Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0006863

Physical Location & Seq

Genomic Coordinates Reverse (-)

9425360 .. 9431279

Gene Structure 5920 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG063100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1392 bp

ATGTCTTCTCTTTCTTCAATTCCTCTCCCACTCTCCATCGTTTCCTCATCTTCATCTTCATCTTCATCTTCATCTTCATCTAAAGGAACACAAGGTAAACCCAACTCAAAGTCACTGAAGCTTAGAGAGGACTGGAGACAACGCTCCAAACCCATTCCTCCTGGTGGCACTTACCCAGCTAAAGACCACTGCAGTCGTTGCGGGTTGTGTGACACCTTTTACATTGCCCATGTCAAGGAAGCCTGTGCTTTTTTGGGAGATGGGATGTCCAAGATTGAAGGTTTGGAACCTGTAGTTCATGGTAGAGGGAGAAAGCCAGACTCTTTAGATGAAATGCACTTGGGTGTCTATGAGGAGTTGTTGTATGCCCGTAAGGTCAAGCCTGTTGAAGGTGCTCAGTGGACGGGGATAGTAACAACTATTGCAATAGAAATGCTAAAATCAGGCATGGTAGAAGCTGTCATATGTGTTCAGAGTGACCCAGAGGACAGATTTTCTCCAAGGCCTGTATTAGCAAGGACACCGGAAGAAGTTCTAGCTGCTAAAGGTGTCAAGCCGACATTATCACCTAATCTTAATACCCTTGCCCTAGTTGAGGCTGCAGGTGTAAAGAAACTTCTATTCTGTGGTGTGGGTTGCCAGGTGCAAGCATTAAGGTCTGTGGAGCACCATCTGAATTTGGAGAAGCTGTATGTGTTGGGCACAAATTGCGTGGATAATGGGACTCGTGAAGGGCTTGATAAGTTTCTAAAGGCTGCTAGTAGTGAACCAGAGACGGTTCTTCATTATGAGTTTATGCAAGATTACAAGGTTCACTTGAAGCATTTGGATGGTCATATTGAAGAGGTTCCTTATTTCTCCCTGCCAGCAAATGATTTAGTTGATGTAATTGCTCCTTCTTGTTATAGCTGCTTTGACTACACAAATGCTTTGGCGGATTTAGTGGTTGGATACATGGGTGTGCCAAAATATTCTGGAATCAGCATGACACAACATCCTCAGTATGTTACGGTAAGAAATGAACGTGGAAGAGAGATGCTCAGTCTGGTTGAAAAACATTTGGAGATTACTCCTACGACTAGTAGTGGTGATCGCAGACCATTTGTATTGGAGACGGTTAAGGCGGATGATACGGCTAAGATGGGGAGGGGTCCTGATCCTGCACCAAAGTTTGTTGGCAATTTGATTGCTTTCTTGCTAAACTTGGTTGGTCCCAAGGGGCTGGAGTTTGCTCGATATTCACTTGATTACCATACCATCCGGAACTATCTGCATGTTAACCGAACATGGGGAAAAGAAAGAGCTGGTCGACATATGCCTTCGTATGCAAAGAAAATTGTGGATAGTTACAACAAGAATGGTGAAATTGATAAGATGCTTTCGGCCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006725 GO:0006778 GO:0006807 GO:0008150 GO:0008152 GO:0009507 GO:0009536 GO:0009987 GO:0015994 GO:0016491 GO:0016725 GO:0033013 GO:0033354 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0051186 GO:0052592 GO:0055114 GO:0071704 GO:0090415 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko00860 ko01100 ko01110 map00860 map01100 map01110

Pfam Domains

Protein Families

FrhB_FdhB_C FrhB_FdhB_N

Protein Analysis

463

Amino Acids

51.0

Weight (kDa)

8.2

Isoelectric Point (pI)

