Rroxscaffold_1G00045040

Cytochrome c-type biogenesis ccda-like chloroplastic protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0012312
Physical Location & Seq
Forward (+)
64097218 .. 64103011
5794 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00045040.1

Sequence Viewer

Length: 1257 bp
ATGGATCGATCGGCGAGCTTGTTCGAACTCAACCAAGGAAGCCCGAAGCTTTGCCGACGTCGAGCCGCATTTTCCCACGGTCGTGCTACTTCAAACCGTGCGTACTTGCAGCGCCGCCGTGGGCTCGAATCGTCGACGGAGACCACCACAGAGACGACCGAGCAAGGAGGCGACCCATCCCGGAAAGTTTCGTCGCCGGAGGTGGCCGGAGTCGCGAGTTCCGACCGGCTCGGATCACCGTGTTCCAACGGTTGCCATAGCTTGCTTTCTCTGCTGCTCTCTGAAGTAAATCCAATCTCCCCAGTCGAGATGAATTTGGCTATCAACCATTGCGGCAGTTACAGCATTAATAATTCTTTCACCACTTCAAGCTGGAAGCGTGGCCGGAGAACTAGTCATGTGGGAAATTTGGTCTTCACAGACATGGCAAAGGCCGTAACTACGGGGAATATCCTGGAAGGTGCTGTATCAGTTTATGACATTGCTGAAGGAGGAGCTGGAGATTGGTTTGGAGGCTTCCTATTTACTACTGGACAACAAGCTAATGAAGCTGTTCAAGACCAGTTATCAGCCCTCAGTTTCTCCAGTTTGGCAGTTATTTTTGGTGCCGGGCTTGTTACTAGCCTTTCTCCTTGTACTCTTAGCGTTCTACCACTGACCCTTGGTTACATAGGAGCATTTGGTTCAGGGAAAAGCAGGGCACAGGTTATTGGGGATTCAATTGCGTTCTCATTAGGATTGGCAACTACACTTGCACTCTTAGGCATTGCAGCCTCATTTGCTGGAAAGGCATATGGACAGACAGGGCAGGGATTACCAGTGGCTGCTTCAGGTTTAGCTATTGTTATGGGCTTGAATCTCCTTGAGATAATTGAACTACAGCTGCCATCCTTTTTTGACAACTTTGATCCCCGGGCTGCTGCTGCTAATTTTCCATCAAGTGTGCAAGCTTATCTAGCTGGACTTACATTTGCTTTAGCGGCCTCTCCATGCAGTACGCCAGTGCTGGCCACTCTGCTAGGATATGTTGCTACGTCCAAGGATCCATTTATTGGAGGCAGCCTACTTTTGACGTACACAACTGGTTATGTTGCTCCTCTACTTCTCGCTGCATCTTTTGCTGGAGCATTGCAGAGCCTGCTTTCTTTTCGCAAATTTTCAGCATGGATCAACCCAATCAGTGGTGCCCTTCTATTGGGAGGGGGAGTGTATACTTTCTTGGATCGGCTTTTCCCAGCTACTACAATGGCAATGTAG

Protein Analysis

418

Amino Acids

43.45

Weight (kDa)

7.6

Isoelectric Point (pI)

42.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DsbD_TM PF02683 196 - 377 4.6e-23 Cytochrome C biogenesis protein transmembrane domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0012312)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G54290 AT5G54290
fragaria_vesca FvH4_3g20940 FvH4_3g20940 FvH4_3g20940
malus_domestica MD11G1237300.v1.1
prunus_persica Prupe.4G189900_v2.0.a1 Prupe.4G189900_v2.0.a1
pyrus_communis pycom11g20860
rosa_chinensis RchiOBHm_Chr5g0035361
rosa_laevigata RLG00000033620
rosa_multiflora Rmu_co8507677.1_g000001
rosa_roxburghii Rroxscaffold_1G00045040
rosa_rugosa Rorug05G0151400
rosa_samantha Rh5AG244600 Rh5BG244100 Rh5CG275900 Rh5DG253200
rosa_wichuraiana Rw5G022340

