Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0004197

Physical Location & Seq

Genomic Coordinates Forward (+)

47452389 .. 47455616

Gene Structure 3228 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG340700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 522 bp

ATGGCTCTACGAGCTCTCGCGGCCAGGAAATCCCTAGCCGGATCAGGTTTCCAGAGAATCCTCGGCGCGCGTGGACTGCAGACGTTCTCTCTCCCCGACCTTCCGTACGACTACGGCGATCTCGAGCCGGCGATCAGCGGCGAGATCATGCAGCTCCACCACCAGAAGCACCACCAGGCTTACATCACCAACTACAACAAGGCTTTGGAGCAGCTCGACGACGCAATCGCCAAGGGCGACGCTTCTGCCGTCGTTAAGTTGCAGAGCGCCATTAAATTCAACGGCGGAGGTCATGTCAACCACTCGATTTTCTGGAATAATCTGAGTCCTGTTAAAGAAGGAGGTGGCGATCCCCCTCATAGTTCCTTGGGCTGGGCTATTGACCAAAGTTTTGGTTCTTTTGATGCATTAATCACAAAGATGAATGCAGAAGGTGCTGGCTTGCAGGGTTCTGGATGGGTGGTAAGTTTTGCATCTTGTGATTTAAGTGGATGCTTATTCATATTGCTTGATGTCTGCTGA

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

173

Amino Acids

18.44

Weight (kDa)

5.92

Isoelectric Point (pI)

