Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0000802

Physical Location & Seq

Genomic Coordinates Reverse (-)

650986 .. 651915

Gene Structure 930 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG010600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 930 bp

ATGAAGGGTCTTCTTGAGATTCTAGCTCATGCCTCAGAGTATTCACAACTTTCCATGCGACCTGGAGAGGAAGAGGTGATTCGAAGGTTGATTAACCACCTGAGATTTTCCTTCGAGAATCCCGACTGCACAGATCCTCACGTCAAAGCATATGCTCTTCTCCAGGCTCATTTTGCAAGGCATCATGTGGCTGGGAACCTATCACTGGACCAGCGTGAGGTTCTCCTTTCTGCAAGTAGGTTGCTTCACGCAATGGTTGATGTTGCTTCCACCAATGGATGGCTAAACCTCTCTCTCCTAGCAATGGAAGTCAGCCAGATGCTCACTCAGGGGATGTGGGATCGTGACTCGATGCTTCTACAGCTTCCTCACTTCACAAGGGAGCTGGCGAAGAGATGCCAAGAATTTCCTGGAAAGAATATAGAGAGGGTATCTGATTTGGTTGACATGGAGTATGATGAGAGGCGTGAACTACTTCGGGAACTACTTCAGATGTCAGATGTACAGTTGGAGGATATTGAACAATTTTGCAAACGATTTCCCAGCATTGAAATGACGTTTAAGGTGCTAGAGAGTGAGAATGTAAGAGCTGGGGAGGAAATCAGTTTGCAAGTTGATGTGGACCGTGAACATGTTGGCCCTGTTGATGCGCTGAGATATCCCAGGACCAAAGAAGAGGGGTGGTGGCTAGTAGTCGGGGATACCAAGACTCACTCACTGCTTGCAATCAAGAAAGTTCCCCTACTAAAGAAGTCGAAGATCCAGCTTAGATTTTCGGCTCCTGCAGAAGCTGGAAAGAAGGCATATACATTGTATTTCATGTGTGATTCATATTTGGGGTGTGATGAGGAACATAACTTCACTGTCGATGTTAAAGAACCAGCAAGCCCTGATGATGAAGACGGTGAAGACACTGAAATGAGAGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000354 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005682 GO:0005911 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009506 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0022613 GO:0022618 GO:0030054 GO:0030532 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0042623 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0046483 GO:0046540 GO:0055044 GO:0065003 GO:0070013 GO:0070035 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097525 GO:0097526 GO:0120114 GO:0140098 GO:1901360 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DEAD Helicase_C Sec63

Protein Analysis

309

Amino Acids

35.52

Weight (kDa)

5.12

Isoelectric Point (pI)