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 61
AccB1I GGYRCC 2 cut(s) 605, 1184
AccB7I CCANNNNNTGG 2 cut(s) 1052, 1181
AccI GTMKAC 2 cut(s) 134, 1211
AccII CGCG 1 cut(s) 215
AciI CCGC 4 cut(s) 66, 115, 333, 980
AclWI GGATC 7 cut(s) 12, 241, 902, 1037, 1050, 1175, 1230
AcoI YGGCCR 3 cut(s) 204, 382, 1008
AcsI RAATTY 3 cut(s) 313, 406, 1154
AcuI CTGAAG 3 cut(s) 303, 507, 813
AcyI GRCGYC 1 cut(s) 58
AfaI GTAC 4 cut(s) 104, 637, 997, 1076
AfiI CCNNNNNNNGG 3 cut(s) 1052, 1181, 1195
AgsI TTSAA 6 cut(s) 93, 369, 557, 720, 856, 875
AhlI ACTAGT 1 cut(s) 392
AjnI CCWGG 1 cut(s) 453
AleI CACNNNNGTG 1 cut(s) 81
Alw26I GTCTC 2 cut(s) 134, 146
AlwI GGATC 7 cut(s) 12, 241, 902, 1037, 1050, 1175, 1230
AlwNI CAGNNNCTG 2 cut(s) 824, 1138
Ama87I CYCGRG 1 cut(s) 912
AoxI GGCC 5 cut(s) 204, 382, 432, 981, 1008
ApoI RAATTY 3 cut(s) 313, 406, 1154
AseI ATTAAT 1 cut(s) 348
Asp700I GAANNNNTTC 1 cut(s) 552
AspLEI GCGC 1 cut(s) 114
AsuC2I CCSGG 4 cut(s) 181, 610, 913, 914
AsuHPI GGTGA 2 cut(s) 228, 352
AsuII TTCGAA 1 cut(s) 24
AvaI CYCGRG 1 cut(s) 912
BaeGI GKGCMC 2 cut(s) 703, 1189
BalI TGGCCA 1 cut(s) 1010
BamHI GGATCC 1 cut(s) 1042
BanI GGYRCC 2 cut(s) 605, 1184
BanII GRGCYC 1 cut(s) 126
BbsI GAAGAC 1 cut(s) 406
BccI CCATC 3 cut(s) 184, 895, 943
BceAI ACGGC 2 cut(s) 102, 419
BciT130I CCWGG 1 cut(s) 455
BcnI CCSGG 4 cut(s) 181, 610, 913, 914
BcoDI GTCTC 2 cut(s) 134, 146
BcuI ACTAGT 1 cut(s) 392
BfaI CTAG 4 cut(s) 393, 621, 956, 1019
BfmI CTRYAG 1 cut(s) 878
BfoI RGCGCY 1 cut(s) 115
Bme1390I CCNGG 5 cut(s) 181, 455, 610, 913, 914
BmeT110I CYCGRG 1 cut(s) 912
BmiI GGNNCC 3 cut(s) 607, 1044, 1186
BmrFI CCNGG 5 cut(s) 181, 455, 610, 913, 914
BmrI ACTGGG 1 cut(s) 296
BmsI GCATC 1 cut(s) 1121
BmuI ACTGGG 1 cut(s) 296
BpiI GAAGAC 1 cut(s) 406
BpmI CTGGAG 3 cut(s) 519, 568, 1143
Bpu14I TTCGAA 1 cut(s) 24
BpuEI CTTGAG 1 cut(s) 884
BpuMI CCSGG 4 cut(s) 181, 610, 913, 914
Bsa29I ATCGAT 1 cut(s) 7
BsaHI GRCGYC 1 cut(s) 58
BsaI GGTCTC 1 cut(s) 134
BsaJI CCNNGG 7 cut(s) 34, 76, 118, 661, 911, 912, 1038
BsaXI ACNNNNNCTCC 4 cut(s) 379, 409, 1191, 1221
Bsc4I CCNNNNNNNGG 3 cut(s) 1052, 1181, 1195
