Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0005400

Physical Location & Seq

Genomic Coordinates Reverse (-)

41177852 .. 41180567

Gene Structure 2716 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG244700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1023 bp

ATGAAGGAGAGGGATAGGCAGAAGCTTCTGGAGCAAACGAGGAGGTGGCGTGGTTACTCTCCGTTCCCAGAGCCGCAAGATGAGTCTGATGTAGTTTTCAGGGCAGCTACAGGTAAATGGCGGGCAGTTGTAGTAGACATTTCTAGAATGCACAAAACAGGTAGCCATGTACTTGTTGGCACAACCAGTGTTGAGCAGAGTGACTCATTGTCTGAGCAGTTGCAAGAAGTTGGCATTCCCCATGAGGTTCTCAACGCAAAACCAGAGAATGTGGAGAGGGAAGCAGAAATTGTGGCACAAAGCAGTCGTTTAGGGGCAGTTACTATTGCAACCAATATGGCAGGTCGAGGAACAGACATAATCCTTGGTGGGAATGCAGAATTTATGGCGAGAGTTGTAAAACTAACTGAAGGAGGTTATGTCTCAGTGAAAAAACTTCCGCTGAAAAAATCCTGGAAGGTTAATGAAAAGCTATTTCCATGCAAACTGTCCAATGAAAAGACCAAGTTAGCTGAGGAAGCTGTGAATTTAGCTGTTGAAACTTGGGGTCAGAGATCATTGACAAAGCTTGAAGCAGAGGAGCGTCTTTCTTATTCTTGCGAAAAGGGACCTGCTTTGGATGAAGTGATAGCCAAACTGTGGAGTGCTTTTTTAGAAATCATGAAAGAATATAAGGGCTACACAAAGGAAGAAAGGAAGAAGGTTGTGTCAGCTGGTGGACTTCATGTTGTCGGGACAAAACGCCATGAATCTCGCCGAGTTGATAATCAGTTACATGGTCGAATTGGACGACAGGGGGATCCTGGAAGTTCACGCTTCTTCTTAAGTCTTGAAGATAACATCTTTCGTATATTTGGTGGAGATCGTATTAAGGGTTTAATGAGAGCTTTTAGAGTTGAGGACTTGCCAATTGAGTCCAAGATGCTGACCAAAGCACTAGATGAAGCTCAGCGGAAAGTGGAAAACTATTTTTTTGATATTCGAAAGCAATTGTTTGAATTTGATGAAGTCCTAAACAGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005215 GO:0005488 GO:0005524 GO:0006810 GO:0008104 GO:0008144 GO:0008150 GO:0008320 GO:0008565 GO:0015031 GO:0015399 GO:0015405 GO:0015440 GO:0015450 GO:0015462 GO:0015833 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017076 GO:0017111 GO:0022804 GO:0022857 GO:0022884 GO:0030554 GO:0032553 GO:0032555 GO:0032559 GO:0033036 GO:0033220 GO:0035639 GO:0036094 GO:0042623 GO:0042626 GO:0042886 GO:0042887 GO:0043167 GO:0043168 GO:0043492 GO:0045184 GO:0051179 GO:0051234 GO:0055085 GO:0071702 GO:0071705 GO:0071806 GO:0097159 GO:0097367 GO:1901265 GO:1901363 GO:1904680

KEGG Pathways

Metabolic & Signaling

ko02024 ko03060 ko03070 map02024 map03060 map03070

Pfam Domains

Protein Families

SecA_DEAD SecA_PP_bind SecA_SW

Protein Analysis

340

Amino Acids

38.57

Weight (kDa)

8.98

Isoelectric Point (pI)

42.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	26 - 301	4.7e-75	SecA P-loop domain
SecA_SW	PF07516	303 - 339	1.5e-11	SecA Wing and Scaffold 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)

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Publication-ready

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Orthologous Genes (Group: OG0005400)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01800 AT4G01800 AT4G01800
fragaria_vesca	FvH4_1g26240
malus_domestica	MD17G1285000.v1.1
prunus_persica	Prupe.3G002700_v2.0.a1
pyrus_communis	pycom09g19850 pycom17g28080 pycom17g28090
rosa_chinensis	RchiOBHm_Chr3g0485781
rosa_laevigata	RLG00000023125
rosa_multiflora	Rmu_co8471925.1_g000001 Rmu_sc0012870.1_g000002
rosa_roxburghii	Rroxscaffold_2G00123840
rosa_rugosa	Rorug03G0221400
rosa_samantha	Rh1AG180100 Rh1CG167100 Rh3AG270700 Rh3BG306200 Rh3BG306300 Rh3CG304600 Rh3DG300700 Rh4AG241300 Rh4AG241400 Rh4BG244600 Rh4BG244700 Rh4CG255400 Rh7CG119700
rosa_wichuraiana	Rw3G024110

