Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0001236

Physical Location & Seq

Genomic Coordinates Reverse (-)

51806849 .. 51807680

Gene Structure 832 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG403800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGGAATCGCCGCCGGACAAGTTCATGGCCGATGGCTTGGAGTCGAGGAAGCCAAGGCTGTTCATCAGGGAAATGGTTATGAGCAACTTCAAGTCTTACGCCGGTGAACAACGCGTTGGTCCTTTCCACAAGAGCTTTTCTGCTGTTGTTGGACCTAATGGGAGTGGGAAGAGCAACGTCATAGATGCAATGCTCTTTGTATTCGGAAAACGAGCTAAGCAGATGCGACTTAACAGAGTTTCGGAGCTCATTCATAACTCCACTAATTGCCACAATATGGATAGTGCTCGAGTTTCTCTTCATTTCCAGGAGATCATTGATTGGACGATGGGACGTTTGAAGCTGTTCCAGGAAGTGATTTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000070 GO:0000278 GO:0000280 GO:0000819 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006323 GO:0006996 GO:0007049 GO:0007059 GO:0007076 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016043 GO:0022402 GO:0022414 GO:0030261 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048285 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0051276 GO:0061458 GO:0071103 GO:0071840 GO:0098813 GO:0140014 GO:1903047

KEGG Pathways

Metabolic & Signaling

ko04111 map04111

Pfam Domains

Protein Families

SMC_N SMC_hinge

Protein Analysis

121

Amino Acids

13.82

Weight (kDa)

9.72

Isoelectric Point (pI)

37.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMC_N	PF02463	21 - 104	2.6e-28	RecF/RecN/SMC N terminal domain
AAA_15	PF13175	22 - 87	3.2e-06	AAA ATPase domain
AAA_29	PF13555	23 - 81	2.3e-07	P-loop containing region of AAA domain
AAA_23	PF13476	25 - 103	1.7e-09	AAA domain
AAA_21	PF13304	46 - 69	5.4e-07	AAA domain, putative AbiEii toxin, Type IV TA system