41.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
FrhB_FdhB_N	PF04422	121 - 195	4.5e-25	Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term
FrhB_FdhB_C	PF04432	204 - 358	7.9e-27	Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006863)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G04620
fragaria_vesca	FvH4_4g05310 FvH4_4g05310 FvH4_4g05310 FvH4_4g05310
malus_domestica	MD13G1227100.v1.1
prunus_persica	Prupe.1G054400_v2.0.a1 Prupe.1G054600_v2.0.a1 Prupe.1G054600_v2.0.a1 Prupe.1G054600_v2.0.a1 Prupe.1G054600_v2.0.a1 Prupe.1G054600_v2.0.a1 Prupe.1G054600_v2.0.a1 Prupe.1G054600_v2.0.a1
pyrus_communis	pycom13g20010
rosa_chinensis	RchiOBHm_Chr4g0396281
rosa_laevigata	RLG00000009554
rosa_multiflora	Rmu_sc0002578.1_g000007 Rmu_ssc0000234.1_g000008
rosa_roxburghii	Rroxscaffold_5G00341120
rosa_rugosa	Rorug03G0350500 Rorug03G0350600.1
rosa_samantha	Rh4BG066300 Rh4CG073100 Rh4DG063100
rosa_wichuraiana	Rw4G005450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	593
Acc36I	ACCTGC	1 cut(s)	593
AccI	GTMKAC	1 cut(s)	1309
AccIII	TCCGGA	1 cut(s)	1260
AciI	CCGC	3 cut(s)	201, 935, 1124
AclWI	GGATC	1 cut(s)	1151
AcoI	YGGCCR	1 cut(s)	1383
AcsI	RAATTY	1 cut(s)	676
AcuI	CTGAAG	1 cut(s)	137
AfiI	CCNNNNNNNGG	5 cut(s)	164, 235, 389, 595, 1288
AgsI	TTSAA	6 cut(s)	18, 278, 389, 820, 842, 1052
AhlI	ACTAGT	1 cut(s)	1079
AjnI	CCWGG	2 cut(s)	160, 639
AleI	CACNNNNGTG	1 cut(s)	342
AluBI	AGCT	7 cut(s)	121, 179, 458, 539, 688, 909, 1304
AluI	AGCT	7 cut(s)	121, 179, 458, 539, 688, 909, 1304
Alw21I	GWGCWC	2 cut(s)	397, 669
Alw26I	GTCTC	3 cut(s)	130, 767, 1106
AlwI	GGATC	1 cut(s)	1151
Aor13HI	TCCGGA	1 cut(s)	1260
AoxI	GGCC	2 cut(s)	503, 1383
ApeKI	GCWGC	4 cut(s)	539, 599, 755, 909
ApoI	RAATTY	1 cut(s)	676
Asp700I	GAANNNNTTC	2 cut(s)	531, 846
AspS9I	GGNCC	2 cut(s)	1151, 1211
AsuHPI	GGTGA	3 cut(s)	558, 1100, 1373
AvaII	GGWCC	2 cut(s)	1151, 1211
BaeGI	GKGCMC	1 cut(s)	704
BaeI	ACNNNNGTAYC	2 cut(s)	943, 976
BarI	GAAGNNNNNNTAC	2 cut(s)	600, 632
BauI	CACGAG	1 cut(s)	726
Bbv12I	GWGCWC	2 cut(s)	397, 669
BbvI	GCAGC	4 cut(s)	526, 586, 742, 896
