Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0004197

Physical Location & Seq

Genomic Coordinates Reverse (-)

79100210 .. 79113781

Gene Structure 13572 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG496600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1002 bp

ATGGCCTTGAGAACTCTGAGCAGGAAAAGCCTGGCTGGTTTAACCAGAAATGGCAGAGGAGGCTTAGGCTTCGGGCTCGTCCCAGTCCGTGGCCTAAAGACCTTCACGCTGCCGGACCTGCCCTACGACTATGGGGCTCTTGAGCCCTCCATTAGCAGCGAGATCATGGAGATCCATCACCTGAAGCACCACAACACCTACGTCGACAACTTCAACAAGGCTCTCGACAACCTCGAACAGGCCATGGATACCGGCGACTCCTCCACCGTCGTCAAGTTGCAGAGCGCCCTTAAATTCAACGGCGGAGGTCATATAAACCACTCTATTTTCTGGAAATGTCTGGCCCCGGATACGGAAGGAGGAGGTGAGCCTCCAAAGGGTTCATTGGGATGGGAAATTGACAATCAGTTTGGTTCCTTACAAAGTCTGAAACAGAAAATGATGGTGGAAGGTGCTGCTTTGCAAGTTTCTGGTTGGGTGTGGCTTGCTCTTGACAAGGATCAGAAGAAGCTTTCCTTTAAATGCACAGCTAATCAGGATCCACTGATAATTAAAGGAGCAAATTATGTTCCTCTGCTTGGGATAGATGTGTGGGAGCATGCTTACTACTTGCAGTACAAAAACGTGAGGCCAGACTATCTGAAGTACATATGGGAGGAAGGAGGTGGTGAGCCTCCAAAGGGTTCATTGGGATGGGAAATTGACAATCAGTTTGGTTCCTTACAATGTCTGAAACAGAAAATGATGGTAGAAGGTGCTGCTTTGCAAGGTTCTGGTTGGGTGTGGCTTGCTCTAGACAAAGATCAGAAGAAGCTTTCCATTGAATGCACAGCTAATCAGGATCCACTGATAATTAAAGGAGCGAATTATGTTCCTCTGCTCGGGATAGATGTGTGGGAGCATGCTTATTACAAAAACGTCAGGCCAGACTATCTGAAGTATATATGGGAGGTTATTAACTGGAAATATGCAAGTGAAGTGTATGAGAAAGAGTATCCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000302 GO:0000303 GO:0000305 GO:0003674 GO:0003824 GO:0004784 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005759 GO:0006801 GO:0006950 GO:0006979 GO:0008150 GO:0008152 GO:0009636 GO:0009987 GO:0010035 GO:0016209 GO:0016491 GO:0016721 GO:0019430 GO:0031974 GO:0033554 GO:0034599 GO:0034614 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051716 GO:0055114 GO:0070013 GO:0070887 GO:0071450 GO:0071451 GO:0072593 GO:0097237 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

333

Amino Acids

37.48

Weight (kDa)

6.09

Isoelectric Point (pI)

41.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	34 - 115	1.2e-33	Iron/manganese superoxide dismutases, alpha-hairpin domain
Sod_Fe_C	PF02777	125 - 219	7.4e-29	Iron/manganese superoxide dismutases, C-terminal domain
Sod_Fe_C	PF02777	226 - 326	1.1e-29	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