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: OG0001236)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G48600 AT5G48600
fragaria_vesca	FvH4_2g39941 FvH4_2g39941 FvH4_2g39941 FvH4_2g39941 FvH4_2g39941 FvH4_2g39941 FvH4_4g18080 FvH4_5g30910 FvH4_5g30910 FvH4_5g30910 FvH4_6g23280
malus_domestica	MD02G1198100.v1.1
prunus_persica	Prupe.3G267300_v2.0.a1 Prupe.3G267300_v2.0.a1
pyrus_communis	pycom02g16170
rosa_chinensis	RchiOBHm_Chr5g0008421 RchiOBHm_Chr6g0300801 RchiOBHm_Chr7g0223681 RchiOBHm_Chr7g0223741 RchiOBHm_Chr7g0226461
rosa_laevigata	RLG00000001729 RLG00000011300 RLG00000031570
rosa_multiflora	Rmu_sc0001470.1_g000005 Rmu_sc0001903.1_g000024 Rmu_sc0002826.1_g000022 Rmu_sc0008947.1_g000001
rosa_roxburghii	Rroxscaffold_3G00232810 Rroxscaffold_3G00235410 Rroxscaffold_7G00167400
rosa_rugosa	Rorug06G0299200 Rorug07G0218700 Rorug07G0219100 Rorug07G0219200 Rorug07G0237300
rosa_samantha	Rh6AG412200 Rh6BG419400 Rh6CG426900 Rh6DG412200 Rh7AG362000 Rh7AG384400 Rh7AG384500 Rh7BG353400 Rh7BG353500 Rh7BG371100 Rh7CG380600 Rh7CG403700 Rh7CG403800 Rh7DG356900 Rh7DG357400 Rh7DG383200
rosa_wichuraiana	Rw7G030730 Rw7G030770 Rw7G032280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	277
AccII	CGCG	1 cut(s)	114
AciI	CCGC	1 cut(s)	11
AcoI	YGGCCR	1 cut(s)	27
AfiI	CCNNNNNNNGG	1 cut(s)	277
AflIII	ACRYGT	1 cut(s)	112
AgsI	TTSAA	2 cut(s)	91, 340
AjnI	CCWGG	2 cut(s)	306, 348
AjuI	GAANNNNNNNTTGG	2 cut(s)	99, 131
AluBI	AGCT	4 cut(s)	135, 215, 247, 343
AluI	AGCT	4 cut(s)	135, 215, 247, 343
Alw21I	GWGCWC	2 cut(s)	249, 289
Ama87I	CYCGRG	1 cut(s)	288
AoxI	GGCC	1 cut(s)	27
Asp700I	GAANNNNTTC	1 cut(s)	344
AspS9I	GGNCC	2 cut(s)	119, 152
AsuHPI	GGTGA	1 cut(s)	116
AvaI	CYCGRG	1 cut(s)	288
AvaII	GGWCC	2 cut(s)	119, 152
BanII	GRGCYC	1 cut(s)	249
Bbv12I	GWGCWC	2 cut(s)	249, 289
BccI	CCATC	2 cut(s)	26, 322
BciT130I	CCWGG	2 cut(s)	308, 350
BisI	GCNGC	1 cut(s)	11
BlpI	GCTNAGC	1 cut(s)	216
BlsI	GCNGC	1 cut(s)	12
Bme1390I	CCNGG	2 cut(s)	308, 350
Bme18I	GGWCC	2 cut(s)	119, 152
BmeT110I	CYCGRG	1 cut(s)	288
BmgT120I	GGNCC	2 cut(s)	119, 152
BmrFI	CCNGG	2 cut(s)	308, 350
BmsI	GCATC	2 cut(s)	175, 213
Bpu1102I	GCTNAGC	1 cut(s)	216
BsaJI	CCNNGG	1 cut(s)	53
Bsc4I	CCNNNNNNNGG	1 cut(s)	277
Bse118I	RCCGGY	1 cut(s)	101
Bse3DI	GCAATG	1 cut(s)	195
BseBI	CCWGG	2 cut(s)	308, 350
BseDI	CCNNGG	1 cut(s)	53
BseLI	CCNNNNNNNGG	1 cut(s)	277
BseMI	GCAATG	1 cut(s)	195
Bsh1236I	CGCG	1 cut(s)	114
BshFI	GGCC	1 cut(s)	29
BsiHKAI	GWGCWC	2 cut(s)	249, 289
BsiHKCI	CYCGRG	1 cut(s)	288
BsiSI	CCGG	2 cut(s)	14, 102
BslFI	GGGAC	1 cut(s)	345
BslI	CCNNNNNNNGG	1 cut(s)	277
BsmFI	GGGAC	1 cut(s)	345
BsnI	GGCC	1 cut(s)	29
BsoBI	CYCGRG	1 cut(s)	288
Bsp1286I	GDGCHC	2 cut(s)	249, 289
Bsp143I	GATC	1 cut(s)	312
Bsp1720I	GCTNAGC	1 cut(s)	216
BspACI	CCGC	1 cut(s)	11
BspANI	GGCC	1 cut(s)	29
BspFNI	CGCG	1 cut(s)	114
BspQI	GCTCTTC	1 cut(s)	164
BsrDI	GCAATG	1 cut(s)	195
BsrFI	RCCGGY	1 cut(s)	101
BssAI	RCCGGY	1 cut(s)	101
BssECI	CCNNGG	1 cut(s)	53
BssMI	GATC	1 cut(s)	312
BssT1I	CCWWGG	1 cut(s)	53
Bst2UI	CCWGG	2 cut(s)	308, 350
Bst6I	CTCTTC	2 cut(s)	164, 303
BstDEI	CTNAG	1 cut(s)	216
BstFNI	CGCG	1 cut(s)	114
BstKTI	GATC	1 cut(s)	315
BstMBI	GATC	1 cut(s)	312
BstNI	CCWGG	2 cut(s)	308, 350
BstSCI	CCNGG	2 cut(s)	306, 348
BstUI	CGCG	1 cut(s)	114
BsuRI	GGCC	1 cut(s)	29
