Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0016304

Physical Location & Seq

Genomic Coordinates Forward (+)

18718199 .. 18722574

Gene Structure 4376 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG125000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 759 bp

ATGAGAGAACTGGCCAGGTGGGTGTGGATCAGGAATCGTGATGAGACCTTGGTTGGATTGCATTCTAACAAATTGGAATCACCCGAGCTGAAGACCCATATTGAGGCTTTGACAGAAATACGGGAGAGAGCTGCACTGAAAGCTAAACAGAAGCGTTTCCAAGAAGAGAGGCATAACTTTAGGCTTTATACACTGAAAAATAATGAAGTGCTTGCTAAGGAGATCACAGAGCATGATGAAGAGGCTTTCATGAGCTTTGATGTCTTGAATTTGATGGTGATGTTTAAAGATCTGACTGGAAACATTTCTTGCCTCAGGCCTGGGCTTCATGGTTTCCACGTTCATGCTCTTGGTGACACAACAAACAGTTGCATGTCAACTGGACCACACTTCACAATTGTTCATAAGCAGGTTTGTAGTTTAACATTCCTATTTATTTTCAGTTTACATTTTCCTGTAAATAATTTTATGCTCGGCCTCTCTTTGAATTTCATTTCCACTTTTCTGAAGTTTACATTATTGTTTGCAGATTCCTCTCACTGGAACACTAGTAGACTTCTTGTAGATTCCATTTTTAGTAACTTTAGGCTTTTTGCCATATCTATTAGGATAAAATCGCTGTTGCATGTGTACCTACAAGTTGTTCGGATTTTGGTACTTTTGTTTACTGTCAGTTTAGTTCCCCCAAGTAAATTACTGATCCTTATCTTCAATTGTGTCTTTCACCCTTTGCAACATTCATTATTAATTTTAGTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000150 GO:0000217 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0033554 GO:0034622 GO:0034641 GO:0042148 GO:0042623 GO:0043170 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0045003 GO:0046483 GO:0050896 GO:0051716 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NAP

Protein Analysis

252

Amino Acids

29.23

Weight (kDa)

9.14

Isoelectric Point (pI)

44.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Cu	PF00080	98 - 134	8.8e-09	Copper/zinc superoxide dismutase (SODC)

