyrus_communis pycom13g07860 pycom16g07750
rosa_chinensis RchiOBHm_Chr4g0444051
rosa_laevigata RLG00000005862
rosa_multiflora Rmu_co8344017.1_g000001 Rmu_sc0015522.1_g000005
rosa_roxburghii Rroxscaffold_5G00384610
rosa_rugosa Rorug04G0349200
rosa_samantha Rh4AG410000 Rh4BG421100 Rh4CG435500 Rh4DG416400
rosa_wichuraiana Rw4G035220

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 844
AatII GACGTC 1 cut(s) 6
AccB1I GGYRCC 4 cut(s) 115, 382, 448, 919
AccII CGCG 8 cut(s) 218, 350, 407, 503, 550, 584, 632, 913
AccIII TCCGGA 2 cut(s) 775, 784
AclWI GGATC 8 cut(s) 68, 298, 530, 548, 638, 651, 767, 780
AcyI GRCGYC 4 cut(s) 3, 432, 449, 867
AfaI GTAC 4 cut(s) 233, 629, 728, 809
AfiI CCNNNNNNNGG 5 cut(s) 18, 83, 369, 463, 574
AflIII ACRYGT 1 cut(s) 681
AgeI ACCGGT 1 cut(s) 618
AgsI TTSAA 1 cut(s) 394
AhdI GACNNNNNGTC 1 cut(s) 871
AjiI CACGTC 2 cut(s) 172, 682
AjnI CCWGG 1 cut(s) 603
AluBI AGCT 5 cut(s) 40, 493, 676, 883, 907
AluI AGCT 5 cut(s) 40, 493, 676, 883, 907
Alw21I GWGCWC 2 cut(s) 474, 495
Alw26I GTCTC 2 cut(s) 2, 83
AlwI GGATC 8 cut(s) 68, 298, 530, 548, 638, 651, 767, 780
Ama87I CYCGRG 2 cut(s) 386, 479
Aor13HI TCCGGA 2 cut(s) 775, 784
AoxI GGCC 1 cut(s) 109
ApeKI GCWGC 1 cut(s) 907
AsiGI ACCGGT 1 cut(s) 618
Asp700I GAANNNNTTC 1 cut(s) 620
AspLEI GCGC 3 cut(s) 451, 505, 552
AspS9I GGNCC 1 cut(s) 110
AsuC2I CCSGG 6 cut(s) 113, 387, 388, 538, 568, 596
AsuHPI GGTGA 6 cut(s) 235, 529, 598, 682, 701, 871
AvaI CYCGRG 2 cut(s) 386, 479
BaeGI GKGCMC 1 cut(s) 387
BamHI GGATCC 2 cut(s) 643, 772
BanI GGYRCC 4 cut(s) 115, 382, 448, 919
BanII GRGCYC 1 cut(s) 495
BauI CACGAG 1 cut(s) 506
BbsI GAAGAC 2 cut(s) 432, 842
Bbv12I GWGCWC 2 cut(s) 474, 495
BbvI GCAGC 1 cut(s) 894
BccI CCATC 3 cut(s) 265, 436, 856
BceAI ACGGC 7 cut(s) 49, 72, 106, 124, 221, 419, 739
BciT130I CCWGG 1 cut(s) 605
BcnI CCSGG 6 cut(s) 113, 387, 388, 538, 568, 596
BcoDI GTCTC 2 cut(s) 2, 83
BfaI CTAG 1 cut(s) 324
BfoI RGCGCY 1 cut(s) 452
BisI GCNGC 5 cut(s) 119, 286, 908, 911, 914
BlsI GCNGC 5 cut(s) 120, 287, 909, 912, 915
Bme1390I CCNGG 7 cut(s) 113, 387, 388, 538, 568, 596, 605
BmeRI GACNNNNNGTC 1 cut(s) 871
BmeT110I CYCGRG 2 cut(s) 386, 479
BmgBI CACGTC 2 cut(s) 172, 682