Style Settings

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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)
Acc36I	ACCTGC	1 cut(s)	126
AccB7I	CCANNNNNTGG	1 cut(s)	89
AccI	GTMKAC	1 cut(s)	204
AciI	CCGC	1 cut(s)	303
AclWI	GGATC	6 cut(s)	166, 507, 533, 546, 836, 849
AcsI	RAATTY	1 cut(s)	293
AcuI	CTGAAG	3 cut(s)	203, 662, 956
AfaI	GTAC	2 cut(s)	617, 647
AfiI	CCNNNNNNNGG	7 cut(s)	89, 238, 352, 377, 578, 680, 881
AgsI	TTSAA	3 cut(s)	214, 298, 824
AjnI	CCWGG	1 cut(s)	30
AluBI	AGCT	4 cut(s)	511, 530, 814, 833
AluI	AGCT	4 cut(s)	511, 530, 814, 833
AlwI	GGATC	6 cut(s)	166, 507, 533, 546, 836, 849
Ama87I	CYCGRG	1 cut(s)	881
AoxI	GGCC	6 cut(s)	3, 91, 240, 342, 629, 923
ApeKI	GCWGC	4 cut(s)	109, 156, 455, 758
ApoI	RAATTY	1 cut(s)	293
ArsI	GACNNNNNNTTYG	4 cut(s)	392, 424, 695, 727
AspLEI	GCGC	1 cut(s)	287
AspS9I	GGNCC	2 cut(s)	115, 343
AsuC2I	CCSGG	1 cut(s)	347
AsuHPI	GGTGA	3 cut(s)	170, 377, 680
AvaI	CYCGRG	1 cut(s)	881
AvaII	GGWCC	1 cut(s)	115
BamHI	GGATCC	2 cut(s)	538, 841
BanII	GRGCYC	3 cut(s)	78, 139, 147
BbvI	GCAGC	4 cut(s)	96, 168, 442, 745
BccI	CCATC	5 cut(s)	183, 384, 436, 687, 739
BceAI	ACGGC	1 cut(s)	316
BciT130I	CCWGG	1 cut(s)	32
BciVI	GTATCC	2 cut(s)	241, 343
BcnI	CCSGG	1 cut(s)	347
BfaI	CTAG	1 cut(s)	794
BfoI	RGCGCY	1 cut(s)	288
BfuAI	ACCTGC	1 cut(s)	126
BfuI	GTATCC	2 cut(s)	241, 343
BisI	GCNGC	4 cut(s)	110, 157, 456, 759
BlsI	GCNGC	4 cut(s)	111, 158, 457, 760
Bme1390I	CCNGG	2 cut(s)	32, 347
Bme18I	GGWCC	1 cut(s)	115
BmeT110I	CYCGRG	1 cut(s)	881
BmgT120I	GGNCC	2 cut(s)	115, 343
BmiI	GGNNCC	5 cut(s)	345, 415, 540, 718, 843
BmrFI	CCNGG	2 cut(s)	32, 347
BmrI	ACTGGG	1 cut(s)	77
BmuI	ACTGGG	1 cut(s)	77
Bpu10I	CCTNAGC	1 cut(s)	64
BpuEI	CTTGAG	2 cut(s)	28, 161
BpuMI	CCSGG	1 cut(s)	347
BsaJI	CCNNGG	3 cut(s)	88, 243, 345
Bsc4I	CCNNNNNNNGG	7 cut(s)	89, 238, 352, 377, 578, 680, 881
Bse118I	RCCGGY	1 cut(s)	251
Bse1I	ACTGG	2 cut(s)	83, 965
BseBI	CCWGG	1 cut(s)	32
BseDI	CCNNGG	3 cut(s)	88, 243, 345
BseGI	GGATG	2 cut(s)	395, 698
BseLI	CCNNNNNNNGG	7 cut(s)	89, 238, 352, 377, 578, 680, 881
BseMII	CTCAG	1 cut(s)	8
BseNI	ACTGG	2 cut(s)	83, 965
BseRI	GAGGAG	3 cut(s)	72, 250, 375