Bse118I RCCGGY 1 cut(s) 225
Bse1I ACTGG 7 cut(s) 302, 535, 562, 585, 818, 1001, 1087
Bse3DI GCAATG 5 cut(s) 328, 480, 765, 1127, 1257
BseBI CCWGG 1 cut(s) 455
BseCI ATCGAT 1 cut(s) 7
BseDI CCNNGG 7 cut(s) 34, 76, 118, 661, 911, 912, 1038
BseGI GGATG 2 cut(s) 176, 887
BseLI CCNNNNNNNGG 3 cut(s) 1052, 1181, 1195
BseMI GCAATG 5 cut(s) 328, 480, 765, 1127, 1257
BseMII CTCAG 1 cut(s) 589
BseNI ACTGG 7 cut(s) 302, 535, 562, 585, 818, 1001, 1087
BseRI GAGGAG 2 cut(s) 507, 1086
BseSI GKGCMC 2 cut(s) 703, 1189
BseYI CCCAGC 1 cut(s) 1234
Bsh1236I CGCG 1 cut(s) 215
Bsh1285I CGRYCG 4 cut(s) 11, 82, 159, 226
BshFI GGCC 5 cut(s) 206, 384, 434, 983, 1010
BshNI GGYRCC 2 cut(s) 605, 1184
BshVI ATCGAT 1 cut(s) 7
BsiEI CGRYCG 4 cut(s) 11, 82, 159, 226
BsiHKCI CYCGRG 1 cut(s) 912
BsiSI CCGG 7 cut(s) 181, 197, 207, 226, 385, 609, 913
BslI CCNNNNNNNGG 3 cut(s) 1052, 1181, 1195
BsmAI GTCTC 2 cut(s) 134, 146
BsmBI CGTCTC 1 cut(s) 146
BsnI GGCC 5 cut(s) 206, 384, 434, 983, 1010
Bso31I GGTCTC 1 cut(s) 134
BsoBI CYCGRG 1 cut(s) 912
Bsp119I TTCGAA 1 cut(s) 24
Bsp1286I GDGCHC 3 cut(s) 126, 703, 1189
Bsp143I GATC 7 cut(s) 4, 8, 233, 907, 1042, 1167, 1222
Bsp68I TCGCGA 1 cut(s) 215
BspACI CCGC 4 cut(s) 66, 115, 333, 980
BspANI GGCC 5 cut(s) 206, 384, 434, 983, 1010
BspCNI CTCAG 1 cut(s) 588
BspDI ATCGAT 1 cut(s) 7
BspFNI CGCG 1 cut(s) 215
BspLI GGNNCC 3 cut(s) 607, 1044, 1186
BspPI GGATC 7 cut(s) 12, 241, 902, 1037, 1050, 1175, 1230
BspT104I TTCGAA 1 cut(s) 24
BspT107I GGYRCC 2 cut(s) 605, 1184
BspTNI GGTCTC 1 cut(s) 134
BsrDI GCAATG 5 cut(s) 328, 480, 765, 1127, 1257
BsrFI RCCGGY 1 cut(s) 225
BsrI ACTGG 7 cut(s) 302, 535, 562, 585, 818, 1001, 1087
BssAI RCCGGY 1 cut(s) 225
BssECI CCNNGG 7 cut(s) 34, 76, 118, 661, 911, 912, 1038
BssMI GATC 7 cut(s) 4, 8, 233, 907, 1042, 1167, 1222
BssNAI GTATAC 1 cut(s) 1212
BssNI GRCGYC 1 cut(s) 58
BssT1I CCWWGG 3 cut(s) 34, 661, 1038
Bst1107I GTATAC 1 cut(s) 1212
Bst2UI CCWGG 1 cut(s) 455
Bst4CI ACNGT 4 cut(s) 80, 98, 240, 251
BstACI GRCGYC 1 cut(s) 58
BstAPI GCANNNNNTGC 2 cut(s) 1118, 1138
BstBI TTCGAA 1 cut(s) 24
BstC8I GCNNGC 5 cut(s) 16, 263, 948, 1008, 1139