46.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sec63	PF02889	2 - 287	6.3e-54	Sec63 Brl 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: OG0000802)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G20960 AT1G20960 AT2G42270
fragaria_vesca	FvH4_5g21940 FvH4_5g30070 FvH4_6g00860 FvH4_6g00860 FvH4_6g47200
malus_domestica	MD04G1240400.v1.1 MD09G1062900.v1.1 MD09G1063000.v1.1 MD12G1257300.v1.1
prunus_persica	Prupe.6G358100_v2.0.a1 Prupe.6G358100_v2.0.a1
pyrus_communis	pycom04g21210 pycom04g21230 pycom111g05330 pycom12g23600 pycom12g23620
rosa_chinensis	RchiOBHm_Chr2g0166221 RchiOBHm_Chr3g0448041 RchiOBHm_Chr3g0448351 RchiOBHm_Chr5g0014801 RchiOBHm_Chr7g0209461
rosa_laevigata	RLG00000003133 RLG00000021598 RLG00000021599 RLG00000025925 RLG00000025950 RLG00000025953 RLG00000032142
rosa_multiflora	Rmu_co8520521.1_g000001 Rmu_sc0005582.1_g000009 Rmu_sc0005969.1_g000018 Rmu_sc0015167.1_g000007 Rmu_ssc0000323.1_g000031
rosa_roxburghii	Rroxscaffold_1G00061750 Rroxscaffold_2G00085080 Rroxscaffold_3G00249430 Rroxscaffold_6G00426200 Rroxscaffold_6G00426480 Rroxscaffold_6G00426530
rosa_rugosa	Rorug02G0521300 Rorug02G0607900 Rorug02G0611500 Rorug02G0611600 Rorug07G0113200
rosa_samantha	Rh2AG587300 Rh2BG599200 Rh2CG569600 Rh2DG608900 Rh3AG010500 Rh3AG010600 Rh3BG010200 Rh3BG010300 Rh3CG009900 Rh3CG010000 Rh3DG010600 Rh3DG010700 Rh5CG124900 Rh7AG247100 Rh7BG242100 Rh7CG262700 Rh7DG253400
rosa_wichuraiana	Rw0G020040 Rw2G048960 Rw3G000580 Rw3G000830 Rw7G020900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	279
AclWI	GGATC	3 cut(s)	128, 348, 754
AcsI	RAATTY	1 cut(s)	404
AcuI	CTGAAG	1 cut(s)	473
AfaI	GTAC	1 cut(s)	504
AfiI	CCNNNNNNNGG	4 cut(s)	205, 217, 279, 304
AflIII	ACRYGT	1 cut(s)	631
AgsI	TTSAA	2 cut(s)	521, 551
AjiI	CACGTC	1 cut(s)	142
AjnI	CCWGG	4 cut(s)	61, 162, 409, 662
AluBI	AGCT	6 cut(s)	26, 364, 385, 590, 766, 791
AluI	AGCT	6 cut(s)	26, 364, 385, 590, 766, 791
AlwI	GGATC	3 cut(s)	128, 348, 754
AlwNI	CAGNNNCTG	1 cut(s)	791
AoxI	GGCC	1 cut(s)	637
ApoI	RAATTY	1 cut(s)	404
Asp700I	GAANNNNTTC	2 cut(s)	474, 486
AspLEI	GCGC	1 cut(s)	652
AspS9I	GGNCC	4 cut(s)	208, 622, 638, 666
AsuHPI	GGTGA	2 cut(s)	88, 917
AsuII	TTCGAA	1 cut(s)	82
AvaII	GGWCC	3 cut(s)	208, 622, 666
BbsI	GAAGAC	3 cut(s)	2, 906, 915
BccI	CCATC	1 cut(s)	273