BseXI	GCAGC	4 cut(s)	96, 168, 442, 745
BshFI	GGCC	6 cut(s)	5, 93, 242, 344, 631, 925
BsiHKCI	CYCGRG	1 cut(s)	881
BsiSI	CCGG	3 cut(s)	113, 252, 347
BslFI	GGGAC	1 cut(s)	65
BslI	CCNNNNNNNGG	7 cut(s)	89, 238, 352, 377, 578, 680, 881
BsmFI	GGGAC	1 cut(s)	65
BsmI	GAATGC	1 cut(s)	830
BsnI	GGCC	6 cut(s)	5, 93, 242, 344, 631, 925
BsoBI	CYCGRG	1 cut(s)	881
Bsp1286I	GDGCHC	3 cut(s)	78, 139, 147
Bsp143I	GATC	6 cut(s)	162, 171, 499, 538, 802, 841
Bsp19I	CCATGG	1 cut(s)	243
BspACI	CCGC	1 cut(s)	303
BspANI	GGCC	6 cut(s)	5, 93, 242, 344, 631, 925
BspCNI	CTCAG	1 cut(s)	9
BspLI	GGNNCC	5 cut(s)	345, 415, 540, 718, 843
BspMI	ACCTGC	1 cut(s)	126
BspPI	GGATC	6 cut(s)	166, 507, 533, 546, 836, 849
BsrFI	RCCGGY	1 cut(s)	251
BsrI	ACTGG	2 cut(s)	83, 965
BssAI	RCCGGY	1 cut(s)	251
BssECI	CCNNGG	3 cut(s)	88, 243, 345
BssMI	GATC	6 cut(s)	162, 171, 499, 538, 802, 841
BssT1I	CCWWGG	1 cut(s)	243
Bst2UI	CCWGG	1 cut(s)	32
Bst4CI	ACNGT	1 cut(s)	268
BstC8I	GCNNGC	4 cut(s)	486, 600, 789, 903
BstDEI	CTNAG	2 cut(s)	17, 64
BstDSI	CCRYGG	2 cut(s)	88, 243
BstENI	CCTNNNNNAGG	1 cut(s)	236
BstF5I	GGATG	2 cut(s)	395, 698
BstH2I	RGCGCY	1 cut(s)	288
BstHHI	GCGC	1 cut(s)	287
BstKTI	GATC	6 cut(s)	165, 174, 502, 541, 805, 844
BstMBI	GATC	6 cut(s)	162, 171, 499, 538, 802, 841
BstMWI	GCNNNNNNNGC	3 cut(s)	27, 60, 118
BstNI	CCWGG	1 cut(s)	32
BstNSI	RCATGY	2 cut(s)	602, 905
BstSCI	CCNGG	2 cut(s)	30, 345
BstV1I	GCAGC	4 cut(s)	96, 168, 442, 745
BstX2I	RGATCY	3 cut(s)	171, 538, 841
BstYI	RGATCY	3 cut(s)	171, 538, 841
BsuI	GTATCC	2 cut(s)	241, 343
BsuRI	GGCC	6 cut(s)	5, 93, 242, 344, 631, 925
BtgI	CCRYGG	2 cut(s)	88, 243
BtsCI	GGATG	2 cut(s)	395, 698
BtsIMutI	CAGTG	2 cut(s)	542, 845
BveI	ACCTGC	1 cut(s)	126
Cac8I	GCNNGC	4 cut(s)	486, 600, 789, 903
CfoI	GCGC	1 cut(s)	287
Cfr10I	RCCGGY	1 cut(s)	251
Cfr13I	GGNCC	2 cut(s)	115, 343
Csp6I	GTAC	2 cut(s)	616, 646
CviAII	CATG	4 cut(s)	166, 244, 599, 902
CviQI	GTAC	2 cut(s)	616, 646
DdeI	CTNAG	2 cut(s)	17, 64
DpnI	GATC	6 cut(s)	164, 173, 501, 540, 804, 843
DpnII	GATC	6 cut(s)	162, 171, 499, 538, 802, 841
DraI	TTTAAA	1 cut(s)	520
EciI	GGCGGA	1 cut(s)	318
Eco130I	CCWWGG	1 cut(s)	243
Eco24I	GRGCYC	3 cut(s)	78, 139, 147