BstDEI CTNAG 3 cut(s) 575, 641, 760
BstDSI CCRYGG 2 cut(s) 76, 118
BstF5I GGATG 2 cut(s) 176, 887
BstFNI CGCG 1 cut(s) 215
BstH2I RGCGCY 1 cut(s) 115
BstHHI GCGC 1 cut(s) 114
BstKTI GATC 7 cut(s) 7, 11, 236, 910, 1045, 1170, 1225
BstMAI GTCTC 2 cut(s) 134, 146
BstMBI GATC 7 cut(s) 4, 8, 233, 907, 1042, 1167, 1222
BstMCI CGRYCG 4 cut(s) 11, 82, 159, 226
BstNI CCWGG 1 cut(s) 455
BstSCI CCNGG 5 cut(s) 179, 453, 608, 911, 912
BstSFI CTRYAG 1 cut(s) 878
BstSLI GKGCMC 2 cut(s) 703, 1189
BstUI CGCG 1 cut(s) 215
BstV2I GAAGAC 1 cut(s) 406
BstX2I RGATCY 1 cut(s) 1042
BstYI RGATCY 1 cut(s) 1042
BstZ17I GTATAC 1 cut(s) 1212
Bsu15I ATCGAT 1 cut(s) 7
BsuRI GGCC 5 cut(s) 206, 384, 434, 983, 1010
BsuTUI ATCGAT 1 cut(s) 7
BtgI CCRYGG 2 cut(s) 76, 118
BtsCI GGATG 2 cut(s) 176, 887
BtsIMutI CAGTG 4 cut(s) 653, 825, 1008, 1186
BtuMI TCGCGA 1 cut(s) 215
Cac8I GCNNGC 5 cut(s) 16, 263, 948, 1008, 1139
CaiI CAGNNNCTG 2 cut(s) 824, 1138
CfoI GCGC 1 cut(s) 114
Cfr10I RCCGGY 1 cut(s) 225
Cfr9I CCCGGG 1 cut(s) 912
ClaI ATCGAT 1 cut(s) 7
Csp6I GTAC 4 cut(s) 103, 636, 996, 1075
CviAII CATG 4 cut(s) 398, 424, 990, 1164
CviQI GTAC 4 cut(s) 103, 636, 996, 1075
DdeI CTNAG 3 cut(s) 575, 641, 760
DpnI GATC 7 cut(s) 6, 10, 235, 909, 1044, 1169, 1224
DpnII GATC 7 cut(s) 4, 8, 233, 907, 1042, 1167, 1222
EaeI YGGCCR 3 cut(s) 204, 382, 1008
Eco130I CCWWGG 3 cut(s) 34, 661, 1038
Eco24I GRGCYC 1 cut(s) 126
Eco31I GGTCTC 1 cut(s) 134
Eco57I CTGAAG 3 cut(s) 303, 507, 813
Eco88I CYCGRG 1 cut(s) 912
EcoRII CCWGG 1 cut(s) 453
EcoT14I CCWWGG 3 cut(s) 34, 661, 1038
EcoT38I GRGCYC 1 cut(s) 126
ErhI CCWWGG 3 cut(s) 34, 661, 1038
Esp3I CGTCTC 1 cut(s) 146
FaeI CATG 4 cut(s) 401, 427, 993, 1167
FatI CATG 4 cut(s) 397, 423, 989, 1163
FauNDI CATATG 1 cut(s) 793
FblI GTMKAC 2 cut(s) 134, 1211
FokI GGATG 2 cut(s) 163, 874
FriOI GRGCYC 1 cut(s) 126
FspBI CTAG 4 cut(s) 393, 621, 956, 1019
GlaI GCGC 1 cut(s) 113
GsaI CCCAGC 1 cut(s) 1238
GsuI CTGGAG 3 cut(s) 519, 568, 1143
HaeII RGCGCY 1 cut(s) 115
HaeIII GGCC 5 cut(s) 206, 384, 434, 983, 1010
HapII CCGG 7 cut(s) 181, 197, 207, 226, 385, 609, 913
HhaI GCGC 1 cut(s) 114