BciT130I	CCWGG	4 cut(s)	63, 164, 411, 664
BciVI	GTATCC	1 cut(s)	694
BfaI	CTAG	4 cut(s)	23, 299, 569, 689
BfmI	CTRYAG	2 cut(s)	359, 783
BfuI	GTATCC	1 cut(s)	694
Bme1390I	CCNGG	4 cut(s)	63, 164, 411, 664
Bme18I	GGWCC	3 cut(s)	208, 622, 666
BmgBI	CACGTC	1 cut(s)	142
BmgT120I	GGNCC	4 cut(s)	208, 622, 638, 666
BmiI	GGNNCC	2 cut(s)	197, 780
BmrFI	CCNGG	4 cut(s)	63, 164, 411, 664
BmsI	GCATC	5 cut(s)	190, 309, 342, 386, 637
BpiI	GAAGAC	3 cut(s)	2, 906, 915
BpmI	CTGGAG	2 cut(s)	84, 146
Bpu14I	TTCGAA	1 cut(s)	82
BpuEI	CTTGAG	1 cut(s)	35
BsaJI	CCNNGG	1 cut(s)	662
Bsc4I	CCNNNNNNNGG	4 cut(s)	205, 217, 279, 304
Bse1I	ACTGG	1 cut(s)	210
Bse3DI	GCAATG	2 cut(s)	258, 309
BseBI	CCWGG	4 cut(s)	63, 164, 411, 664
BseDI	CCNNGG	1 cut(s)	662
BseGI	GGATG	2 cut(s)	284, 339
BseLI	CCNNNNNNNGG	4 cut(s)	205, 217, 279, 304
BseMI	GCAATG	2 cut(s)	258, 309
BseMII	CTCAG	4 cut(s)	48, 92, 341, 644
BseNI	ACTGG	1 cut(s)	210
BseYI	CCCAGC	3 cut(s)	191, 542, 590
BsgI	GTGCAG	1 cut(s)	112
BshFI	GGCC	1 cut(s)	639
BslI	CCNNNNNNNGG	4 cut(s)	205, 217, 279, 304
BsnI	GGCC	1 cut(s)	639
Bsp119I	TTCGAA	1 cut(s)	82
Bsp1407I	TGTACA	1 cut(s)	502
Bsp143I	GATC	3 cut(s)	133, 340, 759
BspANI	GGCC	1 cut(s)	639
BspCNI	CTCAG	4 cut(s)	47, 93, 340, 645
BspLI	GGNNCC	2 cut(s)	197, 780
BspMAI	CTGCAG	1 cut(s)	787
BspPI	GGATC	3 cut(s)	128, 348, 754
BspQI	GCTCTTC	1 cut(s)	162
BspT104I	TTCGAA	1 cut(s)	82
BsrDI	GCAATG	2 cut(s)	258, 309
BsrGI	TGTACA	1 cut(s)	502
BsrI	ACTGG	1 cut(s)	210
BssECI	CCNNGG	1 cut(s)	662
BssMI	GATC	3 cut(s)	133, 340, 759
Bst2UI	CCWGG	4 cut(s)	63, 164, 411, 664
Bst4CI	ACNGT	4 cut(s)	507, 626, 865, 905
Bst6I	CTCTTC	4 cut(s)	66, 162, 386, 669
BstAUI	TGTACA	1 cut(s)	502
BstBI	TTCGAA	1 cut(s)	82
BstC8I	GCNNGC	3 cut(s)	387, 723, 886
BstDEI	CTNAG	5 cut(s)	34, 101, 327, 653, 767
BstF5I	GGATG	2 cut(s)	284, 339
BstHHI	GCGC	1 cut(s)	652
BstKTI	GATC	3 cut(s)	136, 343, 762
BstMBI	GATC	3 cut(s)	133, 340, 759
BstMWI	GCNNNNNNNGC	2 cut(s)	173, 361
BstNI	CCWGG	4 cut(s)	63, 164, 411, 664
BstNSI	RCATGY	1 cut(s)	635
BstSCI	CCNGG	4 cut(s)	61, 162, 409, 662
BstSFI	CTRYAG	2 cut(s)	359, 783
BstV2I	GAAGAC	3 cut(s)	2, 906, 915
BstX2I	RGATCY	2 cut(s)	133, 759
BstYI	RGATCY	2 cut(s)	133, 759
BsuI	GTATCC	1 cut(s)	694
BsuRI	GGCC	1 cut(s)	639
BtrI	CACGTC	1 cut(s)	142
BtsCI	GGATG	2 cut(s)	284, 339