BccI	CCATC	6 cut(s)	44, 254, 678, 824, 1135, 1265
BceAI	ACGGC	1 cut(s)	1149
BciT130I	CCWGG	2 cut(s)	162, 641
BciVI	GTATCC	1 cut(s)	944
BcoDI	GTCTC	3 cut(s)	130, 767, 1106
BcuI	ACTAGT	1 cut(s)	1079
BfaI	CTAG	4 cut(s)	536, 590, 759, 1080
BfmI	CTRYAG	3 cut(s)	190, 291, 600
BfuAI	ACCTGC	1 cut(s)	593
BfuI	GTATCC	1 cut(s)	944
BisI	GCNGC	4 cut(s)	540, 600, 756, 910
BlsI	GCNGC	4 cut(s)	541, 601, 757, 911
Bme1390I	CCNGG	2 cut(s)	162, 641
Bme18I	GGWCC	2 cut(s)	1151, 1211
BmgT120I	GGNCC	2 cut(s)	1151, 1211
BmiI	GGNNCC	4 cut(s)	288, 849, 1152, 1213
BmrFI	CCNGG	2 cut(s)	162, 641
BmsI	GCATC	2 cut(s)	1026, 1365
BplI	GAGNNNNNCTC	2 cut(s)	1023, 1055
BpmI	CTGGAG	2 cut(s)	154, 1244
BsaJI	CCNNGG	2 cut(s)	500, 1215
BsaWI	WCCGGW	2 cut(s)	523, 1260
BsaXI	ACNNNNNCTCC	4 cut(s)	347, 377, 674, 704
Bsc4I	CCNNNNNNNGG	5 cut(s)	164, 235, 389, 595, 1288
Bse1I	ACTGG	1 cut(s)	137
Bse3DI	GCAATG	1 cut(s)	222
BseAI	TCCGGA	1 cut(s)	1260
BseBI	CCWGG	2 cut(s)	162, 641
BseDI	CCNNGG	2 cut(s)	500, 1215
BseGI	GGATG	5 cut(s)	270, 835, 994, 1132, 1257
BseLI	CCNNNNNNNGG	5 cut(s)	164, 235, 389, 595, 1288
BseMI	GCAATG	1 cut(s)	222
BseMII	CTCAG	3 cut(s)	410, 1013, 1054
BseNI	ACTGG	1 cut(s)	137
BseRI	GAGGAG	1 cut(s)	368
BseSI	GKGCMC	1 cut(s)	704
BseXI	GCAGC	4 cut(s)	526, 586, 742, 896
BseYI	CCCAGC	1 cut(s)	175
BsgI	GTGCAG	1 cut(s)	1146
BshFI	GGCC	2 cut(s)	505, 1385
BsiHKAI	GWGCWC	2 cut(s)	397, 669
BsiSI	CCGG	2 cut(s)	524, 1261
BslFI	GGGAC	2 cut(s)	736, 1197
BslI	CCNNNNNNNGG	5 cut(s)	164, 235, 389, 595, 1288
BsmAI	GTCTC	3 cut(s)	130, 767, 1106
BsmBI	CGTCTC	2 cut(s)	767, 1106
BsmFI	GGGAC	2 cut(s)	736, 1197
BsnI	GGCC	2 cut(s)	505, 1385
Bsp1286I	GDGCHC	3 cut(s)	397, 669, 704
Bsp13I	TCCGGA	1 cut(s)	1260
Bsp143I	GATC	2 cut(s)	1090, 1156
BspACI	CCGC	3 cut(s)	201, 935, 1124
BspANI	GGCC	2 cut(s)	505, 1385
BspCNI	CTCAG	3 cut(s)	409, 1012, 1053
BspEI	TCCGGA	1 cut(s)	1260
BspLI	GGNNCC	4 cut(s)	288, 849, 1152, 1213
BspMAI	CTGCAG	2 cut(s)	194, 604
BspMI	ACCTGC	1 cut(s)	593
BspPI	GGATC	1 cut(s)	1151
BsrDI	GCAATG	1 cut(s)	222
BsrI	ACTGG	1 cut(s)	137