BmgT120I GGNCC 1 cut(s) 110
BmiI GGNNCC 6 cut(s) 117, 384, 450, 645, 774, 921
BmrFI CCNGG 7 cut(s) 113, 387, 388, 538, 568, 596, 605
BmsI GCATC 1 cut(s) 639
BpiI GAAGAC 2 cut(s) 432, 842
BpuEI CTTGAG 1 cut(s) 515
BpuMI CCSGG 6 cut(s) 113, 387, 388, 538, 568, 596
Bsa29I ATCGAT 2 cut(s) 72, 525
BsaAI YACGTR 1 cut(s) 811
BsaHI GRCGYC 4 cut(s) 3, 432, 449, 867
BsaI GGTCTC 2 cut(s) 2, 83
BsaJI CCNNGG 5 cut(s) 12, 386, 604, 891, 911
BsaWI WCCGGW 6 cut(s) 138, 152, 295, 618, 775, 784
Bsc4I CCNNNNNNNGG 5 cut(s) 18, 83, 369, 463, 574
Bse118I RCCGGY 3 cut(s) 83, 175, 618
Bse1I ACTGG 1 cut(s) 192
BseAI TCCGGA 2 cut(s) 775, 784
BseBI CCWGG 1 cut(s) 605
BseCI ATCGAT 2 cut(s) 72, 525
BseDI CCNNGG 5 cut(s) 12, 386, 604, 891, 911
BseGI GGATG 2 cut(s) 61, 729
BseLI CCNNNNNNNGG 5 cut(s) 18, 83, 369, 463, 574
BseMII CTCAG 1 cut(s) 870
BseNI ACTGG 1 cut(s) 192
BseRI GAGGAG 1 cut(s) 809
BseSI GKGCMC 1 cut(s) 387
BseXI GCAGC 1 cut(s) 894
Bsh1236I CGCG 8 cut(s) 218, 350, 407, 503, 550, 584, 632, 913
BshFI GGCC 1 cut(s) 111
BshNI GGYRCC 4 cut(s) 115, 382, 448, 919
BshTI ACCGGT 1 cut(s) 618
BshVI ATCGAT 2 cut(s) 72, 525
BsiHKAI GWGCWC 2 cut(s) 474, 495
BsiHKCI CYCGRG 2 cut(s) 386, 479
BslFI GGGAC 2 cut(s) 30, 434
BslI CCNNNNNNNGG 5 cut(s) 18, 83, 369, 463, 574
BsmAI GTCTC 2 cut(s) 2, 83
BsmFI GGGAC 2 cut(s) 30, 434
BsnI GGCC 1 cut(s) 111
Bso31I GGTCTC 2 cut(s) 2, 83
BsoBI CYCGRG 2 cut(s) 386, 479
Bsp1286I GDGCHC 3 cut(s) 387, 474, 495
Bsp13I TCCGGA 2 cut(s) 775, 784
Bsp68I TCGCGA 1 cut(s) 218
BspANI GGCC 1 cut(s) 111
BspCNI CTCAG 1 cut(s) 871
BspDI ATCGAT 2 cut(s) 72, 525
BspEI TCCGGA 2 cut(s) 775, 784
BspFNI CGCG 8 cut(s) 218, 350, 407, 503, 550, 584, 632, 913
BspHI TCATGA 2 cut(s) 45, 826
BspLI GGNNCC 6 cut(s) 117, 384, 450, 645, 774, 921
BspPI GGATC 8 cut(s) 68, 298, 530, 548, 638, 651, 767, 780
BspT107I GGYRCC 4 cut(s) 115, 382, 448, 919
BspTNI GGTCTC 2 cut(s) 2, 83
BsrFI RCCGGY 3 cut(s) 83, 175, 618
BsrI ACTGG 1 cut(s) 192
BssAI RCCGGY 3 cut(s) 83, 175, 618
BssECI CCNNGG 5 cut(s) 12, 386, 604, 891, 911
BssNI GRCGYC 4 cut(s) 3, 432, 449, 867
BssSI CACGAG 1 cut(s) 506
Bst2BI CACGAG 1 cut(s) 506
Bst2UI CCWGG 1 cut(s) 605