44.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	28 - 109	9.5e-34	Iron/manganese superoxide dismutases, alpha-hairpin 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, 138, 285
AclWI	GGATC	2 cut(s)	49, 344
AcoI	YGGCCR	1 cut(s)	21
AcsI	RAATTY	1 cut(s)	275
AfaI	GTAC	1 cut(s)	107
AfiI	CCNNNNNNNGG	1 cut(s)	372
AgsI	TTSAA	1 cut(s)	280
AjnI	CCWGG	2 cut(s)	23, 174
AluBI	AGCT	3 cut(s)	14, 154, 214
AluI	AGCT	3 cut(s)	14, 154, 214
Alw21I	GWGCWC	1 cut(s)	16
AlwI	GGATC	2 cut(s)	49, 344
Ama87I	CYCGRG	1 cut(s)	122
AoxI	GGCC	1 cut(s)	21
ApeKI	GCWGC	2 cut(s)	151, 211
ApoI	RAATTY	1 cut(s)	275
ArsI	GACNNNNNNTTYG	2 cut(s)	374, 406
AseI	ATTAAT	1 cut(s)	410
AspLEI	GCGC	3 cut(s)	68, 70, 269
AsuHPI	GGTGA	1 cut(s)	178
AvaI	CYCGRG	1 cut(s)	122
BanII	GRGCYC	1 cut(s)	16
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	2 cut(s)	25, 176
BfaI	CTAG	1 cut(s)	35
BfmI	CTRYAG	1 cut(s)	77
BfoI	RGCGCY	1 cut(s)	270
BisI	GCNGC	4 cut(s)	21, 139, 152, 212
BlsI	GCNGC	4 cut(s)	22, 140, 153, 213
Bme1390I	CCNGG	2 cut(s)	25, 176
BmeT110I	CYCGRG	1 cut(s)	122
BmrFI	CCNGG	2 cut(s)	25, 176
BmsI	GCATC	3 cut(s)	394, 482, 482
BsaJI	CCNNGG	3 cut(s)	61, 231, 366
BsaXI	ACNNNNNCTCC	2 cut(s)	279, 309
Bsc4I	CCNNNNNNNGG	1 cut(s)	372
Bse118I	RCCGGY	1 cut(s)	127
BseBI	CCWGG	2 cut(s)	25, 176
BseDI	CCNNGG	3 cut(s)	61, 231, 366
BseGI	GGATG	2 cut(s)	461, 497
BseLI	CCNNNNNNNGG	1 cut(s)	372
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	1 cut(s)	23
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	1 cut(s)	372
BsmI	GAATGC	1 cut(s)	430
BsnI	GGCC	1 cut(s)	23
BsoBI	CYCGRG	1 cut(s)	122
Bsp1286I	GDGCHC	1 cut(s)	16
Bsp143I	GATC	5 cut(s)	41, 118, 132, 144, 349
BspACI	CCGC	3 cut(s)	20, 138, 285
BspANI	GGCC	1 cut(s)	23
BspCNI	CTCAG	1 cut(s)	315
BspFNI	CGCG	3 cut(s)	20, 68, 70
BspMAI	CTGCAG	1 cut(s)	81
BspPI	GGATC	2 cut(s)	49, 344
BsrFI	RCCGGY	1 cut(s)	127
BssAI	RCCGGY	1 cut(s)	127
BssECI	CCNNGG	3 cut(s)	61, 231, 366
BssHII	GCGCGC	1 cut(s)	66
BssMI	GATC	5 cut(s)	41, 118, 132, 144, 349
BssT1I	CCWWGG	2 cut(s)	231, 366
Bst2UI	CCWGG	2 cut(s)	25, 176
BstAPI	GCANNNNNTGC	1 cut(s)	434
BstC8I	GCNNGC	4 cut(s)	68, 129, 439, 443
BstDEI	CTNAG	1 cut(s)	323
BstF5I	GGATG	2 cut(s)	461, 497
BstFNI	CGCG	3 cut(s)	20, 68, 70
BstH2I	RGCGCY	1 cut(s)	270
BstHHI	GCGC	3 cut(s)	68, 70, 269
BstKTI	GATC	5 cut(s)	44, 121, 135, 147, 352
BstMBI	GATC	5 cut(s)	41, 118, 132, 144, 349
BstMWI	GCNNNNNNNGC	4 cut(s)	11, 20, 76, 434
BstNI	CCWGG	2 cut(s)	25, 176
BstSCI	CCNGG	2 cut(s)	23, 174
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	1 cut(s)	23
BtsCI	GGATG	2 cut(s)	461, 497
Cac8I	GCNNGC	4 cut(s)	68, 129, 439, 443
CfoI	GCGC	3 cut(s)	68, 70, 269
Cfr10I	RCCGGY	1 cut(s)	127
CseI	GACGC	2 cut(s)	230, 248
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	5 cut(s)	43, 120, 134, 146, 351
DpnII	GATC	5 cut(s)	41, 118, 132, 144, 349
EaeI	YGGCCR	1 cut(s)	21
EciI	GGCGGA	1 cut(s)	300
Ecl136II	GAGCTC	1 cut(s)	14
Eco130I	CCWWGG	2 cut(s)	231, 366
Eco24I	GRGCYC	1 cut(s)	16
Eco53kI	GAGCTC	1 cut(s)	14
Eco88I	CYCGRG	1 cut(s)	122
EcoICRI	GAGCTC	1 cut(s)	14
EcoRII	CCWGG	2 cut(s)	23, 174
EcoT14I	CCWWGG	2 cut(s)	231, 366
EcoT22I	ATGCAT	1 cut(s)	409
EcoT38I	GRGCYC	1 cut(s)	16
ErhI	CCWWGG	2 cut(s)	231, 366
FaeI	CATG	2 cut(s)	151, 296
FaiI	YATR	4 cut(s)	149, 294, 360, 503
FatI	CATG	2 cut(s)	147, 292
Fnu4HI	GCNGC	4 cut(s)	21, 139, 152, 212
FokI	GGATG	2 cut(s)	468, 504
