Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0009010

Physical Location & Seq

Genomic Coordinates Forward (+)

80233753 .. 80235294

Gene Structure 1542 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00058390.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 987 bp

ATGGCGGTTGAAGCTCAGCATCACCACCACTCTGTTTTTGTTCCATCTCAGTTGATGGCGAATAGAGATTTCATTAAGGTTAATCAAGCAAACGGCAATATGTACAATAGCCAGATGGATTCCGGTATGCTTTTGGGAGCAACAATGCCGGAAAATAATCATATGCCGTTGTATCAGTCGGCTATCTGTGATCAAGCTAAAACATCAATGAACCAAGCGGAAAGCGGTCTCACGTACAACAACATCATATCTGCTCCGAGAAAGCGGTCGAGAGACTCGTTAATGAATGAGTTTAACAATTTTACGGTTCCTCAGCAGAAGAAACTCTCATCCGGTCTTTCATCATCGTTTCTCGACCAAGACATTGCCTTTCAGATCCAACAGCAGCAGTCGGAGATTGATCGATTCATTGCCCAACATACGGAAAAAGTGAGACTAGAACTCGAAGAACAAAGAAGGCAAGAATCACGATTGTTAGTCTCGGCAATTCAAGAGAGAATCGTGAAGAAATTACAAGAAAAAGATGACGAGATACAGAGGATGAGCAAGCTTAATTGGGTTCTTCAGGAAAGGGTGAAAAGCCTATTCGTTGAAAATCAAATATGGAGAGACTTGGCTCAATCAAACGAAGCCGCGGCCAATTCTCTGCGCTCCAATTTAGAGCAAGTCCTAGCGCACGTCAGCGAAGAAGGCCACCAGATGGGAAATTTTGCTACTGCAGCTGCGCCCGAAGATGATGCGGAGTCATGTTGCGGTAGCAACGATTGCGGACATGAAACCGAAGCTGATGGGGGGTTGGTTGGTTTCACCGACACGGTGGTTGGCGGTGGCGATAGGATGTGCAAGAGGTGTGGCGTGAGAGAGTCAAAGGTGCTATTGTTGCCATGCAGGCATCTTTGCCTTTGTACAATGTGTGGGTCCACCCTTCAGAATTGTCCAGTATGTGATTCTGTCATGAATGCCAGCGTGCATGTTAATTTCTCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006464 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009617 GO:0009620 GO:0009719 GO:0009725 GO:0009739 GO:0009892 GO:0009987 GO:0010033 GO:0010466 GO:0010605 GO:0010941 GO:0010951 GO:0016567 GO:0016740 GO:0019222 GO:0019538 GO:0019787 GO:0030162 GO:0031323 GO:0031324 GO:0032268 GO:0032269 GO:0032446 GO:0033993 GO:0036211 GO:0042221 GO:0042742 GO:0043067 GO:0043069 GO:0043086 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044092 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0045861 GO:0048519 GO:0048523 GO:0050789 GO:0050790 GO:0050794 GO:0050832 GO:0050896 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051336 GO:0051346 GO:0051704 GO:0051707 GO:0052547 GO:0052548 GO:0060255 GO:0060548 GO:0065007 GO:0065009 GO:0070647 GO:0071704 GO:0080090 GO:0098542 GO:0140096 GO:1901564 GO:1901700 GO:2000116 GO:2000117

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3

Protein Analysis

328

Amino Acids

36.67

Weight (kDa)

5.58

Isoelectric Point (pI)

54.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	278 - 319	4.9e-10	Zinc finger, C3HC4 type (RING finger)