BtsI	GCAGTG	1 cut(s)	716
BtsIMutI	CAGTG	4 cut(s)	203, 716, 861, 912
Cac8I	GCNNGC	3 cut(s)	387, 723, 886
CaiI	CAGNNNCTG	1 cut(s)	791
CfoI	GCGC	1 cut(s)	652
Cfr13I	GGNCC	4 cut(s)	208, 622, 638, 666
Csp6I	GTAC	1 cut(s)	503
CviAII	CATG	6 cut(s)	29, 55, 185, 448, 632, 820
CviQI	GTAC	1 cut(s)	503
DdeI	CTNAG	5 cut(s)	34, 101, 327, 653, 767
DpnI	GATC	3 cut(s)	135, 342, 761
DpnII	GATC	3 cut(s)	133, 340, 759
Eam1104I	CTCTTC	4 cut(s)	66, 162, 386, 669
EarI	CTCTTC	4 cut(s)	66, 162, 386, 669
Eco32I	GATATC	1 cut(s)	659
Eco47I	GGWCC	3 cut(s)	208, 622, 666
Eco57I	CTGAAG	1 cut(s)	473
EcoRII	CCWGG	4 cut(s)	61, 162, 409, 662
EcoRV	GATATC	1 cut(s)	659
FaeI	CATG	6 cut(s)	32, 58, 188, 451, 635, 823
FatI	CATG	6 cut(s)	28, 54, 184, 447, 631, 819
FauNDI	CATATG	1 cut(s)	151
FokI	GGATG	2 cut(s)	291, 346
FspBI	CTAG	4 cut(s)	23, 299, 569, 689
GlaI	GCGC	1 cut(s)	651
GsaI	CCCAGC	3 cut(s)	195, 546, 594
GsuI	CTGGAG	2 cut(s)	84, 146
HaeIII	GGCC	1 cut(s)	639
HhaI	GCGC	1 cut(s)	652
Hin1II	CATG	6 cut(s)	32, 58, 188, 451, 635, 823
Hin6I	GCGC	1 cut(s)	650
HinP1I	GCGC	1 cut(s)	650
HincII	GTYRAC	1 cut(s)	445
HindII	GTYRAC	1 cut(s)	445
HinfI	GANTC	6 cut(s)	19, 79, 118, 347, 709, 827
HphI	GGTGA	2 cut(s)	88, 917
Hpy166II	GTNNAC	4 cut(s)	445, 470, 622, 629
Hpy188I	TCNGA	4 cut(s)	37, 436, 492, 499
Hpy188III	TCNNGA	6 cut(s)	14, 115, 122, 344, 479, 730
Hpy8I	GTNNAC	4 cut(s)	445, 470, 622, 629
HpyAV	CCTTC	3 cut(s)	78, 121, 793
HpyCH4III	ACNGT	4 cut(s)	507, 626, 865, 905
HpyCH4IV	ACGT	2 cut(s)	141, 557
HpyCH4V	TGCA	7 cut(s)	129, 176, 233, 531, 610, 725, 785
HpyF10VI	GCNNNNNNNGC	2 cut(s)	173, 361
HpyF3I	CTNAG	5 cut(s)	34, 101, 327, 653, 767
HpySE526I	ACGT	2 cut(s)	141, 557
Hsp92II	CATG	6 cut(s)	32, 58, 188, 451, 635, 823
HspAI	GCGC	1 cut(s)	650
Kzo9I	GATC	3 cut(s)	133, 340, 759
LguI	GCTCTTC	1 cut(s)	162
LmnI	GCTCC	2 cut(s)	382, 784
LweI	GCATC	5 cut(s)	190, 309, 342, 386, 637
MaeI	CTAG	4 cut(s)	23, 299, 569, 689
MaeII	ACGT	2 cut(s)	141, 557
MaeIII	GTNAC	1 cut(s)	344
MalI	GATC	3 cut(s)	135, 342, 761
MboI	GATC	3 cut(s)	133, 340, 759
MboII	GAAGA	7 cut(s)	83, 149, 403, 686, 769, 911, 920
MflI	RGATCY	2 cut(s)	133, 759
MluCI	AATT	2 cut(s)	404, 524
MlyI	GAGTC	2 cut(s)	341, 703
MmeI	TCCRAC	1 cut(s)	489
MroXI	GAANNNNTTC	2 cut(s)	474, 486
MseI	TTAA	3 cut(s)	93, 561, 873