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	332, 619
AccB7I	CCANNNNNTGG	1 cut(s)	639
AccI	GTMKAC	1 cut(s)	135
AciI	CCGC	4 cut(s)	74, 121, 440, 952
AclWI	GGATC	2 cut(s)	794, 807
AcsI	RAATTY	3 cut(s)	380, 526, 998
AcuI	CTGAAG	1 cut(s)	429
AfaI	GTAC	1 cut(s)	171
AfiI	CCNNNNNNNGG	1 cut(s)	639
AflII	CTTAAG	1 cut(s)	823
AgsI	TTSAA	4 cut(s)	539, 572, 833, 998
AhdI	GACNNNNNGTC	1 cut(s)	208
AjnI	CCWGG	2 cut(s)	452, 802
Alw26I	GTCTC	1 cut(s)	427
AlwI	GGATC	2 cut(s)	794, 807
ApeKI	GCWGC	1 cut(s)	104
ApoI	RAATTY	3 cut(s)	380, 526, 998
AspS9I	GGNCC	1 cut(s)	608
AsuII	TTCGAA	1 cut(s)	982
AvaII	GGWCC	1 cut(s)	608
BamHI	GGATCC	1 cut(s)	799
BbvCI	CCTCAGC	1 cut(s)	513
BbvI	GCAGC	1 cut(s)	116
BciT130I	CCWGG	2 cut(s)	454, 804
BcoDI	GTCTC	1 cut(s)	427
BfaI	CTAG	2 cut(s)	144, 938
BfmI	CTRYAG	1 cut(s)	108
BfrI	CTTAAG	1 cut(s)	823
BfuAI	ACCTGC	2 cut(s)	332, 619
BisI	GCNGC	2 cut(s)	74, 105
BlpI	GCTNAGC	1 cut(s)	948
BlsI	GCNGC	2 cut(s)	75, 106
Bme1390I	CCNGG	2 cut(s)	454, 804
Bme18I	GGWCC	1 cut(s)	608
BmeRI	GACNNNNNGTC	1 cut(s)	208
BmgT120I	GGNCC	1 cut(s)	608
BmiI	GGNNCC	2 cut(s)	609, 801
BmrFI	CCNGG	2 cut(s)	454, 804
BmsI	GCATC	1 cut(s)	912
BpmI	CTGGAG	1 cut(s)	50
Bpu10I	CCTNAGC	1 cut(s)	513
Bpu1102I	GCTNAGC	1 cut(s)	948
Bpu14I	TTCGAA	1 cut(s)	982
BsaJI	CCNNGG	1 cut(s)	364
BsaXI	ACNNNNNCTCC	4 cut(s)	34, 64, 405, 435
Bsc4I	CCNNNNNNNGG	1 cut(s)	639
Bse1I	ACTGG	1 cut(s)	186
BseBI	CCWGG	2 cut(s)	454, 804
BseDI	CCNNGG	1 cut(s)	364
BseGI	GGATG	1 cut(s)	625
BseLI	CCNNNNNNNGG	1 cut(s)	639
BseMII	CTCAG	4 cut(s)	204, 438, 504, 962
BseNI	ACTGG	1 cut(s)	186
BseRI	GAGGAG	2 cut(s)	55, 593
BseXI	GCAGC	1 cut(s)	116
BslFI	GGGAC	2 cut(s)	621, 748
BslI	CCNNNNNNNGG	1 cut(s)	639
BsmAI	GTCTC	1 cut(s)	427
BsmFI	GGGAC	2 cut(s)	621, 748
BsmI	GAATGC	3 cut(s)	153, 234, 379
Bsp119I	TTCGAA	1 cut(s)	982
Bsp143I	GATC	3 cut(s)	554, 799, 862
Bsp1720I	GCTNAGC	1 cut(s)	948
BspACI	CCGC	4 cut(s)	74, 121, 440, 952
BspCNI	CTCAG	4 cut(s)	205, 437, 505, 961
BspHI	TCATGA	1 cut(s)	660
BspLI	GGNNCC	2 cut(s)	609, 801
BspMI	ACCTGC	2 cut(s)	332, 619
BspPI	GGATC	2 cut(s)	794, 807
BspT104I	TTCGAA	1 cut(s)	982
BspTI	CTTAAG	1 cut(s)	823
BsrI	ACTGG	1 cut(s)	186
BssECI	CCNNGG	1 cut(s)	364
BssMI	GATC	3 cut(s)	554, 799, 862
BssT1I	CCWWGG	1 cut(s)	364
Bst2UI	CCWGG	2 cut(s)	454, 804
Bst4CI	ACNGT	2 cut(s)	489, 639
BstAFI	CTTAAG	1 cut(s)	823
BstBI	TTCGAA	1 cut(s)	982
BstC8I	GCNNGC	1 cut(s)	123
BstDEI	CTNAG	4 cut(s)	213, 424, 513, 948
BstF5I	GGATG	1 cut(s)	625
BstKTI	GATC	3 cut(s)	557, 802, 865
BstMAI	GTCTC	1 cut(s)	427
BstMBI	GATC	3 cut(s)	554, 799, 862
BstMWI	GCNNNNNNNGC	2 cut(s)	31, 518
BstNI	CCWGG	2 cut(s)	454, 804
