Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0004197

Physical Location & Seq

Genomic Coordinates Forward (+)

59604982 .. 59607959

Gene Structure 2978 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG371600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGGCTCTACGAGCTCTCGCGGCCAGGAAATCCCTAGCCGGATCAGGTTTCCAGAGAATCCTCGGCGCGCGTGGACTGCAGACGTTCTCTCTCCCCGACCTTCCGTACGACTACGGCGCTCTCGAGCCGGCGATCAGCGCCGAGATCATGCAGCTCCACCACCAGAAGCACCACCAGGCTTACATCACCAACTACAACAAGGCTTTGGAGCAGCTCGACGCCGCAATCGCCAAGGGCGACGCTTCTGCCGTCGTTAAGTTGCAGAGCGCCATTAAATTCAACGGCGGAGGTCATGTCAACCACTCGATTTTCTGGAATAATCTGAGTCCTGTTAAAGAAGGAGGTGGCGAGCCCCCTCATAGTTCCCTGGGCTGGGCTATTGACCAAAGTTTTGGTTCTTTTGACGCAGTAATCGCAAAGATGAATGCAGAAGGTGCTGGCTTGCAGGGTTCTGGATGGGTGTGGCTGGCTCTAGACAAAGAATTGAAGAAGGTTGTGGTTGAAACCACTGCAAATCAGGTAACCTCAAAAGATATACCATATAACTATTTATTTCTAGTAGTAATCAAGAGTATTCCCTTCTATGTCTGCTTACGAGTGGCCATATTCAAATCCGTCCTGCTTTTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000302 GO:0000303 GO:0000305 GO:0001101 GO:0003674 GO:0003824 GO:0004784 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005759 GO:0006801 GO:0006950 GO:0006970 GO:0006979 GO:0008150 GO:0008152 GO:0009410 GO:0009628 GO:0009635 GO:0009636 GO:0009719 GO:0009725 GO:0009737 GO:0009987 GO:0010033 GO:0010035 GO:0016043 GO:0016209 GO:0016491 GO:0016721 GO:0019430 GO:0022607 GO:0030145 GO:0031974 GO:0033554 GO:0033993 GO:0034599 GO:0034614 GO:0042221 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0046872 GO:0046914 GO:0050896 GO:0051259 GO:0051260 GO:0051262 GO:0051289 GO:0051716 GO:0055114 GO:0065003 GO:0070013 GO:0070887 GO:0071450 GO:0071451 GO:0071840 GO:0072593 GO:0097237 GO:0097305 GO:0098754 GO:0098869 GO:1901700 GO:1901701 GO:1990748

KEGG Pathways

Metabolic & Signaling

ko04013 ko04068 ko04146 ko04211 ko04212 ko04213 ko05016 map04013 map04068 map04146 map04211 map04212 map04213 map05016

Pfam Domains

Protein Families

Sod_Fe_C Sod_Fe_N

Protein Analysis

209

Amino Acids

22.68

Weight (kDa)

8.91

Isoelectric Point (pI)

35.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	28 - 109	2.8e-34	Iron/manganese superoxide dismutases, alpha-hairpin domain
Sod_Fe_C	PF02777	121 - 175	5.2e-11	Iron/manganese superoxide dismutases, C-terminal domain