BssECI	CCNNGG	2 cut(s)	500, 1215
BssMI	GATC	2 cut(s)	1090, 1156
BssSI	CACGAG	1 cut(s)	726
BssT1I	CCWWGG	2 cut(s)	500, 1215
Bst2BI	CACGAG	1 cut(s)	726
Bst2UI	CCWGG	2 cut(s)	162, 641
Bst4CI	ACNGT	3 cut(s)	778, 1012, 1117
Bst6I	CTCTTC	2 cut(s)	837, 1024
BstAPI	GCANNNNNTGC	2 cut(s)	198, 708
BstC8I	GCNNGC	2 cut(s)	648, 867
BstDEI	CTNAG	5 cut(s)	122, 396, 999, 1040, 1137
BstENI	CCTNNNNNAGG	2 cut(s)	387, 593
BstF5I	GGATG	5 cut(s)	270, 835, 994, 1132, 1257
BstKTI	GATC	2 cut(s)	1093, 1159
BstMAI	GTCTC	3 cut(s)	130, 767, 1106
BstMBI	GATC	2 cut(s)	1090, 1156
BstMWI	GCNNNNNNNGC	2 cut(s)	198, 708
BstNI	CCWGG	2 cut(s)	162, 641
BstNSI	RCATGY	1 cut(s)	1277
BstSCI	CCNGG	2 cut(s)	160, 639
BstSFI	CTRYAG	3 cut(s)	190, 291, 600
BstSLI	GKGCMC	1 cut(s)	704
BstV1I	GCAGC	4 cut(s)	526, 586, 742, 896
BstXI	CCANNNNNNTGG	1 cut(s)	1222
BsuI	GTATCC	1 cut(s)	944
BsuRI	GGCC	2 cut(s)	505, 1385
BtsCI	GGATG	5 cut(s)	270, 835, 994, 1132, 1257
BtsI	GCAGTG	1 cut(s)	187
BtsIMutI	CAGTG	3 cut(s)	113, 187, 404
BveI	ACCTGC	1 cut(s)	593
Cac8I	GCNNGC	2 cut(s)	648, 867
Cfr13I	GGNCC	2 cut(s)	1151, 1211
CspCI	CAANNNNNGTGG	2 cut(s)	693, 728
CviAII	CATG	7 cut(s)	230, 299, 448, 955, 985, 1274, 1287
DdeI	CTNAG	5 cut(s)	122, 396, 999, 1040, 1137
DpnI	GATC	2 cut(s)	1092, 1158
DpnII	GATC	2 cut(s)	1090, 1156
EaeI	YGGCCR	1 cut(s)	1383
Eam1104I	CTCTTC	2 cut(s)	837, 1024
EarI	CTCTTC	2 cut(s)	837, 1024
EciI	GGCGGA	2 cut(s)	950, 1139
Eco130I	CCWWGG	2 cut(s)	500, 1215
Eco147I	AGGCCT	1 cut(s)	505
Eco47I	GGWCC	2 cut(s)	1151, 1211
Eco57I	CTGAAG	1 cut(s)	137
EcoNI	CCTNNNNNAGG	2 cut(s)	387, 593
EcoO109I	RGGNCCY	1 cut(s)	1151
EcoRII	CCWGG	2 cut(s)	160, 639
EcoT14I	CCWWGG	2 cut(s)	500, 1215
ErhI	CCWWGG	2 cut(s)	500, 1215
Esp3I	CGTCTC	2 cut(s)	767, 1106
FaeI	CATG	7 cut(s)	233, 302, 451, 958, 988, 1277, 1290
FalI	AAGNNNNNCTT	2 cut(s)	800, 832
FaqI	GGGAC	2 cut(s)	736, 1197
FatI	CATG	7 cut(s)	229, 298, 447, 954, 984, 1273, 1286
FauI	CCCGC	1 cut(s)	194
FauNDI	CATATG	2 cut(s)	464, 1314
FblI	GTMKAC	1 cut(s)	1309
Fnu4HI	GCNGC	4 cut(s)	540, 600, 756, 910
FokI	GGATG	5 cut(s)	277, 842, 981, 1139, 1244