Bst4CI ACNGT 5 cut(s) 13, 731, 892, 929, 942
BstACI GRCGYC 4 cut(s) 3, 432, 449, 867
BstBAI YACGTR 1 cut(s) 811
BstC8I GCNNGC 3 cut(s) 38, 405, 718
BstDEI CTNAG 1 cut(s) 879
BstDSI CCRYGG 3 cut(s) 12, 891, 911
BstF5I GGATG 2 cut(s) 61, 729
BstFNI CGCG 8 cut(s) 218, 350, 407, 503, 550, 584, 632, 913
BstH2I RGCGCY 1 cut(s) 452
BstHHI GCGC 3 cut(s) 451, 505, 552
BstMAI GTCTC 2 cut(s) 2, 83
BstMWI GCNNNNNNNGC 4 cut(s) 164, 413, 913, 919
BstNI CCWGG 1 cut(s) 605
BstSCI CCNGG 7 cut(s) 111, 385, 386, 536, 566, 594, 603
BstSLI GKGCMC 1 cut(s) 387
BstUI CGCG 8 cut(s) 218, 350, 407, 503, 550, 584, 632, 913
BstV1I GCAGC 1 cut(s) 894
BstV2I GAAGAC 2 cut(s) 432, 842
BstX2I RGATCY 3 cut(s) 290, 643, 772
BstYI RGATCY 3 cut(s) 290, 643, 772
Bsu15I ATCGAT 2 cut(s) 72, 525
BsuRI GGCC 1 cut(s) 111
BsuTUI ATCGAT 2 cut(s) 72, 525
BtgI CCRYGG 3 cut(s) 12, 891, 911
BtrI CACGTC 2 cut(s) 172, 682
BtsCI GGATG 2 cut(s) 61, 729
BtuMI TCGCGA 1 cut(s) 218
Cac8I GCNNGC 3 cut(s) 38, 405, 718
CciI TCATGA 2 cut(s) 45, 826
CfoI GCGC 3 cut(s) 451, 505, 552
Cfr10I RCCGGY 3 cut(s) 83, 175, 618
Cfr13I GGNCC 1 cut(s) 110
Cfr42I CCGCGG 1 cut(s) 914
Cfr9I CCCGGG 1 cut(s) 386
ClaI ATCGAT 2 cut(s) 72, 525
CseI GACGC 3 cut(s) 317, 440, 875
Csp6I GTAC 4 cut(s) 232, 628, 727, 808
CspAI ACCGGT 1 cut(s) 618
CviAII CATG 5 cut(s) 46, 52, 400, 417, 827
CviQI GTAC 4 cut(s) 232, 628, 727, 808
DdeI CTNAG 1 cut(s) 879
DinI GGCGCC 1 cut(s) 450
DrdI GACNNNNNNGTC 1 cut(s) 844
DriI GACNNNNNGTC 1 cut(s) 871
DseDI GACNNNNNNGTC 1 cut(s) 844
Eam1105I GACNNNNNGTC 1 cut(s) 871
EciI GGCGGA 4 cut(s) 303, 482, 806, 911
Ecl136II GAGCTC 1 cut(s) 493
Eco24I GRGCYC 1 cut(s) 495
Eco31I GGTCTC 2 cut(s) 2, 83
Eco32I GATATC 1 cut(s) 660
Eco53kI GAGCTC 1 cut(s) 493
Eco88I CYCGRG 2 cut(s) 386, 479
EcoICRI GAGCTC 1 cut(s) 493
EcoRII CCWGG 1 cut(s) 603
EcoRV GATATC 1 cut(s) 660
EcoT38I GRGCYC 1 cut(s) 495
EgeI GGCGCC 1 cut(s) 450
EheI GGCGCC 1 cut(s) 450
FaeI CATG 5 cut(s) 49, 55, 403, 420, 830
FaiI YATR 9 cut(s) 47, 53, 203, 401, 418, 699, 710, 822, 828
FaqI GGGAC 2 cut(s) 30, 434
FatI CATG 5 cut(s) 45, 51, 399, 416, 826
FauI CCCGC 2 cut(s) 625, 909
Fnu4HI GCNGC 5 cut(s) 119, 286, 908, 911, 914
FokI GGATG 2 cut(s) 48, 736