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: OG0004197)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10920 AT3G10920 AT3G56350
fragaria_vesca	FvH4_7g25730
malus_domestica	MD01G1164700.v1.1 MD07G1232200.v1.1
prunus_persica	Prupe.2G262400_v2.0.a1 Prupe.2G262400_v2.0.a1 Prupe.6G042300_v2.0.a1 Prupe.6G042300_v2.0.a1
pyrus_communis	pycom01g17880 pycom07g21000
rosa_chinensis	RchiOBHm_Chr1g0371971 RchiOBHm_Chr5g0072721 RchiOBHm_Chr5g0072741
rosa_laevigata	RLG00000026932 RLG00000036327 RLG00000036328
rosa_multiflora	Rmu_sc0001755.1_g000040 Rmu_sc0003160.1_g000031
rosa_roxburghii	Rroxscaffold_1G00008440 Rroxscaffold_4G00285350
rosa_rugosa	Rorug01G0367500 Rorug05G0419500
rosa_samantha	Rh1AG377300 Rh1BG340700 Rh1CG353800 Rh1DG371600 Rh5AG476700 Rh5BG496600 Rh5CG520400
rosa_wichuraiana	Rw1G033200 Rw5G044240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	3 cut(s)	20, 68, 70
AciI	CCGC	3 cut(s)	20, 222, 285
AclWI	GGATC	1 cut(s)	49
AcoI	YGGCCR	2 cut(s)	21, 600
AcsI	RAATTY	1 cut(s)	275
AcyI	GRCGYC	1 cut(s)	219
AfaI	GTAC	1 cut(s)	107
AfiI	CCNNNNNNNGG	2 cut(s)	372, 373
AgsI	TTSAA	4 cut(s)	280, 487, 503, 610
AjnI	CCWGG	3 cut(s)	23, 174, 366
AluBI	AGCT	3 cut(s)	14, 154, 214
AluI	AGCT	3 cut(s)	14, 154, 214
Alw21I	GWGCWC	1 cut(s)	16
AlwI	GGATC	1 cut(s)	49
Ama87I	CYCGRG	1 cut(s)	122
AoxI	GGCC	2 cut(s)	21, 600
ApeKI	GCWGC	2 cut(s)	151, 211
ApoI	RAATTY	1 cut(s)	275
ArsI	GACNNNNNNTTYG	2 cut(s)	374, 406
AspLEI	GCGC	5 cut(s)	68, 70, 119, 140, 269
AsuHPI	GGTGA	1 cut(s)	178
AvaI	CYCGRG	1 cut(s)	122
BalI	TGGCCA	1 cut(s)	602
BanII	GRGCYC	2 cut(s)	16, 354
Bbv12I	GWGCWC	1 cut(s)	16
BbvI	GCAGC	2 cut(s)	163, 223
BccI	CCATC	1 cut(s)	450
BceAI	ACGGC	3 cut(s)	130, 233, 298
BcgI	CGANNNNNNTGC	2 cut(s)	227, 261
BciT130I	CCWGG	3 cut(s)	25, 176, 368
BfaI	CTAG	3 cut(s)	35, 473, 557
BfmI	CTRYAG	1 cut(s)	77
BfoI	RGCGCY	3 cut(s)	120, 141, 270
BisI	GCNGC	4 cut(s)	21, 152, 212, 222
BlsI	GCNGC	4 cut(s)	22, 153, 213, 223
Bme1390I	CCNGG	3 cut(s)	25, 176, 368
BmeT110I	CYCGRG	1 cut(s)	122
BmrFI	CCNGG	3 cut(s)	25, 176, 368
BsaHI	GRCGYC	1 cut(s)	219
BsaJI	CCNNGG	4 cut(s)	61, 231, 366, 367
BsaXI	ACNNNNNCTCC	2 cut(s)	279, 309
Bsc4I	CCNNNNNNNGG	2 cut(s)	372, 373