Fsp4HI	GCNGC	4 cut(s)	540, 600, 756, 910
FspBI	CTAG	4 cut(s)	536, 590, 759, 1080
GluI	GCNGC	4 cut(s)	540, 600, 756, 910
GsaI	CCCAGC	1 cut(s)	179
GsuI	CTGGAG	2 cut(s)	154, 1244
HaeIII	GGCC	2 cut(s)	505, 1385
HapII	CCGG	2 cut(s)	524, 1261
Hin1II	CATG	7 cut(s)	233, 302, 451, 958, 988, 1277, 1290
HincII	GTYRAC	2 cut(s)	1279, 1310
HindII	GTYRAC	2 cut(s)	1279, 1310
HindIII	AAGCTT	1 cut(s)	119
HinfI	GANTC	3 cut(s)	320, 724, 978
HpaI	GTTAAC	1 cut(s)	1279
HpaII	CCGG	2 cut(s)	524, 1261
HphI	GGTGA	3 cut(s)	558, 1100, 1373
Hpy166II	GTNNAC	6 cut(s)	98, 402, 767, 814, 1279, 1310
Hpy188I	TCNGA	2 cut(s)	474, 675
Hpy188III	TCNNGA	4 cut(s)	728, 975, 1154, 1261
Hpy8I	GTNNAC	6 cut(s)	98, 402, 767, 814, 1279, 1310
HpyAV	CCTTC	5 cut(s)	272, 383, 725, 906, 1329
HpyCH4III	ACNGT	3 cut(s)	778, 1012, 1117
HpyCH4IV	ACGT	1 cut(s)	1024
HpyCH4V	TGCA	9 cut(s)	192, 337, 425, 602, 646, 799, 1163, 1273, 1328
HpyF10VI	GCNNNNNNNGC	2 cut(s)	198, 708
HpyF3I	CTNAG	5 cut(s)	122, 396, 999, 1040, 1137
HpySE526I	ACGT	1 cut(s)	1024
Hsp92II	CATG	7 cut(s)	233, 302, 451, 958, 988, 1277, 1290
Kpn2I	TCCGGA	1 cut(s)	1260
KspAI	GTTAAC	1 cut(s)	1279
Kzo9I	GATC	2 cut(s)	1090, 1156
LmnI	GCTCC	3 cut(s)	149, 664, 898
Lsp1109I	GCAGC	4 cut(s)	526, 586, 742, 896
LweI	GCATC	2 cut(s)	1026, 1365
MaeI	CTAG	4 cut(s)	536, 590, 759, 1080
MaeII	ACGT	1 cut(s)	1024
MaeIII	GTNAC	6 cut(s)	111, 209, 412, 476, 1006, 1346
MalI	GATC	2 cut(s)	1092, 1158
MboI	GATC	2 cut(s)	1090, 1156
MhlI	GDGCHC	3 cut(s)	397, 669, 704
MluCI	AATT	7 cut(s)	18, 676, 706, 888, 1180, 1335, 1365
MlyI	GAGTC	2 cut(s)	314, 718
MmeI	TCCRAC	1 cut(s)	928
MroI	TCCGGA	1 cut(s)	1260
MroXI	GAANNNNTTC	2 cut(s)	531, 846
MseI	TTAA	4 cut(s)	576, 653, 1119, 1278
MslI	CAYNNNNRTG	3 cut(s)	342, 828, 959
MspI	CCGG	2 cut(s)	524, 1261
MspR9I	CCNGG	2 cut(s)	162, 641
MvaI	CCWGG	2 cut(s)	162, 641
MwoI	GCNNNNNNNGC	2 cut(s)	198, 708
NdeI	CATATG	2 cut(s)	464, 1314
NdeII	GATC	2 cut(s)	1090, 1156
NlaIII	CATG	7 cut(s)	233, 302, 451, 958, 988, 1277, 1290
NlaIV	GGNNCC	4 cut(s)	288, 849, 1152, 1213
NmuCI	GTSAC	3 cut(s)	111, 209, 476