Eco47I	GGWCC	1 cut(s)	115
Eco57I	CTGAAG	3 cut(s)	203, 662, 956
Eco88I	CYCGRG	1 cut(s)	881
EcoNI	CCTNNNNNAGG	1 cut(s)	236
EcoRII	CCWGG	1 cut(s)	30
EcoT14I	CCWWGG	1 cut(s)	243
EcoT38I	GRGCYC	3 cut(s)	78, 139, 147
ErhI	CCWWGG	1 cut(s)	243
FaeI	CATG	4 cut(s)	169, 247, 602, 905
FalI	AAGNNNNNCTT	2 cut(s)	500, 532
FaqI	GGGAC	1 cut(s)	65
FatI	CATG	4 cut(s)	165, 243, 598, 901
FauNDI	CATATG	1 cut(s)	650
FblI	GTMKAC	1 cut(s)	204
Fnu4HI	GCNGC	4 cut(s)	110, 157, 456, 759
FokI	GGATG	2 cut(s)	402, 705
FriOI	GRGCYC	3 cut(s)	78, 139, 147
Fsp4HI	GCNGC	4 cut(s)	110, 157, 456, 759
FspBI	CTAG	1 cut(s)	794
GlaI	GCGC	1 cut(s)	286
GluI	GCNGC	4 cut(s)	110, 157, 456, 759
HaeII	RGCGCY	1 cut(s)	288
HaeIII	GGCC	6 cut(s)	5, 93, 242, 344, 631, 925
HapII	CCGG	3 cut(s)	113, 252, 347
HhaI	GCGC	1 cut(s)	287
Hin1II	CATG	4 cut(s)	169, 247, 602, 905
Hin6I	GCGC	1 cut(s)	285
HinP1I	GCGC	1 cut(s)	285
HincII	GTYRAC	1 cut(s)	205
HindII	GTYRAC	1 cut(s)	205
HindIII	AAGCTT	2 cut(s)	509, 812
HinfI	GANTC	1 cut(s)	257
HpaII	CCGG	3 cut(s)	113, 252, 347
HphI	GGTGA	3 cut(s)	170, 377, 680
Hpy166II	GTNNAC	1 cut(s)	205
Hpy188I	TCNGA	7 cut(s)	18, 429, 504, 642, 732, 807, 936
Hpy188III	TCNNGA	8 cut(s)	140, 224, 331, 491, 536, 794, 839, 883
Hpy8I	GTNNAC	1 cut(s)	205
Hpy99I	CGWCG	2 cut(s)	206, 272
HpyAV	CCTTC	5 cut(s)	112, 350, 443, 653, 746
HpyCH4III	ACNGT	1 cut(s)	268
HpyCH4IV	ACGT	3 cut(s)	201, 624, 918
HpyCH4V	TGCA	7 cut(s)	280, 463, 525, 613, 766, 828, 971
HpyF10VI	GCNNNNNNNGC	3 cut(s)	27, 60, 118
HpyF3I	CTNAG	2 cut(s)	17, 64
HpySE526I	ACGT	3 cut(s)	201, 624, 918
Hsp92II	CATG	4 cut(s)	169, 247, 602, 905
HspAI	GCGC	1 cut(s)	285
Kzo9I	GATC	6 cut(s)	162, 171, 499, 538, 802, 841
LmnI	GCTCC	4 cut(s)	557, 595, 860, 898
Lsp1109I	GCAGC	4 cut(s)	96, 168, 442, 745
MaeI	CTAG	1 cut(s)	794
MaeII	ACGT	3 cut(s)	201, 624, 918
MalI	GATC	6 cut(s)	164, 173, 501, 540, 804, 843
MboI	GATC	6 cut(s)	162, 171, 499, 538, 802, 841
MboII	GAAGA	2 cut(s)	517, 820
MflI	RGATCY	3 cut(s)	171, 538, 841
MhlI	GDGCHC	3 cut(s)	78, 139, 147
MluCI	AATT	7 cut(s)	293, 396, 549, 562, 699, 852, 865
MlyI	GAGTC	1 cut(s)	251
MseI	TTAA	6 cut(s)	41, 291, 519, 552, 855, 957
MslI	CAYNNNNRTG	2 cut(s)	388, 691