Hin1I GRCGYC 1 cut(s) 58
Hin1II CATG 4 cut(s) 401, 427, 993, 1167
Hin6I GCGC 1 cut(s) 112
HinP1I GCGC 1 cut(s) 112
HincII GTYRAC 1 cut(s) 135
HindII GTYRAC 1 cut(s) 135
HindIII AAGCTT 2 cut(s) 47, 948
HinfI GANTC 4 cut(s) 128, 210, 716, 856
HpaII CCGG 7 cut(s) 181, 197, 207, 226, 385, 609, 913
HphI GGTGA 2 cut(s) 228, 352
Hpy166II GTNNAC 3 cut(s) 135, 1077, 1212
Hpy188I TCNGA 3 cut(s) 223, 233, 283
Hpy188III TCNNGA 3 cut(s) 214, 307, 557
Hpy8I GTNNAC 3 cut(s) 135, 1077, 1212
Hpy99I CGWCG 5 cut(s) 60, 63, 136, 139, 196
HpyAV CCTTC 3 cut(s) 452, 482, 1199
HpyCH4III ACNGT 4 cut(s) 80, 98, 240, 251
HpyCH4IV ACGT 3 cut(s) 58, 1034, 1073
HpyCH4V TGCA 7 cut(s) 109, 755, 770, 946, 993, 1112, 1132
HpyF3I CTNAG 3 cut(s) 575, 641, 760
HpySE526I ACGT 3 cut(s) 58, 1034, 1073
Hsp92I GRCGYC 1 cut(s) 58
Hsp92II CATG 4 cut(s) 401, 427, 993, 1167
HspAI GCGC 1 cut(s) 112
Kzo9I GATC 7 cut(s) 4, 8, 233, 907, 1042, 1167, 1222
LmnI GCTCC 4 cut(s) 494, 674, 1099, 1124
LweI GCATC 1 cut(s) 1121
MaeI CTAG 4 cut(s) 393, 621, 956, 1019
MaeII ACGT 3 cut(s) 58, 1034, 1073
MaeIII GTNAC 4 cut(s) 338, 436, 616, 665
MalI GATC 7 cut(s) 6, 10, 235, 909, 1044, 1169, 1224
MboI GATC 7 cut(s) 4, 8, 233, 907, 1042, 1167, 1222
MboII GAAGA 1 cut(s) 406
MfeI CAATTG 1 cut(s) 720
MflI RGATCY 1 cut(s) 1042
MhlI GDGCHC 3 cut(s) 126, 703, 1189
MlsI TGGCCA 1 cut(s) 1010
MluCI AATT 7 cut(s) 313, 352, 406, 720, 870, 928, 1154
MluNI TGGCCA 1 cut(s) 1010
MlyI GAGTC 1 cut(s) 219
MmeI TCCRAC 2 cut(s) 246, 270
Mox20I TGGCCA 1 cut(s) 1010
MroXI GAANNNNTTC 1 cut(s) 552
MscI TGGCCA 1 cut(s) 1010
MseI TTAA 1 cut(s) 348
MslI CAYNNNNRTG 2 cut(s) 81, 422
Msp20I TGGCCA 1 cut(s) 1010
MspA1I CMGCKG 1 cut(s) 883
MspI CCGG 7 cut(s) 181, 197, 207, 226, 385, 609, 913
MspR9I CCNGG 5 cut(s) 181, 455, 610, 913, 914
MunI CAATTG 1 cut(s) 720
MvaI CCWGG 1 cut(s) 455
MvnI CGCG 1 cut(s) 215
NciI CCSGG 4 cut(s) 181, 610, 913, 914
NdeI CATATG 1 cut(s) 793
NdeII GATC 7 cut(s) 4, 8, 233, 907, 1042, 1167, 1222
NlaIII CATG 4 cut(s) 401, 427, 993, 1167
NlaIV GGNNCC 3 cut(s) 607, 1044, 1186
NruI TCGCGA 1 cut(s) 215
NspV TTCGAA 1 cut(s) 24
OliI CACNNNNGTG 1 cut(s) 81