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: OG0009010)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G19700 AT5G45100 AT5G45100
fragaria_vesca	FvH4_3g12030 FvH4_3g12030
malus_domestica	MD05G1255400.v1.1 MD10G1235500.v1.1
prunus_persica	Prupe.4G108500_v2.0.a1
pyrus_communis	pycom05g23380 pycom10g19700 pycom10g19710
rosa_chinensis	RchiOBHm_Chr5g0019721
rosa_laevigata	RLG00000032464
rosa_multiflora	Rmu_ssc0000062.1_g000019
rosa_roxburghii	Rroxscaffold_1G00058390
rosa_rugosa	Rorug05G0053500
rosa_samantha	Rh5AG143800 Rh5BG142700 Rh5CG154100 Rh5CG154200 Rh5DG142800
rosa_wichuraiana	Rw5G012730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	700
AccII	CGCG	1 cut(s)	635
AclWI	GGATC	1 cut(s)	370
AcoI	YGGCCR	1 cut(s)	636
AcsI	RAATTY	1 cut(s)	706
AcuI	CTGAAG	2 cut(s)	548, 911
AfaI	GTAC	3 cut(s)	104, 236, 907
AfiI	CCNNNNNNNGG	2 cut(s)	421, 700
AgsI	TTSAA	3 cut(s)	11, 491, 593
AjiI	CACGTC	1 cut(s)	679
AluBI	AGCT	5 cut(s)	14, 197, 550, 722, 785
AluI	AGCT	5 cut(s)	14, 197, 550, 722, 785
Alw26I	GTCTC	5 cut(s)	233, 267, 427, 484, 603
AlwI	GGATC	1 cut(s)	370
AoxI	GGCC	2 cut(s)	636, 691
ApeKI	GCWGC	3 cut(s)	385, 719, 722
ApoI	RAATTY	1 cut(s)	706
AspLEI	GCGC	3 cut(s)	651, 676, 727
AspS9I	GGNCC	1 cut(s)	918
AsuHPI	GGTGA	3 cut(s)	14, 586, 799
AvaII	GGWCC	1 cut(s)	918
BbvCI	CCTCAGC	1 cut(s)	312
BbvI	GCAGC	3 cut(s)	397, 709, 731
BccI	CCATC	5 cut(s)	49, 52, 109, 694, 782
BceAI	ACGGC	2 cut(s)	109, 151
BcgI	CGANNNNNNTGC	2 cut(s)	719, 753
BclI	TGATCA	1 cut(s)	190
BcoDI	GTCTC	5 cut(s)	233, 267, 427, 484, 603
BfaI	CTAG	2 cut(s)	437, 671
BfmI	CTRYAG	1 cut(s)	717
BglI	GCCNNNNNGGC	1 cut(s)	889
BisI	GCNGC	5 cut(s)	386, 633, 636, 720, 723
BlpI	GCTNAGC	1 cut(s)	15
BlsI	GCNGC	5 cut(s)	387, 634, 637, 721, 724
Bme18I	GGWCC	1 cut(s)	918
BmgBI	CACGTC	1 cut(s)	679
BmgT120I	GGNCC	1 cut(s)	918
BmiI	GGNNCC	2 cut(s)	309, 919
BmsI	GCATC	3 cut(s)	28, 727, 901
Bpu10I	CCTNAGC	1 cut(s)	312
Bpu1102I	GCTNAGC	1 cut(s)	15
Bsa29I	ATCGAT	1 cut(s)	403
BsaAI	YACGTR	1 cut(s)	234
BsaI	GGTCTC	1 cut(s)	233
BsaJI	CCNNGG	1 cut(s)	633
BsaWI	WCCGGW	2 cut(s)	122, 332
Bsc4I	CCNNNNNNNGG	2 cut(s)	421, 700
Bse1I	ACTGG	1 cut(s)	938