Bse118I	RCCGGY	1 cut(s)	127
BseBI	CCWGG	3 cut(s)	25, 176, 368
BseDI	CCNNGG	4 cut(s)	61, 231, 366, 367
BseGI	GGATG	1 cut(s)	461
BseLI	CCNNNNNNNGG	2 cut(s)	372, 373
BseMII	CTCAG	1 cut(s)	314
BsePI	GCGCGC	1 cut(s)	66
BseXI	GCAGC	2 cut(s)	163, 223
BseYI	CCCAGC	1 cut(s)	372
Bsh1236I	CGCG	3 cut(s)	20, 68, 70
BshFI	GGCC	2 cut(s)	23, 602
BsiHKAI	GWGCWC	1 cut(s)	16
BsiHKCI	CYCGRG	1 cut(s)	122
BsiSI	CCGG	2 cut(s)	39, 128
BsiWI	CGTACG	1 cut(s)	105
BslI	CCNNNNNNNGG	2 cut(s)	372, 373
BsmI	GAATGC	1 cut(s)	430
BsnI	GGCC	2 cut(s)	23, 602
BsoBI	CYCGRG	1 cut(s)	122
Bsp1286I	GDGCHC	2 cut(s)	16, 354
Bsp143I	GATC	3 cut(s)	41, 132, 144
BspACI	CCGC	3 cut(s)	20, 222, 285
BspANI	GGCC	2 cut(s)	23, 602
BspCNI	CTCAG	1 cut(s)	315
BspFNI	CGCG	3 cut(s)	20, 68, 70
BspMAI	CTGCAG	1 cut(s)	81
BspPI	GGATC	1 cut(s)	49
BsrFI	RCCGGY	1 cut(s)	127
BssAI	RCCGGY	1 cut(s)	127
BssECI	CCNNGG	4 cut(s)	61, 231, 366, 367
BssHII	GCGCGC	1 cut(s)	66
BssMI	GATC	3 cut(s)	41, 132, 144
BssNI	GRCGYC	1 cut(s)	219
BssT1I	CCWWGG	1 cut(s)	231
Bst2UI	CCWGG	3 cut(s)	25, 176, 368
BstACI	GRCGYC	1 cut(s)	219
BstAPI	GCANNNNNTGC	1 cut(s)	434
BstC8I	GCNNGC	6 cut(s)	68, 129, 350, 439, 443, 468
BstDEI	CTNAG	1 cut(s)	323
BstEII	GGTNACC	1 cut(s)	520
BstF5I	GGATG	1 cut(s)	461
BstFNI	CGCG	3 cut(s)	20, 68, 70
BstH2I	RGCGCY	3 cut(s)	120, 141, 270
BstHHI	GCGC	5 cut(s)	68, 70, 119, 140, 269
BstKTI	GATC	3 cut(s)	44, 135, 147
BstMBI	GATC	3 cut(s)	41, 132, 144
BstMWI	GCNNNNNNNGC	7 cut(s)	11, 20, 76, 137, 227, 413, 434
BstNI	CCWGG	3 cut(s)	25, 176, 368
BstPI	GGTNACC	1 cut(s)	520
BstSCI	CCNGG	3 cut(s)	23, 174, 366
BstSFI	CTRYAG	1 cut(s)	77
BstUI	CGCG	3 cut(s)	20, 68, 70
BstV1I	GCAGC	2 cut(s)	163, 223
BstXI	CCANNNNNNTGG	1 cut(s)	392
BsuRI	GGCC	2 cut(s)	23, 602
BtsCI	GGATG	1 cut(s)	461
BtsI	GCAGTG	1 cut(s)	507
BtsIMutI	CAGTG	1 cut(s)	507
Cac8I	GCNNGC	6 cut(s)	68, 129, 350, 439, 443, 468
CfoI	GCGC	5 cut(s)	68, 70, 119, 140, 269
Cfr10I	RCCGGY	1 cut(s)	127
CseI	GACGC	3 cut(s)	227, 248, 413
Csp6I	GTAC	1 cut(s)	106
CviAII	CATG	2 cut(s)	148, 293
CviQI	GTAC	1 cut(s)	106
DdeI	CTNAG	1 cut(s)	323
DpnI	GATC	3 cut(s)	43, 134, 146
DpnII	GATC	3 cut(s)	41, 132, 144
EaeI	YGGCCR	2 cut(s)	21, 600