FriOI GRGCYC 1 cut(s) 495
Fsp4HI GCNGC 5 cut(s) 119, 286, 908, 911, 914
FspBI CTAG 1 cut(s) 324
GlaI GCGC 3 cut(s) 450, 504, 551
GluI GCNGC 5 cut(s) 119, 286, 908, 911, 914
HaeII RGCGCY 1 cut(s) 452
HaeIII GGCC 1 cut(s) 111
HgaI GACGC 3 cut(s) 317, 440, 875
HhaI GCGC 3 cut(s) 451, 505, 552
Hin1I GRCGYC 4 cut(s) 3, 432, 449, 867
Hin1II CATG 5 cut(s) 49, 55, 403, 420, 830
Hin6I GCGC 3 cut(s) 449, 503, 550
HinP1I GCGC 3 cut(s) 449, 503, 550
HincII GTYRAC 1 cut(s) 412
HindII GTYRAC 1 cut(s) 412
HinfI GANTC 4 cut(s) 359, 571, 781, 845
HpaI GTTAAC 1 cut(s) 412
HphI GGTGA 6 cut(s) 235, 529, 598, 682, 701, 871
Hpy166II GTNNAC 4 cut(s) 243, 412, 499, 628
Hpy188I TCNGA 7 cut(s) 66, 255, 260, 342, 364, 648, 880
Hpy8I GTNNAC 4 cut(s) 243, 412, 499, 628
Hpy99I CGWCG 5 cut(s) 8, 173, 434, 683, 806
HpyAV CCTTC 4 cut(s) 103, 207, 346, 508
HpyCH4III ACNGT 5 cut(s) 13, 731, 892, 929, 942
HpyCH4IV ACGT 4 cut(s) 3, 171, 681, 810
HpyCH4V TGCA 1 cut(s) 403
HpyF10VI GCNNNNNNNGC 4 cut(s) 164, 413, 913, 919
HpyF3I CTNAG 1 cut(s) 879
HpySE526I ACGT 4 cut(s) 3, 171, 681, 810
Hsp92I GRCGYC 4 cut(s) 3, 432, 449, 867
Hsp92II CATG 5 cut(s) 49, 55, 403, 420, 830
HspAI GCGC 3 cut(s) 449, 503, 550
KasI GGCGCC 1 cut(s) 448
Kpn2I TCCGGA 2 cut(s) 775, 784
KspAI GTTAAC 1 cut(s) 412
KspI CCGCGG 1 cut(s) 914
LmnI GCTCC 4 cut(s) 155, 210, 469, 490
Lsp1109I GCAGC 1 cut(s) 894
LweI GCATC 1 cut(s) 639
MaeI CTAG 1 cut(s) 324
MaeII ACGT 4 cut(s) 3, 171, 681, 810
MaeIII GTNAC 2 cut(s) 104, 956
MboII GAAGA 4 cut(s) 79, 437, 667, 847
MflI RGATCY 3 cut(s) 290, 643, 772
MhlI GDGCHC 3 cut(s) 387, 474, 495
MluCI AATT 1 cut(s) 336
Mly113I GGCGCC 1 cut(s) 449
MlyI GAGTC 1 cut(s) 854
MmeI TCCRAC 1 cut(s) 285
MroI TCCGGA 2 cut(s) 775, 784
MroXI GAANNNNTTC 1 cut(s) 620
MseI TTAA 3 cut(s) 30, 411, 903
MslI CAYNNNNRTG 1 cut(s) 50
MspA1I CMGCKG 1 cut(s) 913
MspR9I CCNGG 7 cut(s) 113, 387, 388, 538, 568, 596, 605
MvaI CCWGG 1 cut(s) 605
MvnI CGCG 8 cut(s) 218, 350, 407, 503, 550, 584, 632, 913
MwoI GCNNNNNNNGC 4 cut(s) 164, 413, 913, 919
NarI GGCGCC 1 cut(s) 449
NciI CCSGG 6 cut(s) 113, 387, 388, 538, 568, 596
NlaIII CATG 5 cut(s) 49, 55, 403, 420, 830
NlaIV GGNNCC 6 cut(s) 117, 384, 450, 645, 774, 921