PcsI WCGNNNNNNNCGW 1 cut(s) 219
PdmI GAANNNNTTC 1 cut(s) 552
PfeI GAWTC 3 cut(s) 128, 716, 856
PflMI CCANNNNNTGG 2 cut(s) 1052, 1181
PfoI TCCNGGA 2 cut(s) 179, 453
Ple19I CGATCG 1 cut(s) 11
PleI GAGTC 1 cut(s) 218
PpsI GAGTC 1 cut(s) 218
PshBI ATTAAT 1 cut(s) 348
Psp6I CCWGG 1 cut(s) 453
PspFI CCCAGC 1 cut(s) 1234
PspGI CCWGG 1 cut(s) 453
PspN4I GGNNCC 3 cut(s) 607, 1044, 1186
PstNI CAGNNNCTG 2 cut(s) 824, 1138
PsuI RGATCY 1 cut(s) 1042
PvuI CGATCG 1 cut(s) 11
PvuII CAGCTG 1 cut(s) 883
RruI TCGCGA 1 cut(s) 215
RsaI GTAC 4 cut(s) 104, 637, 997, 1076
RsaNI GTAC 4 cut(s) 103, 636, 996, 1075
RseI CAYNNNNRTG 2 cut(s) 81, 422
SalI GTCGAC 1 cut(s) 133
SaqAI TTAA 1 cut(s) 348
Sau3AI GATC 7 cut(s) 4, 8, 233, 907, 1042, 1167, 1222
SchI GAGTC 1 cut(s) 219
ScrFI CCNGG 5 cut(s) 181, 455, 610, 913, 914
SduI GDGCHC 3 cut(s) 126, 703, 1189
SfaNI GCATC 1 cut(s) 1121
SfcI CTRYAG 1 cut(s) 878
SfuI TTCGAA 1 cut(s) 24
SgrDI CGTCGACG 1 cut(s) 133
SmaI CCCGGG 1 cut(s) 914
SmiMI CAYNNNNRTG 2 cut(s) 81, 422
SmlI CTYRAG 1 cut(s) 863
SmoI CTYRAG 1 cut(s) 863
SpeI ACTAGT 1 cut(s) 392
Sse9I AATT 7 cut(s) 313, 352, 406, 720, 870, 928, 1154
SsiI CCGC 4 cut(s) 66, 115, 333, 980
SspMI CTAG 4 cut(s) 393, 621, 956, 1019
StyD4I CCNGG 5 cut(s) 179, 453, 608, 911, 912
StyI CCWWGG 3 cut(s) 34, 661, 1038
TaaI ACNGT 4 cut(s) 80, 98, 240, 251
TaiI ACGT 3 cut(s) 61, 1037, 1076
TaqI TCGA 6 cut(s) 7, 24, 61, 126, 134, 306
TaqII GACCGA 1 cut(s) 173
TasI AATT 7 cut(s) 313, 352, 406, 720, 870, 928, 1154
TatI WGTACW 1 cut(s) 635
TauI GCSGC 4 cut(s) 68, 117, 336, 983
TfiI GAWTC 3 cut(s) 128, 716, 856
Tru1I TTAA 1 cut(s) 348
Tru9I TTAA 1 cut(s) 348
TscAI CASTG 4 cut(s) 660, 825, 1008, 1186
TspDTI ATGAA 2 cut(s) 326, 561
TspGWI ACGGA 1 cut(s) 152
TspMI CCCGGG 1 cut(s) 912
TspRI CASTG 4 cut(s) 660, 825, 1008, 1186
Van91I CCANNNNNTGG 2 cut(s) 1052, 1181
VspI ATTAAT 1 cut(s) 348
XapI RAATTY 3 cut(s) 313, 406, 1154
XmaI CCCGGG 1 cut(s) 912
XmiI GTMKAC 2 cut(s) 134, 1211
XmnI GAANNNNTTC 1 cut(s) 552
XspI CTAG 4 cut(s) 393, 621, 956, 1019
ZraI GACGTC 1 cut(s) 59
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.