EciI	GGCGGA	1 cut(s)	300
Ecl136II	GAGCTC	1 cut(s)	14
Eco130I	CCWWGG	1 cut(s)	231
Eco24I	GRGCYC	2 cut(s)	16, 354
Eco53kI	GAGCTC	1 cut(s)	14
Eco88I	CYCGRG	1 cut(s)	122
Eco91I	GGTNACC	1 cut(s)	520
EcoICRI	GAGCTC	1 cut(s)	14
EcoO65I	GGTNACC	1 cut(s)	520
EcoRII	CCWGG	3 cut(s)	23, 174, 366
EcoT14I	CCWWGG	1 cut(s)	231
EcoT38I	GRGCYC	2 cut(s)	16, 354
ErhI	CCWWGG	1 cut(s)	231
FaeI	CATG	2 cut(s)	151, 296
FaiI	YATR	8 cut(s)	149, 294, 360, 536, 541, 543, 585, 605
FatI	CATG	2 cut(s)	147, 292
Fnu4HI	GCNGC	4 cut(s)	21, 152, 212, 222
FokI	GGATG	1 cut(s)	468
FriOI	GRGCYC	2 cut(s)	16, 354
Fsp4HI	GCNGC	4 cut(s)	21, 152, 212, 222
FspBI	CTAG	3 cut(s)	35, 473, 557
GlaI	GCGC	5 cut(s)	67, 69, 118, 139, 268
GluI	GCNGC	4 cut(s)	21, 152, 212, 222
GsaI	CCCAGC	1 cut(s)	376
HaeII	RGCGCY	3 cut(s)	120, 141, 270
HaeIII	GGCC	2 cut(s)	23, 602
HapII	CCGG	2 cut(s)	39, 128
HgaI	GACGC	3 cut(s)	227, 248, 413
HhaI	GCGC	5 cut(s)	68, 70, 119, 140, 269
Hin1I	GRCGYC	1 cut(s)	219
Hin1II	CATG	2 cut(s)	151, 296
Hin6I	GCGC	5 cut(s)	66, 68, 117, 138, 267
HinP1I	GCGC	5 cut(s)	66, 68, 117, 138, 267
HincII	GTYRAC	1 cut(s)	298
HindII	GTYRAC	1 cut(s)	298
HinfI	GANTC	2 cut(s)	57, 325
HpaII	CCGG	2 cut(s)	39, 128
HphI	GGTGA	1 cut(s)	178
Hpy166II	GTNNAC	2 cut(s)	74, 298
Hpy188I	TCNGA	1 cut(s)	324
Hpy188III	TCNNGA	6 cut(s)	52, 122, 313, 453, 473, 568
Hpy8I	GTNNAC	2 cut(s)	74, 298
Hpy99I	CGWCG	3 cut(s)	221, 242, 254
HpyAV	CCTTC	5 cut(s)	110, 332, 425, 484, 589
HpyCH4IV	ACGT	1 cut(s)	83
HpyCH4V	TGCA	6 cut(s)	79, 151, 262, 428, 445, 512
HpyF10VI	GCNNNNNNNGC	7 cut(s)	11, 20, 76, 137, 227, 413, 434
HpyF3I	CTNAG	1 cut(s)	323
HpySE526I	ACGT	1 cut(s)	83
Hsp92I	GRCGYC	1 cut(s)	219
Hsp92II	CATG	2 cut(s)	151, 296
HspAI	GCGC	5 cut(s)	66, 68, 117, 138, 267
KroI	GCCGGC	1 cut(s)	127
KroNI	GCCGGC	1 cut(s)	129
Kzo9I	GATC	3 cut(s)	41, 132, 144
LmnI	GCTCC	2 cut(s)	159, 208
Lsp1109I	GCAGC	2 cut(s)	163, 223
MaeI	CTAG	3 cut(s)	35, 473, 557
MaeII	ACGT	1 cut(s)	83
MaeIII	GTNAC	1 cut(s)	520
MalI	GATC	3 cut(s)	43, 134, 146
MboI	GATC	3 cut(s)	41, 132, 144
MboII	GAAGA	1 cut(s)	499
MhlI	GDGCHC	2 cut(s)	16, 354
MlsI	TGGCCA	1 cut(s)	602
MluCI	AATT	2 cut(s)	275, 482
MluNI	TGGCCA	1 cut(s)	602