Cfr10I	RCCGGY	1 cut(s)	101
Cfr13I	GGNCC	2 cut(s)	119, 152
CviAII	CATG	1 cut(s)	25
CviJI	RGCY	8 cut(s)	29, 36, 52, 58, 135, 215, 247, 343
CviKI_1	RGCY	8 cut(s)	29, 36, 52, 58, 135, 215, 247, 343
DdeI	CTNAG	1 cut(s)	216
DpnI	GATC	1 cut(s)	314
DpnII	GATC	1 cut(s)	312
EaeI	YGGCCR	1 cut(s)	27
Eam1104I	CTCTTC	2 cut(s)	164, 303
EarI	CTCTTC	2 cut(s)	164, 303
Ecl136II	GAGCTC	1 cut(s)	247
Eco130I	CCWWGG	1 cut(s)	53
Eco24I	GRGCYC	1 cut(s)	249
Eco47I	GGWCC	2 cut(s)	119, 152
Eco53kI	GAGCTC	1 cut(s)	247
Eco88I	CYCGRG	1 cut(s)	288
EcoICRI	GAGCTC	1 cut(s)	247
EcoRII	CCWGG	2 cut(s)	306, 348
EcoT14I	CCWWGG	1 cut(s)	53
EcoT38I	GRGCYC	1 cut(s)	249
ErhI	CCWWGG	1 cut(s)	53
FaeI	CATG	1 cut(s)	28
FaiI	YATR	5 cut(s)	26, 80, 182, 255, 278
FaqI	GGGAC	1 cut(s)	345
FatI	CATG	1 cut(s)	24
Fnu4HI	GCNGC	1 cut(s)	11
FriOI	GRGCYC	1 cut(s)	249
Fsp4HI	GCNGC	1 cut(s)	11
GluI	GCNGC	1 cut(s)	11
HaeIII	GGCC	1 cut(s)	29
HapII	CCGG	2 cut(s)	14, 102
Hin1II	CATG	1 cut(s)	28
HinfI	GANTC	2 cut(s)	5, 41
HpaII	CCGG	2 cut(s)	14, 102
HphI	GGTGA	1 cut(s)	116
Hpy166II	GTNNAC	1 cut(s)	107
Hpy188I	TCNGA	2 cut(s)	206, 244
Hpy8I	GTNNAC	1 cut(s)	107
HpyCH4IV	ACGT	2 cut(s)	177, 334
HpyCH4V	TGCA	1 cut(s)	188
HpyF3I	CTNAG	1 cut(s)	216
HpySE526I	ACGT	2 cut(s)	177, 334
Hsp92II	CATG	1 cut(s)	28
Kzo9I	GATC	1 cut(s)	312
LguI	GCTCTTC	1 cut(s)	164
LmnI	GCTCC	1 cut(s)	244
LpnPI	CCDG	7 cut(s)	27, 52, 115, 293, 320, 335, 362
LweI	GCATC	2 cut(s)	175, 213
MaeII	ACGT	2 cut(s)	177, 334
MalI	GATC	1 cut(s)	314
MboI	GATC	1 cut(s)	312
MboII	GAAGA	2 cut(s)	181, 290
MhlI	GDGCHC	2 cut(s)	249, 289
MluCI	AATT	1 cut(s)	265
MluI	ACGCGT	1 cut(s)	112
MlyI	GAGTC	1 cut(s)	50
MmeI	TCCRAC	1 cut(s)	130
MnlI	CCTC	1 cut(s)	39
MroXI	GAANNNNTTC	1 cut(s)	344
MseI	TTAA	1 cut(s)	231
MspI	CCGG	2 cut(s)	14, 102
MspR9I	CCNGG	2 cut(s)	308, 350
MvaI	CCWGG	2 cut(s)	308, 350
MvnI	CGCG	1 cut(s)	114
NdeII	GATC	1 cut(s)	312
NlaIII	CATG	1 cut(s)	28
PaeR7I	CTCGAG	1 cut(s)	288
PciSI	GCTCTTC	1 cut(s)	164
PdmI	GAANNNNTTC	1 cut(s)	344
PfeI	GAWTC	1 cut(s)	5
PflMI	CCANNNNNTGG	1 cut(s)	277
PfoI	TCCNGGA	2 cut(s)	306, 348
PkrI	GCNGC	1 cut(s)	12
PleI	GAGTC	1 cut(s)	49
PpsI	GAGTC	1 cut(s)	49
Psp124BI	GAGCTC	1 cut(s)	249
Psp6I	CCWGG	2 cut(s)	306, 348
PspGI	CCWGG	2 cut(s)	306, 348
PspPI	GGNCC	2 cut(s)	119, 152
PspXI	VCTCGAGB	1 cut(s)	288
SacI	GAGCTC	1 cut(s)	249
SapI	GCTCTTC	1 cut(s)	164
SaqAI	TTAA	1 cut(s)	231
SatI	GCNGC	1 cut(s)	11
Sau3AI	GATC	1 cut(s)	312
Sau96I	GGNCC	2 cut(s)	119, 152
SchI	GAGTC	1 cut(s)	50
ScrFI	CCNGG	2 cut(s)	308, 350
SduI	GDGCHC	2 cut(s)	249, 289
SetI	ASST	7 cut(s)	137, 157, 180, 217, 249, 337, 345
SfaNI	GCATC	2 cut(s)	175, 213
Sfr274I	CTCGAG	1 cut(s)	288
SgrAI	CRCCGGYG	1 cut(s)	101
SinI	GGWCC	2 cut(s)	119, 152
SlaI	CTCGAG	1 cut(s)	288
SmlI	CTYRAG	1 cut(s)	288
SmoI	CTYRAG	1 cut(s)	288
Sse9I	AATT	1 cut(s)	265
SsiI	CCGC	1 cut(s)	11
SstI	GAGCTC	1 cut(s)	249
StyD4I	CCNGG	2 cut(s)	306, 348
StyI	CCWWGG	1 cut(s)	53
TaiI	ACGT	2 cut(s)	180, 337
TaqI	TCGA	2 cut(s)	44, 289
TasI	AATT	1 cut(s)	265
TauI	GCSGC	1 cut(s)	13
TfiI	GAWTC	1 cut(s)	5
Tru1I	TTAA	1 cut(s)	231
Tru9I	TTAA	1 cut(s)	231
TspDTI	ATGAA	4 cut(s)	13, 52, 242, 290
Van91I	CCANNNNNTGG	1 cut(s)	277
VpaK11BI	GGWCC	2 cut(s)	119, 152
XhoI	CTCGAG	1 cut(s)	288
XmnI	GAANNNNTTC	1 cut(s)	344

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