MspI	CCGG	3 cut(s)	113, 252, 347
MspR9I	CCNGG	2 cut(s)	32, 347
Mva1269I	GAATGC	1 cut(s)	830
MvaI	CCWGG	1 cut(s)	32
MwoI	GCNNNNNNNGC	3 cut(s)	27, 60, 118
NciI	CCSGG	1 cut(s)	347
NcoI	CCATGG	1 cut(s)	243
NdeI	CATATG	1 cut(s)	650
NdeII	GATC	6 cut(s)	162, 171, 499, 538, 802, 841
NlaIII	CATG	4 cut(s)	169, 247, 602, 905
NlaIV	GGNNCC	5 cut(s)	345, 415, 540, 718, 843
NspI	RCATGY	2 cut(s)	602, 905
PaeI	GCATGC	2 cut(s)	602, 905
PcsI	WCGNNNNNNNCGW	1 cut(s)	231
PctI	GAATGC	1 cut(s)	830
PflMI	CCANNNNNTGG	1 cut(s)	89
PkrI	GCNGC	4 cut(s)	111, 158, 457, 760
PleI	GAGTC	1 cut(s)	251
PpsI	GAGTC	1 cut(s)	251
Psp6I	CCWGG	1 cut(s)	30
PspGI	CCWGG	1 cut(s)	30
PspN4I	GGNNCC	5 cut(s)	345, 415, 540, 718, 843
PspPI	GGNCC	2 cut(s)	115, 343
PsuI	RGATCY	3 cut(s)	171, 538, 841
RsaI	GTAC	2 cut(s)	617, 647
RsaNI	GTAC	2 cut(s)	616, 646
RseI	CAYNNNNRTG	2 cut(s)	388, 691
SalI	GTCGAC	1 cut(s)	203
SaqAI	TTAA	6 cut(s)	41, 291, 519, 552, 855, 957
SatI	GCNGC	4 cut(s)	110, 157, 456, 759
Sau3AI	GATC	6 cut(s)	162, 171, 499, 538, 802, 841
Sau96I	GGNCC	2 cut(s)	115, 343
SchI	GAGTC	1 cut(s)	251
ScrFI	CCNGG	2 cut(s)	32, 347
SduI	GDGCHC	3 cut(s)	78, 139, 147
SinI	GGWCC	1 cut(s)	115
SmiMI	CAYNNNNRTG	2 cut(s)	388, 691
SmlI	CTYRAG	2 cut(s)	7, 140
SmoI	CTYRAG	2 cut(s)	7, 140
SphI	GCATGC	2 cut(s)	602, 905
Sse9I	AATT	7 cut(s)	293, 396, 549, 562, 699, 852, 865
SsiI	CCGC	1 cut(s)	303
SspMI	CTAG	1 cut(s)	794
StyD4I	CCNGG	2 cut(s)	30, 345
StyI	CCWWGG	1 cut(s)	243
TaaI	ACNGT	1 cut(s)	268
TaiI	ACGT	3 cut(s)	204, 627, 921
TaqI	TCGA	3 cut(s)	204, 225, 234
TasI	AATT	7 cut(s)	293, 396, 549, 562, 699, 852, 865
TatI	WGTACW	2 cut(s)	615, 645
Tru1I	TTAA	6 cut(s)	41, 291, 519, 552, 855, 957
Tru9I	TTAA	6 cut(s)	41, 291, 519, 552, 855, 957
TscAI	CASTG	2 cut(s)	549, 852
TseI	GCWGC	4 cut(s)	109, 156, 455, 758
TspDTI	ATGAA	2 cut(s)	372, 675
TspGWI	ACGGA	2 cut(s)	77, 368
TspRI	CASTG	2 cut(s)	549, 852
Van91I	CCANNNNNTGG	1 cut(s)	89
VpaK11BI	GGWCC	1 cut(s)	115
XagI	CCTNNNNNAGG	1 cut(s)	236
XapI	RAATTY	1 cut(s)	293
XbaI	TCTAGA	1 cut(s)	793
XceI	RCATGY	2 cut(s)	602, 905
XmiI	GTMKAC	1 cut(s)	204
XspI	CTAG	1 cut(s)	794

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