MlyI	GAGTC	1 cut(s)	334
MnlI	CCTC	5 cut(s)	71, 281, 335, 366, 535
Mox20I	TGGCCA	1 cut(s)	602
MroNI	GCCGGC	1 cut(s)	127
MscI	TGGCCA	1 cut(s)	602
MseI	TTAA	3 cut(s)	255, 273, 333
Msp20I	TGGCCA	1 cut(s)	602
MspI	CCGG	2 cut(s)	39, 128
MspR9I	CCNGG	3 cut(s)	25, 176, 368
Mva1269I	GAATGC	1 cut(s)	430
MvaI	CCWGG	3 cut(s)	25, 176, 368
MvnI	CGCG	3 cut(s)	20, 68, 70
MwoI	GCNNNNNNNGC	7 cut(s)	11, 20, 76, 137, 227, 413, 434
NaeI	GCCGGC	1 cut(s)	129
NdeII	GATC	3 cut(s)	41, 132, 144
NgoMIV	GCCGGC	1 cut(s)	127
NlaIII	CATG	2 cut(s)	151, 296
NmeAIII	GCCGAG	2 cut(s)	42, 166
PaeR7I	CTCGAG	1 cut(s)	122
PasI	CCCWGGG	1 cut(s)	367
PauI	GCGCGC	1 cut(s)	66
PcsI	WCGNNNNNNNCGW	3 cut(s)	120, 234, 246
PctI	GAATGC	1 cut(s)	430
PdiI	GCCGGC	1 cut(s)	129
PfeI	GAWTC	1 cut(s)	57
Pfl23II	CGTACG	1 cut(s)	105
PkrI	GCNGC	4 cut(s)	22, 153, 213, 223
PleI	GAGTC	1 cut(s)	333
PpsI	GAGTC	1 cut(s)	333
Psp124BI	GAGCTC	1 cut(s)	16
Psp6I	CCWGG	3 cut(s)	23, 174, 366
PspEI	GGTNACC	1 cut(s)	520
PspFI	CCCAGC	1 cut(s)	372
PspGI	CCWGG	3 cut(s)	23, 174, 366
PspLI	CGTACG	1 cut(s)	105
PstI	CTGCAG	1 cut(s)	81
PteI	GCGCGC	1 cut(s)	66
RsaI	GTAC	1 cut(s)	107
RsaNI	GTAC	1 cut(s)	106
SacI	GAGCTC	1 cut(s)	16
SaqAI	TTAA	3 cut(s)	255, 273, 333
SatI	GCNGC	4 cut(s)	21, 152, 212, 222
Sau3AI	GATC	3 cut(s)	41, 132, 144
SchI	GAGTC	1 cut(s)	334
ScrFI	CCNGG	3 cut(s)	25, 176, 368
SduI	GDGCHC	2 cut(s)	16, 354
SfcI	CTRYAG	1 cut(s)	77
Sfr274I	CTCGAG	1 cut(s)	122
SlaI	CTCGAG	1 cut(s)	122
SmlI	CTYRAG	1 cut(s)	122
SmoI	CTYRAG	1 cut(s)	122
Sse9I	AATT	2 cut(s)	275, 482
SsiI	CCGC	3 cut(s)	20, 222, 285
SspMI	CTAG	3 cut(s)	35, 473, 557
SstI	GAGCTC	1 cut(s)	16
StyD4I	CCNGG	3 cut(s)	23, 174, 366
StyI	CCWWGG	1 cut(s)	231
TaiI	ACGT	1 cut(s)	86
TaqI	TCGA	3 cut(s)	123, 216, 305
TasI	AATT	2 cut(s)	275, 482
TauI	GCSGC	2 cut(s)	23, 224
TfiI	GAWTC	1 cut(s)	57
Tru1I	TTAA	3 cut(s)	255, 273, 333
Tru9I	TTAA	3 cut(s)	255, 273, 333
TscAI	CASTG	1 cut(s)	514
TseI	GCWGC	2 cut(s)	151, 211
TspDTI	ATGAA	1 cut(s)	437
TspGWI	ACGGA	2 cut(s)	93, 604
TspRI	CASTG	1 cut(s)	514
XapI	RAATTY	1 cut(s)	275
XbaI	TCTAGA	1 cut(s)	472
XhoI	CTCGAG	1 cut(s)	122
XspI	CTAG	3 cut(s)	35, 473, 557

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