Bse3DI	GCAATG	2 cut(s)	363, 408
BseCI	ATCGAT	1 cut(s)	403
BseDI	CCNNGG	1 cut(s)	633
BseGI	GGATG	3 cut(s)	329, 546, 843
BseLI	CCNNNNNNNGG	2 cut(s)	421, 700
BseMI	GCAATG	2 cut(s)	363, 408
BseMII	CTCAG	3 cut(s)	29, 62, 326
BseNI	ACTGG	1 cut(s)	938
BseXI	GCAGC	3 cut(s)	397, 709, 731
Bsh1236I	CGCG	1 cut(s)	635
Bsh1285I	CGRYCG	1 cut(s)	269
BshFI	GGCC	2 cut(s)	638, 693
BshVI	ATCGAT	1 cut(s)	403
BsiEI	CGRYCG	1 cut(s)	269
BsiSI	CCGG	3 cut(s)	123, 149, 333
BslI	CCNNNNNNNGG	2 cut(s)	421, 700
BsmAI	GTCTC	5 cut(s)	233, 267, 427, 484, 603
BsmI	GAATGC	1 cut(s)	964
BsnI	GGCC	2 cut(s)	638, 693
Bso31I	GGTCTC	1 cut(s)	233
Bsp1407I	TGTACA	2 cut(s)	102, 905
Bsp143I	GATC	3 cut(s)	190, 375, 400
Bsp1720I	GCTNAGC	1 cut(s)	15
BspANI	GGCC	2 cut(s)	638, 693
BspCNI	CTCAG	3 cut(s)	28, 61, 325
BspDI	ATCGAT	1 cut(s)	403
BspFNI	CGCG	1 cut(s)	635
BspHI	TCATGA	1 cut(s)	954
BspLI	GGNNCC	2 cut(s)	309, 919
BspMAI	CTGCAG	1 cut(s)	721
BspPI	GGATC	1 cut(s)	370
BspTNI	GGTCTC	1 cut(s)	233
BsrDI	GCAATG	2 cut(s)	363, 408
BsrGI	TGTACA	2 cut(s)	102, 905
BsrI	ACTGG	1 cut(s)	938
BssECI	CCNNGG	1 cut(s)	633
BssMI	GATC	3 cut(s)	190, 375, 400
Bst4CI	ACNGT	2 cut(s)	307, 817
BstAPI	GCANNNNNTGC	1 cut(s)	765
BstAUI	TGTACA	2 cut(s)	102, 905
BstBAI	YACGTR	1 cut(s)	234
BstC8I	GCNNGC	4 cut(s)	548, 890, 964, 968
BstDEI	CTNAG	4 cut(s)	15, 48, 312, 984
BstDSI	CCRYGG	1 cut(s)	633
BstF5I	GGATG	3 cut(s)	329, 546, 843
BstFNI	CGCG	1 cut(s)	635
BstHHI	GCGC	3 cut(s)	651, 676, 727
BstKTI	GATC	3 cut(s)	193, 378, 403
BstMAI	GTCTC	5 cut(s)	233, 267, 427, 484, 603
BstMBI	GATC	3 cut(s)	190, 375, 400
BstMCI	CGRYCG	1 cut(s)	269
BstMWI	GCNNNNNNNGC	6 cut(s)	11, 690, 719, 765, 880, 889
BstNSI	RCATGY	1 cut(s)	974
BstSFI	CTRYAG	1 cut(s)	717
BstUI	CGCG	1 cut(s)	635
BstV1I	GCAGC	3 cut(s)	397, 709, 731
BstX2I	RGATCY	1 cut(s)	375
BstYI	RGATCY	1 cut(s)	375
Bsu15I	ATCGAT	1 cut(s)	403
BsuRI	GGCC	2 cut(s)	638, 693
BsuTUI	ATCGAT	1 cut(s)	403
BtgI	CCRYGG	1 cut(s)	633
BtrI	CACGTC	1 cut(s)	679
BtsCI	GGATG	3 cut(s)	329, 546, 843
Cac8I	GCNNGC	4 cut(s)	548, 890, 964, 968
CciI	TCATGA	1 cut(s)	954
CfoI	GCGC	3 cut(s)	651, 676, 727
Cfr13I	GGNCC	1 cut(s)	918
Cfr42I	CCGCGG	1 cut(s)	636