FriOI	GRGCYC	1 cut(s)	16
Fsp4HI	GCNGC	4 cut(s)	21, 139, 152, 212
FspBI	CTAG	1 cut(s)	35
GlaI	GCGC	3 cut(s)	67, 69, 268
GluI	GCNGC	4 cut(s)	21, 139, 152, 212
GsaI	CCCAGC	1 cut(s)	376
HaeII	RGCGCY	1 cut(s)	270
HaeIII	GGCC	1 cut(s)	23
HapII	CCGG	2 cut(s)	39, 128
HgaI	GACGC	2 cut(s)	230, 248
HhaI	GCGC	3 cut(s)	68, 70, 269
Hin1II	CATG	2 cut(s)	151, 296
Hin6I	GCGC	3 cut(s)	66, 68, 267
HinP1I	GCGC	3 cut(s)	66, 68, 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	4 cut(s)	52, 122, 313, 453
Hpy8I	GTNNAC	2 cut(s)	74, 298
Hpy99I	CGWCG	4 cut(s)	221, 224, 242, 254
HpyAV	CCTTC	3 cut(s)	110, 332, 425
HpyCH4IV	ACGT	1 cut(s)	83
HpyCH4V	TGCA	7 cut(s)	79, 151, 262, 407, 428, 445, 473
HpyF10VI	GCNNNNNNNGC	4 cut(s)	11, 20, 76, 434
HpyF3I	CTNAG	1 cut(s)	323
HpySE526I	ACGT	1 cut(s)	83
Hsp92II	CATG	2 cut(s)	151, 296
HspAI	GCGC	3 cut(s)	66, 68, 267
KroI	GCCGGC	1 cut(s)	127
KroNI	GCCGGC	1 cut(s)	129
Kzo9I	GATC	5 cut(s)	41, 118, 132, 144, 349
LmnI	GCTCC	2 cut(s)	159, 208
Lsp1109I	GCAGC	2 cut(s)	163, 223
LweI	GCATC	3 cut(s)	394, 482, 482
MaeI	CTAG	1 cut(s)	35
MaeII	ACGT	1 cut(s)	83
MalI	GATC	5 cut(s)	43, 120, 134, 146, 351
MboI	GATC	5 cut(s)	41, 118, 132, 144, 349
MhlI	GDGCHC	1 cut(s)	16
MluCI	AATT	1 cut(s)	275
MlyI	GAGTC	1 cut(s)	334
MnlI	CCTC	4 cut(s)	71, 281, 335, 366
Mph1103I	ATGCAT	1 cut(s)	409
MroNI	GCCGGC	1 cut(s)	127
MseI	TTAA	5 cut(s)	255, 273, 333, 410, 485
MslI	CAYNNNNRTG	1 cut(s)	419
MspA1I	CMGCKG	1 cut(s)	138
MspI	CCGG	2 cut(s)	39, 128
MspR9I	CCNGG	2 cut(s)	25, 176
Mva1269I	GAATGC	1 cut(s)	430
MvaI	CCWGG	2 cut(s)	25, 176
MvnI	CGCG	3 cut(s)	20, 68, 70
MwoI	GCNNNNNNNGC	4 cut(s)	11, 20, 76, 434
NaeI	GCCGGC	1 cut(s)	129
NdeII	GATC	5 cut(s)	41, 118, 132, 144, 349
NgoMIV	GCCGGC	1 cut(s)	127
NlaIII	CATG	2 cut(s)	151, 296
NmeAIII	GCCGAG	1 cut(s)	42
NsiI	ATGCAT	1 cut(s)	409
PaeR7I	CTCGAG	1 cut(s)	122
PauI	GCGCGC	1 cut(s)	66
PcsI	WCGNNNNNNNCGW	4 cut(s)	114, 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, 140, 153, 213
PleI	GAGTC	1 cut(s)	333
PpsI	GAGTC	1 cut(s)	333
PshBI	ATTAAT	1 cut(s)	410
Psp124BI	GAGCTC	1 cut(s)	16
Psp6I	CCWGG	2 cut(s)	23, 174
PspFI	CCCAGC	1 cut(s)	372
PspGI	CCWGG	2 cut(s)	23, 174
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
RseI	CAYNNNNRTG	1 cut(s)	419
SacI	GAGCTC	1 cut(s)	16
SaqAI	TTAA	5 cut(s)	255, 273, 333, 410, 485
SatI	GCNGC	4 cut(s)	21, 139, 152, 212
Sau3AI	GATC	5 cut(s)	41, 118, 132, 144, 349
SchI	GAGTC	1 cut(s)	334
ScrFI	CCNGG	2 cut(s)	25, 176
SduI	GDGCHC	1 cut(s)	16
SetI	ASST	9 cut(s)	16, 49, 86, 102, 156, 216, 292, 346, 436
SfaNI	GCATC	3 cut(s)	394, 482, 482
SfcI	CTRYAG	1 cut(s)	77
Sfr274I	CTCGAG	1 cut(s)	122
SlaI	CTCGAG	1 cut(s)	122
SmiMI	CAYNNNNRTG	1 cut(s)	419
SmlI	CTYRAG	1 cut(s)	122
SmoI	CTYRAG	1 cut(s)	122
Sse9I	AATT	1 cut(s)	275
SsiI	CCGC	3 cut(s)	20, 138, 285
SspMI	CTAG	1 cut(s)	35
SstI	GAGCTC	1 cut(s)	16
StyD4I	CCNGG	2 cut(s)	23, 174
StyI	CCWWGG	2 cut(s)	231, 366
TaiI	ACGT	1 cut(s)	86
TaqI	TCGA	3 cut(s)	123, 216, 305
TasI	AATT	1 cut(s)	275
TauI	GCSGC	2 cut(s)	23, 141
TfiI	GAWTC	1 cut(s)	57
Tru1I	TTAA	5 cut(s)	255, 273, 333, 410, 485
Tru9I	TTAA	5 cut(s)	255, 273, 333, 410, 485
TseI	GCWGC	2 cut(s)	151, 211
TspDTI	ATGAA	2 cut(s)	437, 490
TspGWI	ACGGA	1 cut(s)	93
VspI	ATTAAT	1 cut(s)	410
XapI	RAATTY	1 cut(s)	275
XhoI	CTCGAG	1 cut(s)	122
XspI	CTAG	1 cut(s)	35
Zsp2I	ATGCAT	1 cut(s)	409

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