NmuCI GTSAC 1 cut(s) 956
NruI TCGCGA 1 cut(s) 218
PaeR7I CTCGAG 1 cut(s) 479
PagI TCATGA 2 cut(s) 45, 826
PcsI WCGNNNNNNNCGW 7 cut(s) 9, 62, 354, 420, 554, 807, 845
PdmI GAANNNNTTC 1 cut(s) 620
PfeI GAWTC 3 cut(s) 359, 571, 781
PinAI ACCGGT 1 cut(s) 618
PkrI GCNGC 5 cut(s) 120, 287, 909, 912, 915
PleI GAGTC 1 cut(s) 853
PluTI GGCGCC 1 cut(s) 452
PpsI GAGTC 1 cut(s) 853
Ppu21I YACGTR 1 cut(s) 811
Psp124BI GAGCTC 1 cut(s) 495
Psp6I CCWGG 1 cut(s) 603
PspGI CCWGG 1 cut(s) 603
PspN4I GGNNCC 6 cut(s) 117, 384, 450, 645, 774, 921
PspPI GGNCC 1 cut(s) 110
PsrI GAACNNNNNNTAC 2 cut(s) 224, 256
PsuI RGATCY 3 cut(s) 290, 643, 772
RruI TCGCGA 1 cut(s) 218
RsaI GTAC 4 cut(s) 233, 629, 728, 809
RsaNI GTAC 4 cut(s) 232, 628, 727, 808
RseI CAYNNNNRTG 1 cut(s) 50
SacI GAGCTC 1 cut(s) 495
SacII CCGCGG 1 cut(s) 914
SaqAI TTAA 3 cut(s) 30, 411, 903
SatI GCNGC 5 cut(s) 119, 286, 908, 911, 914
Sau96I GGNCC 1 cut(s) 110
SchI GAGTC 1 cut(s) 854
ScrFI CCNGG 7 cut(s) 113, 387, 388, 538, 568, 596, 605
SduI GDGCHC 3 cut(s) 387, 474, 495
SfaNI GCATC 1 cut(s) 639
SfoI GGCGCC 1 cut(s) 450
Sfr274I CTCGAG 1 cut(s) 479
Sfr303I CCGCGG 1 cut(s) 914
SgrAI CRCCGGYG 1 cut(s) 83
SgrBI CCGCGG 1 cut(s) 914
SlaI CTCGAG 1 cut(s) 479
SmaI CCCGGG 1 cut(s) 388
SmiMI CAYNNNNRTG 1 cut(s) 50
SmlI CTYRAG 2 cut(s) 479, 530
SmoI CTYRAG 2 cut(s) 479, 530
Sse9I AATT 1 cut(s) 336
SspDI GGCGCC 1 cut(s) 448
SspMI CTAG 1 cut(s) 324
SstI GAGCTC 1 cut(s) 495
StyD4I CCNGG 7 cut(s) 111, 385, 386, 536, 566, 594, 603
TaaI ACNGT 5 cut(s) 13, 731, 892, 929, 942
TaiI ACGT 4 cut(s) 6, 174, 684, 813
TaqI TCGA 8 cut(s) 6, 72, 144, 480, 525, 563, 678, 848
TasI AATT 1 cut(s) 336
TauI GCSGC 4 cut(s) 121, 288, 913, 916
TfiI GAWTC 3 cut(s) 359, 571, 781
Tru1I TTAA 3 cut(s) 30, 411, 903
Tru9I TTAA 3 cut(s) 30, 411, 903
TseFI GTSAC 1 cut(s) 956
TseI GCWGC 1 cut(s) 907
Tsp45I GTSAC 1 cut(s) 956
TspDTI ATGAA 3 cut(s) 34, 278, 815
TspGWI ACGGA 3 cut(s) 34, 92, 951
TspMI CCCGGG 1 cut(s) 386
XbaI TCTAGA 1 cut(s) 323
XhoI CTCGAG 1 cut(s) 479
XmaI CCCGGG 1 cut(s) 386
XmnI GAANNNNTTC 1 cut(s) 620
XspI CTAG 1 cut(s) 324
ZraI GACGTC 1 cut(s) 4
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.