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: OG0016304)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g11882 FvH4_6g30062
rosa_chinensis	RchiOBHm_Chr2g0117601 RchiOBHm_Chr2g0126381 RchiOBHm_Chr2g0131431
rosa_multiflora	Rmu_sc0006695.1_g000083 Rmu_sc0038051.1_g000001
rosa_roxburghii	Rroxscaffold_1G00056080 Rroxscaffold_3G00246990
rosa_samantha	Rh2BG328300 Rh5BG101500 Rh6AG125000 Rh6CG200400
rosa_wichuraiana	Rw0G009450 Rw2G022640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	400
AccI	GTMKAC	1 cut(s)	553
AclWI	GGATC	2 cut(s)	35, 694
AcoI	YGGCCR	1 cut(s)	12
AcsI	RAATTY	2 cut(s)	268, 487
AcuI	CTGAAG	2 cut(s)	110, 527
AfaI	GTAC	2 cut(s)	632, 657
AfiI	CCNNNNNNNGG	2 cut(s)	103, 540
AgsI	TTSAA	3 cut(s)	268, 487, 712
AhlI	ACTAGT	1 cut(s)	548
AjnI	CCWGG	2 cut(s)	14, 319
AluBI	AGCT	4 cut(s)	88, 131, 143, 255
AluI	AGCT	4 cut(s)	88, 131, 143, 255
Alw26I	GTCTC	1 cut(s)	38
AlwI	GGATC	2 cut(s)	35, 694
Ama87I	CYCGRG	1 cut(s)	83
AoxI	GGCC	3 cut(s)	12, 317, 475
ApeKI	GCWGC	1 cut(s)	131
ApoI	RAATTY	2 cut(s)	268, 487
AseI	ATTAAT	1 cut(s)	746
Asp700I	GAANNNNTTC	2 cut(s)	155, 304
AspS9I	GGNCC	1 cut(s)	383
AsuHPI	GGTGA	4 cut(s)	72, 289, 365, 716
AvaI	CYCGRG	1 cut(s)	83
AvaII	GGWCC	1 cut(s)	383
AxyI	CCTNAGG	1 cut(s)	314
BaeI	ACNNNNGTAYC	2 cut(s)	647, 680
BalI	TGGCCA	1 cut(s)	14
BbsI	GAAGAC	1 cut(s)	98
BbvI	GCAGC	1 cut(s)	118
BccI	CCATC	1 cut(s)	268
BciT130I	CCWGG	2 cut(s)	16, 321
BcoDI	GTCTC	1 cut(s)	38
BcuI	ACTAGT	1 cut(s)	548
BfaI	CTAG	1 cut(s)	549
BfuAI	ACCTGC	1 cut(s)	400
BglII	AGATCT	1 cut(s)	289
BisI	GCNGC	1 cut(s)	132
BlsI	GCNGC	1 cut(s)	133
Bme1390I	CCNGG	2 cut(s)	16, 321
Bme18I	GGWCC	1 cut(s)	383
BmeT110I	CYCGRG	1 cut(s)	83
BmgT120I	GGNCC	1 cut(s)	383
BmrFI	CCNGG	2 cut(s)	16, 321
BpiI	GAAGAC	1 cut(s)	98
Bpu10I	CCTNAGC	1 cut(s)	216
BsaBI	GATNNNNATC	1 cut(s)	704
BsaI	GGTCTC	1 cut(s)	38
BsaJI	CCNNGG	2 cut(s)	48, 320
Bsc4I	CCNNNNNNNGG	2 cut(s)	103, 540
Bse1I	ACTGG	4 cut(s)	15, 301, 385, 545
Bse21I	CCTNAGG	1 cut(s)	314
Bse8I	GATNNNNATC	1 cut(s)	704
BseBI	CCWGG	2 cut(s)	16, 321
BseDI	CCNNGG	2 cut(s)	48, 320
BseJI	GATNNNNATC	1 cut(s)	704
BseLI	CCNNNNNNNGG	2 cut(s)	103, 540
BseMII	CTCAG	1 cut(s)	328
BseNI	ACTGG	4 cut(s)	15, 301, 385, 545
BseXI	GCAGC	1 cut(s)	118
BsgI	GTGCAG	1 cut(s)	117
BshFI	GGCC	3 cut(s)	14, 319, 477
BsiHKCI	CYCGRG	1 cut(s)	83
BslI	CCNNNNNNNGG	2 cut(s)	103, 540
BsmAI	GTCTC	1 cut(s)	38
BsmI	GAATGC	1 cut(s)	61
BsnI	GGCC	3 cut(s)	14, 319, 477
Bso31I	GGTCTC	1 cut(s)	38
BsoBI	CYCGRG	1 cut(s)	83
Bsp143I	GATC	4 cut(s)	27, 222, 289, 699