NspI	RCATGY	1 cut(s)	1277
OliI	CACNNNNGTG	1 cut(s)	342
PaqCI	CACCTGC	1 cut(s)	593
PceI	AGGCCT	1 cut(s)	505
PdmI	GAANNNNTTC	2 cut(s)	531, 846
PfeI	GAWTC	1 cut(s)	978
PkrI	GCNGC	4 cut(s)	541, 601, 757, 911
PleI	GAGTC	2 cut(s)	314, 718
PpsI	GAGTC	2 cut(s)	314, 718
PpuMI	RGGWCCY	1 cut(s)	1151
Psp5II	RGGWCCY	1 cut(s)	1151
Psp6I	CCWGG	2 cut(s)	160, 639
PspFI	CCCAGC	1 cut(s)	175
PspGI	CCWGG	2 cut(s)	160, 639
PspN4I	GGNNCC	4 cut(s)	288, 849, 1152, 1213
PspPI	GGNCC	2 cut(s)	1151, 1211
PspPPI	RGGWCCY	1 cut(s)	1151
PstI	CTGCAG	2 cut(s)	194, 604
RseI	CAYNNNNRTG	3 cut(s)	342, 828, 959
SalI	GTCGAC	1 cut(s)	1308
SaqAI	TTAA	4 cut(s)	576, 653, 1119, 1278
SatI	GCNGC	4 cut(s)	540, 600, 756, 910
Sau3AI	GATC	2 cut(s)	1090, 1156
Sau96I	GGNCC	2 cut(s)	1151, 1211
SchI	GAGTC	2 cut(s)	314, 718
ScrFI	CCNGG	2 cut(s)	162, 641
SduI	GDGCHC	3 cut(s)	397, 669, 704
SfaNI	GCATC	2 cut(s)	1026, 1365
SfcI	CTRYAG	3 cut(s)	190, 291, 600
SinI	GGWCC	2 cut(s)	1151, 1211
SmiMI	CAYNNNNRTG	3 cut(s)	342, 828, 959
SpeI	ACTAGT	1 cut(s)	1079
Sse9I	AATT	7 cut(s)	18, 676, 706, 888, 1180, 1335, 1365
SseBI	AGGCCT	1 cut(s)	505
SsiI	CCGC	3 cut(s)	201, 935, 1124
SspI	AATATT	1 cut(s)	971
SspMI	CTAG	4 cut(s)	536, 590, 759, 1080
StuI	AGGCCT	1 cut(s)	505
StyD4I	CCNGG	2 cut(s)	160, 639
StyI	CCWWGG	2 cut(s)	500, 1215
TaaI	ACNGT	3 cut(s)	778, 1012, 1117
TaiI	ACGT	1 cut(s)	1027
TaqI	TCGA	2 cut(s)	1234, 1309
TasI	AATT	7 cut(s)	18, 676, 706, 888, 1180, 1335, 1365
TfiI	GAWTC	1 cut(s)	978
Tru1I	TTAA	4 cut(s)	576, 653, 1119, 1278
Tru9I	TTAA	4 cut(s)	576, 653, 1119, 1278
TscAI	CASTG	3 cut(s)	120, 194, 404
TseFI	GTSAC	3 cut(s)	111, 209, 476
TseI	GCWGC	4 cut(s)	539, 599, 755, 909
Tsp45I	GTSAC	3 cut(s)	111, 209, 476
TspDTI	ATGAA	9 cut(s)	42, 48, 54, 60, 66, 287, 345, 773, 1035
TspRI	CASTG	3 cut(s)	120, 194, 404
VpaK11BI	GGWCC	2 cut(s)	1151, 1211
XagI	CCTNNNNNAGG	2 cut(s)	387, 593
XapI	RAATTY	1 cut(s)	676
XceI	RCATGY	1 cut(s)	1277
XmiI	GTMKAC	1 cut(s)	1309
XmnI	GAANNNNTTC	2 cut(s)	531, 846
XspI	CTAG	4 cut(s)	536, 590, 759, 1080

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.