ClaI	ATCGAT	1 cut(s)	403
Csp6I	GTAC	3 cut(s)	103, 235, 906
CspCI	CAANNNNNGTGG	2 cut(s)	832, 867
CviAII	CATG	5 cut(s)	747, 773, 885, 955, 971
CviQI	GTAC	3 cut(s)	103, 235, 906
DdeI	CTNAG	4 cut(s)	15, 48, 312, 984
DpnI	GATC	3 cut(s)	192, 377, 402
DpnII	GATC	3 cut(s)	190, 375, 400
EaeI	YGGCCR	1 cut(s)	636
Eco31I	GGTCTC	1 cut(s)	233
Eco47I	GGWCC	1 cut(s)	918
Eco57I	CTGAAG	2 cut(s)	548, 911
FaeI	CATG	5 cut(s)	750, 776, 888, 958, 974
FatI	CATG	5 cut(s)	746, 772, 884, 954, 970
FauNDI	CATATG	1 cut(s)	162
FbaI	TGATCA	1 cut(s)	190
Fnu4HI	GCNGC	5 cut(s)	386, 633, 636, 720, 723
FokI	GGATG	3 cut(s)	316, 553, 850
Fsp4HI	GCNGC	5 cut(s)	386, 633, 636, 720, 723
FspBI	CTAG	2 cut(s)	437, 671
GlaI	GCGC	3 cut(s)	650, 675, 726
GluI	GCNGC	5 cut(s)	386, 633, 636, 720, 723
HaeIII	GGCC	2 cut(s)	638, 693
HapII	CCGG	3 cut(s)	123, 149, 333
HhaI	GCGC	3 cut(s)	651, 676, 727
Hin1II	CATG	5 cut(s)	750, 776, 888, 958, 974
Hin6I	GCGC	3 cut(s)	649, 674, 725
HinP1I	GCGC	3 cut(s)	649, 674, 725
HindIII	AAGCTT	1 cut(s)	548
HinfI	GANTC	8 cut(s)	119, 275, 405, 464, 498, 743, 863, 947
HpaII	CCGG	3 cut(s)	123, 149, 333
HphI	GGTGA	3 cut(s)	14, 586, 799
Hpy166II	GTNNAC	1 cut(s)	921
Hpy188I	TCNGA	4 cut(s)	258, 375, 394, 930
Hpy188III	TCNNGA	7 cut(s)	270, 353, 468, 491, 502, 566, 955
Hpy8I	GTNNAC	1 cut(s)	921
HpyAV	CCTTC	3 cut(s)	450, 683, 935
HpyCH4III	ACNGT	2 cut(s)	307, 817
HpyCH4IV	ACGT	2 cut(s)	233, 678
HpyCH4V	TGCA	4 cut(s)	719, 843, 888, 970
HpyF10VI	GCNNNNNNNGC	6 cut(s)	11, 690, 719, 765, 880, 889
HpyF3I	CTNAG	4 cut(s)	15, 48, 312, 984
HpySE526I	ACGT	2 cut(s)	233, 678
Hsp92II	CATG	5 cut(s)	750, 776, 888, 958, 974
HspAI	GCGC	3 cut(s)	649, 674, 725
Ksp22I	TGATCA	1 cut(s)	190
KspI	CCGCGG	1 cut(s)	636
Kzo9I	GATC	3 cut(s)	190, 375, 400
LmnI	GCTCC	3 cut(s)	137, 259, 656
LpnPI	CCDG	9 cut(s)	125, 136, 162, 346, 551, 710, 874, 951, 976
Lsp1109I	GCAGC	3 cut(s)	397, 709, 731
LweI	GCATC	3 cut(s)	28, 727, 901
MaeI	CTAG	2 cut(s)	437, 671
MaeII	ACGT	2 cut(s)	233, 678
MalI	GATC	3 cut(s)	192, 377, 402
MboI	GATC	3 cut(s)	190, 375, 400
MboII	GAAGA	6 cut(s)	331, 458, 517, 554, 698, 743
MflI	RGATCY	1 cut(s)	375
MluCI	AATT	9 cut(s)	298, 486, 509, 553, 640, 655, 706, 931, 976