BspANI	GGCC	3 cut(s)	14, 319, 477
BspCNI	CTCAG	1 cut(s)	327
BspHI	TCATGA	1 cut(s)	249
BspMI	ACCTGC	1 cut(s)	400
BspPI	GGATC	2 cut(s)	35, 694
BspTNI	GGTCTC	1 cut(s)	38
BsrI	ACTGG	4 cut(s)	15, 301, 385, 545
BssECI	CCNNGG	2 cut(s)	48, 320
BssMI	GATC	4 cut(s)	27, 222, 289, 699
BssT1I	CCWWGG	1 cut(s)	48
Bst2UI	CCWGG	2 cut(s)	16, 321
Bst4CI	ACNGT	2 cut(s)	368, 670
Bst6I	CTCTTC	2 cut(s)	159, 234
BstC8I	GCNNGC	1 cut(s)	213
BstDEI	CTNAG	2 cut(s)	216, 314
BstKTI	GATC	4 cut(s)	30, 225, 292, 702
BstMAI	GTCTC	1 cut(s)	38
BstMBI	GATC	4 cut(s)	27, 222, 289, 699
BstMWI	GCNNNNNNNGC	1 cut(s)	140
BstNI	CCWGG	2 cut(s)	16, 321
BstNSI	RCATGY	2 cut(s)	376, 629
BstSCI	CCNGG	2 cut(s)	14, 319
BstV1I	GCAGC	1 cut(s)	118
BstV2I	GAAGAC	1 cut(s)	98
BstX2I	RGATCY	1 cut(s)	289
BstYI	RGATCY	1 cut(s)	289
Bsu36I	CCTNAGG	1 cut(s)	314
BsuRI	GGCC	3 cut(s)	14, 319, 477
BtsIMutI	CAGTG	3 cut(s)	134, 191, 538
BveI	ACCTGC	1 cut(s)	400
Cac8I	GCNNGC	1 cut(s)	213
CciI	TCATGA	1 cut(s)	249
Cfr13I	GGNCC	1 cut(s)	383
Csp6I	GTAC	2 cut(s)	631, 656
CviAII	CATG	6 cut(s)	233, 250, 329, 344, 373, 626
CviQI	GTAC	2 cut(s)	631, 656
DdeI	CTNAG	2 cut(s)	216, 314
DpnI	GATC	4 cut(s)	29, 224, 291, 701
DpnII	GATC	4 cut(s)	27, 222, 289, 699
DraI	TTTAAA	1 cut(s)	286
EaeI	YGGCCR	1 cut(s)	12
Eam1104I	CTCTTC	2 cut(s)	159, 234
EarI	CTCTTC	2 cut(s)	159, 234
Eco130I	CCWWGG	1 cut(s)	48
Eco147I	AGGCCT	1 cut(s)	319
Eco31I	GGTCTC	1 cut(s)	38
Eco47I	GGWCC	1 cut(s)	383
Eco57I	CTGAAG	2 cut(s)	110, 527
Eco81I	CCTNAGG	1 cut(s)	314
Eco88I	CYCGRG	1 cut(s)	83
EcoRII	CCWGG	2 cut(s)	14, 319
EcoT14I	CCWWGG	1 cut(s)	48
ErhI	CCWWGG	1 cut(s)	48
FaeI	CATG	6 cut(s)	236, 253, 332, 347, 376, 629
FatI	CATG	6 cut(s)	232, 249, 328, 343, 372, 625
FblI	GTMKAC	1 cut(s)	553
Fnu4HI	GCNGC	1 cut(s)	132
Fsp4HI	GCNGC	1 cut(s)	132
FspBI	CTAG	1 cut(s)	549
GluI	GCNGC	1 cut(s)	132
HaeIII	GGCC	3 cut(s)	14, 319, 477
Hin1II	CATG	6 cut(s)	236, 253, 332, 347, 376, 629
HincII	GTYRAC	1 cut(s)	378
HindII	GTYRAC	1 cut(s)	378
HinfI	GANTC	4 cut(s)	34, 77, 530, 566
HphI	GGTGA	4 cut(s)	72, 289, 365, 716
Hpy166II	GTNNAC	6 cut(s)	378, 446, 513, 554, 631, 666
Hpy188I	TCNGA	3 cut(s)	294, 507, 648
Hpy188III	TCNNGA	4 cut(s)	31, 38, 250, 265
Hpy8I	GTNNAC	6 cut(s)	378, 446, 513, 554, 631, 666
HpyCH4III	ACNGT	2 cut(s)	368, 670
HpyCH4IV	ACGT	1 cut(s)	339
HpyCH4V	TGCA	6 cut(s)	61, 134, 372, 527, 625, 733
HpyF10VI	GCNNNNNNNGC	1 cut(s)	140
HpyF3I	CTNAG	2 cut(s)	216, 314
HpySE526I	ACGT	1 cut(s)	339
Hsp92II	CATG	6 cut(s)	236, 253, 332, 347, 376, 629
Kzo9I	GATC	4 cut(s)	27, 222, 289, 699