MslI	CAYNNNNRTG	2 cut(s)	551, 917
MspR9I	CCNGG	4 cut(s)	63, 164, 411, 664
MvaI	CCWGG	4 cut(s)	63, 164, 411, 664
MwoI	GCNNNNNNNGC	2 cut(s)	173, 361
NdeI	CATATG	1 cut(s)	151
NdeII	GATC	3 cut(s)	133, 340, 759
NlaIII	CATG	6 cut(s)	32, 58, 188, 451, 635, 823
NlaIV	GGNNCC	2 cut(s)	197, 780
NmuCI	GTSAC	1 cut(s)	344
NspI	RCATGY	1 cut(s)	635
NspV	TTCGAA	1 cut(s)	82
PciI	ACATGT	1 cut(s)	631
PciSI	GCTCTTC	1 cut(s)	162
PcsI	WCGNNNNNNNCGW	1 cut(s)	120
PdmI	GAANNNNTTC	2 cut(s)	474, 486
PfeI	GAWTC	4 cut(s)	19, 79, 118, 827
PflMI	CCANNNNNTGG	1 cut(s)	279
PfoI	TCCNGGA	1 cut(s)	409
PleI	GAGTC	2 cut(s)	341, 703
PpsI	GAGTC	2 cut(s)	341, 703
PscI	ACATGT	1 cut(s)	631
Psp6I	CCWGG	4 cut(s)	61, 162, 409, 662
PspFI	CCCAGC	3 cut(s)	191, 542, 590
PspGI	CCWGG	4 cut(s)	61, 162, 409, 662
PspN4I	GGNNCC	2 cut(s)	197, 780
PspPI	GGNCC	4 cut(s)	208, 622, 638, 666
PstI	CTGCAG	1 cut(s)	787
PstNI	CAGNNNCTG	1 cut(s)	791
PsuI	RGATCY	2 cut(s)	133, 759
RsaI	GTAC	1 cut(s)	504
RsaNI	GTAC	1 cut(s)	503
RseI	CAYNNNNRTG	2 cut(s)	551, 917
SapI	GCTCTTC	1 cut(s)	162
SaqAI	TTAA	3 cut(s)	93, 561, 873
Sau3AI	GATC	3 cut(s)	133, 340, 759
Sau96I	GGNCC	4 cut(s)	208, 622, 638, 666
SchI	GAGTC	2 cut(s)	341, 703
ScrFI	CCNGG	4 cut(s)	63, 164, 411, 664
SfaNI	GCATC	5 cut(s)	190, 309, 342, 386, 637
SfcI	CTRYAG	2 cut(s)	359, 783
SfuI	TTCGAA	1 cut(s)	82
SinI	GGWCC	3 cut(s)	208, 622, 666
SmiMI	CAYNNNNRTG	2 cut(s)	551, 917
SmlI	CTYRAG	1 cut(s)	14
SmoI	CTYRAG	1 cut(s)	14
Sse9I	AATT	2 cut(s)	404, 524
SspMI	CTAG	4 cut(s)	23, 299, 569, 689
StyD4I	CCNGG	4 cut(s)	61, 162, 409, 662
TaaI	ACNGT	4 cut(s)	507, 626, 865, 905
TaiI	ACGT	2 cut(s)	144, 560
TaqI	TCGA	5 cut(s)	82, 114, 350, 755, 867
TasI	AATT	2 cut(s)	404, 524
TatI	WGTACW	1 cut(s)	502
TfiI	GAWTC	4 cut(s)	19, 79, 118, 827
Tru1I	TTAA	3 cut(s)	93, 561, 873
Tru9I	TTAA	3 cut(s)	93, 561, 873
TscAI	CASTG	4 cut(s)	210, 723, 868, 919
TseFI	GTSAC	1 cut(s)	344
Tsp45I	GTSAC	1 cut(s)	344
TspDTI	ATGAA	4 cut(s)	17, 808, 819, 912
TspRI	CASTG	4 cut(s)	210, 723, 868, 919
Van91I	CCANNNNNTGG	1 cut(s)	279
VpaK11BI	GGWCC	3 cut(s)	208, 622, 666
XapI	RAATTY	1 cut(s)	404
XceI	RCATGY	1 cut(s)	635
XcmI	CCANNNNNNNNNTGG	1 cut(s)	407
XmnI	GAANNNNTTC	2 cut(s)	474, 486
XspI	CTAG	4 cut(s)	23, 299, 569, 689

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