MlyI	GAGTC	3 cut(s)	269, 752, 872
MmeI	TCCRAC	2 cut(s)	372, 403
MnlI	CCTC	3 cut(s)	321, 531, 840
MseI	TTAA	6 cut(s)	75, 81, 281, 294, 552, 975
MspA1I	CMGCKG	2 cut(s)	635, 722
MspI	CCGG	3 cut(s)	123, 149, 333
Mva1269I	GAATGC	1 cut(s)	964
MvnI	CGCG	1 cut(s)	635
MwoI	GCNNNNNNNGC	6 cut(s)	11, 690, 719, 765, 880, 889
NdeI	CATATG	1 cut(s)	162
NdeII	GATC	3 cut(s)	190, 375, 400
NlaIII	CATG	5 cut(s)	750, 776, 888, 958, 974
NlaIV	GGNNCC	2 cut(s)	309, 919
NmeAIII	GCCGAG	1 cut(s)	461
NspI	RCATGY	1 cut(s)	974
PagI	TCATGA	1 cut(s)	954
PcsI	WCGNNNNNNNCGW	1 cut(s)	275
PctI	GAATGC	1 cut(s)	964
PfeI	GAWTC	5 cut(s)	119, 405, 464, 498, 947
PflMI	CCANNNNNTGG	1 cut(s)	700
PkrI	GCNGC	5 cut(s)	387, 634, 637, 721, 724
PleI	GAGTC	3 cut(s)	269, 751, 871
PpsI	GAGTC	3 cut(s)	269, 751, 871
Ppu21I	YACGTR	1 cut(s)	234
PspN4I	GGNNCC	2 cut(s)	309, 919
PspPI	GGNCC	1 cut(s)	918
PstI	CTGCAG	1 cut(s)	721
PsuI	RGATCY	1 cut(s)	375
PvuII	CAGCTG	1 cut(s)	722
RsaI	GTAC	3 cut(s)	104, 236, 907
RsaNI	GTAC	3 cut(s)	103, 235, 906
SacII	CCGCGG	1 cut(s)	636
SaqAI	TTAA	6 cut(s)	75, 81, 281, 294, 552, 975
SatI	GCNGC	5 cut(s)	386, 633, 636, 720, 723
Sau3AI	GATC	3 cut(s)	190, 375, 400
Sau96I	GGNCC	1 cut(s)	918
SchI	GAGTC	3 cut(s)	269, 752, 872
SfaNI	GCATC	3 cut(s)	28, 727, 901
SfcI	CTRYAG	1 cut(s)	717
Sfr303I	CCGCGG	1 cut(s)	636
SgrBI	CCGCGG	1 cut(s)	636
SinI	GGWCC	1 cut(s)	918
Sse9I	AATT	9 cut(s)	298, 486, 509, 553, 640, 655, 706, 931, 976
SspMI	CTAG	2 cut(s)	437, 671
TaaI	ACNGT	2 cut(s)	307, 817
TaiI	ACGT	2 cut(s)	236, 681
TaqI	TCGA	4 cut(s)	269, 354, 403, 444
TasI	AATT	9 cut(s)	298, 486, 509, 553, 640, 655, 706, 931, 976
TatI	WGTACW	2 cut(s)	102, 905
TauI	GCSGC	2 cut(s)	635, 638
TfiI	GAWTC	5 cut(s)	119, 405, 464, 498, 947
Tru1I	TTAA	6 cut(s)	75, 81, 281, 294, 552, 975
Tru9I	TTAA	6 cut(s)	75, 81, 281, 294, 552, 975
TseI	GCWGC	3 cut(s)	385, 719, 722
TspDTI	ATGAA	7 cut(s)	61, 224, 299, 330, 397, 789, 971
TspGWI	ACGGA	1 cut(s)	437
Van91I	CCANNNNNTGG	1 cut(s)	700
VpaK11BI	GGWCC	1 cut(s)	918
XapI	RAATTY	1 cut(s)	706
XceI	RCATGY	1 cut(s)	974
XspI	CTAG	2 cut(s)	437, 671

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