Lsp1109I	GCAGC	1 cut(s)	118
MaeI	CTAG	1 cut(s)	549
MaeII	ACGT	1 cut(s)	339
MaeIII	GTNAC	2 cut(s)	353, 578
MalI	GATC	4 cut(s)	29, 224, 291, 701
MboI	GATC	4 cut(s)	27, 222, 289, 699
MboII	GAAGA	4 cut(s)	103, 176, 251, 700
MfeI	CAATTG	2 cut(s)	396, 712
MflI	RGATCY	1 cut(s)	289
MlsI	TGGCCA	1 cut(s)	14
MluCI	AATT	8 cut(s)	71, 268, 396, 463, 487, 692, 712, 747
MluNI	TGGCCA	1 cut(s)	14
MmeI	TCCRAC	1 cut(s)	34
MnlI	CCTC	6 cut(s)	97, 162, 235, 323, 488, 544
Mox20I	TGGCCA	1 cut(s)	14
MroXI	GAANNNNTTC	2 cut(s)	155, 304
MscI	TGGCCA	1 cut(s)	14
MseI	TTAA	3 cut(s)	285, 422, 746
MslI	CAYNNNNRTG	1 cut(s)	342
Msp20I	TGGCCA	1 cut(s)	14
MspR9I	CCNGG	2 cut(s)	16, 321
MunI	CAATTG	2 cut(s)	396, 712
Mva1269I	GAATGC	1 cut(s)	61
MvaI	CCWGG	2 cut(s)	16, 321
MwoI	GCNNNNNNNGC	1 cut(s)	140
NdeII	GATC	4 cut(s)	27, 222, 289, 699
NlaIII	CATG	6 cut(s)	236, 253, 332, 347, 376, 629
NmeAIII	GCCGAG	1 cut(s)	453
NmuCI	GTSAC	1 cut(s)	353
NspI	RCATGY	2 cut(s)	376, 629
PagI	TCATGA	1 cut(s)	249
PceI	AGGCCT	1 cut(s)	319
PctI	GAATGC	1 cut(s)	61
PdmI	GAANNNNTTC	2 cut(s)	155, 304
PfeI	GAWTC	4 cut(s)	34, 77, 530, 566
PkrI	GCNGC	1 cut(s)	133
PshBI	ATTAAT	1 cut(s)	746
Psp6I	CCWGG	2 cut(s)	14, 319
PspGI	CCWGG	2 cut(s)	14, 319
PspPI	GGNCC	1 cut(s)	383
PsuI	RGATCY	1 cut(s)	289
RsaI	GTAC	2 cut(s)	632, 657
RsaNI	GTAC	2 cut(s)	631, 656
RseI	CAYNNNNRTG	1 cut(s)	342
SaqAI	TTAA	3 cut(s)	285, 422, 746
SatI	GCNGC	1 cut(s)	132
Sau3AI	GATC	4 cut(s)	27, 222, 289, 699
Sau96I	GGNCC	1 cut(s)	383
ScrFI	CCNGG	2 cut(s)	16, 321
SetI	ASST	9 cut(s)	20, 50, 90, 133, 145, 257, 342, 414, 636
SinI	GGWCC	1 cut(s)	383
SmiMI	CAYNNNNRTG	1 cut(s)	342
SpeI	ACTAGT	1 cut(s)	548
Sse9I	AATT	8 cut(s)	71, 268, 396, 463, 487, 692, 712, 747
SseBI	AGGCCT	1 cut(s)	319
SspMI	CTAG	1 cut(s)	549
StuI	AGGCCT	1 cut(s)	319
StyD4I	CCNGG	2 cut(s)	14, 319
StyI	CCWWGG	1 cut(s)	48
TaaI	ACNGT	2 cut(s)	368, 670
TaiI	ACGT	1 cut(s)	342
TasI	AATT	8 cut(s)	71, 268, 396, 463, 487, 692, 712, 747
TfiI	GAWTC	4 cut(s)	34, 77, 530, 566
Tru1I	TTAA	3 cut(s)	285, 422, 746
Tru9I	TTAA	3 cut(s)	285, 422, 746
TscAI	CASTG	3 cut(s)	141, 198, 545
TseFI	GTSAC	1 cut(s)	353
TseI	GCWGC	1 cut(s)	131
Tsp45I	GTSAC	1 cut(s)	353
TspDTI	ATGAA	8 cut(s)	219, 238, 252, 317, 332, 392, 481, 729
TspRI	CASTG	3 cut(s)	141, 198, 545
VpaK11BI	GGWCC	1 cut(s)	383
VspI	ATTAAT	1 cut(s)	746
XapI	RAATTY	2 cut(s)	268, 487
XceI	RCATGY	2 cut(s)	376, 629
XmiI	GTMKAC	1 cut(s)	553
XmnI	GAANNNNTTC	2 cut(s)	155, 304
XspI	CTAG	1 cut(s)	549

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