BstSCI	CCNGG	2 cut(s)	452, 802
BstSFI	CTRYAG	1 cut(s)	108
BstV1I	GCAGC	1 cut(s)	116
BstX2I	RGATCY	1 cut(s)	799
BstYI	RGATCY	1 cut(s)	799
BtsCI	GGATG	1 cut(s)	625
BtsIMutI	CAGTG	2 cut(s)	193, 432
BveI	ACCTGC	2 cut(s)	332, 619
Cac8I	GCNNGC	1 cut(s)	123
CciI	TCATGA	1 cut(s)	660
Cfr13I	GGNCC	1 cut(s)	608
CseI	GACGC	1 cut(s)	572
Csp6I	GTAC	1 cut(s)	170
CviAII	CATG	7 cut(s)	167, 242, 480, 661, 725, 746, 776
CviQI	GTAC	1 cut(s)	170
DdeI	CTNAG	4 cut(s)	213, 424, 513, 948
DpnI	GATC	3 cut(s)	556, 801, 864
DpnII	GATC	3 cut(s)	554, 799, 862
DriI	GACNNNNNGTC	1 cut(s)	208
Eam1105I	GACNNNNNGTC	1 cut(s)	208
Eco130I	CCWWGG	1 cut(s)	364
Eco47I	GGWCC	1 cut(s)	608
Eco57I	CTGAAG	1 cut(s)	429
EcoO109I	RGGNCCY	1 cut(s)	608
EcoRII	CCWGG	2 cut(s)	452, 802
EcoT14I	CCWWGG	1 cut(s)	364
ErhI	CCWWGG	1 cut(s)	364
FaeI	CATG	7 cut(s)	170, 245, 483, 664, 728, 749, 779
FaqI	GGGAC	2 cut(s)	621, 748
FatI	CATG	7 cut(s)	166, 241, 479, 660, 724, 745, 775
FauI	CCCGC	1 cut(s)	114
FblI	GTMKAC	1 cut(s)	135
Fnu4HI	GCNGC	2 cut(s)	74, 105
FokI	GGATG	1 cut(s)	632
Fsp4HI	GCNGC	2 cut(s)	74, 105
FspBI	CTAG	2 cut(s)	144, 938
GluI	GCNGC	2 cut(s)	74, 105
GsuI	CTGGAG	1 cut(s)	50
HgaI	GACGC	1 cut(s)	572
Hin1II	CATG	7 cut(s)	170, 245, 483, 664, 728, 749, 779
HindIII	AAGCTT	2 cut(s)	23, 566
HinfI	GANTC	4 cut(s)	83, 203, 749, 914
Hpy166II	GTNNAC	3 cut(s)	136, 719, 812
Hpy188I	TCNGA	3 cut(s)	88, 214, 552
Hpy188III	TCNNGA	5 cut(s)	29, 144, 661, 733, 830
Hpy8I	GTNNAC	3 cut(s)	136, 719, 812
HpyAV	CCTTC	3 cut(s)	404, 451, 694
HpyCH4III	ACNGT	2 cut(s)	489, 639
HpyCH4V	TGCA	5 cut(s)	151, 223, 329, 377, 483
HpyF10VI	GCNNNNNNNGC	2 cut(s)	31, 518
HpyF3I	CTNAG	4 cut(s)	213, 424, 513, 948
Hsp92II	CATG	7 cut(s)	170, 245, 483, 664, 728, 749, 779
Kzo9I	GATC	3 cut(s)	554, 799, 862
LmnI	GCTCC	2 cut(s)	31, 580
Lsp1109I	GCAGC	1 cut(s)	116
LweI	GCATC	1 cut(s)	912
MaeI	CTAG	2 cut(s)	144, 938
MaeIII	GTNAC	4 cut(s)	53, 200, 319, 771
MalI	GATC	3 cut(s)	556, 801, 864
MboI	GATC	3 cut(s)	554, 799, 862
MboII	GAAGA	4 cut(s)	701, 709, 811, 845
MfeI	CAATTG	2 cut(s)	909, 989
MflI	RGATCY	1 cut(s)	799
MluCI	AATT	7 cut(s)	288, 380, 526, 783, 909, 989, 998
MlyI	GAGTC	3 cut(s)	92, 197, 923
MseI	TTAA	4 cut(s)	462, 824, 870, 878
MspA1I	CMGCKG	3 cut(s)	442, 713, 952
MspCI	CTTAAG	1 cut(s)	823
MspR9I	CCNGG	2 cut(s)	454, 804
MunI	CAATTG	2 cut(s)	909, 989
Mva1269I	GAATGC	3 cut(s)	153, 234, 379
MvaI	CCWGG	2 cut(s)	454, 804
MwoI	GCNNNNNNNGC	2 cut(s)	31, 518
NdeII	GATC	3 cut(s)	554, 799, 862
NlaIII	CATG	7 cut(s)	170, 245, 483, 664, 728, 749, 779
NlaIV	GGNNCC	2 cut(s)	609, 801
NmeAIII	GCCGAG	1 cut(s)	782
NmuCI	GTSAC	1 cut(s)	200
NspV	TTCGAA	1 cut(s)	982
PagI	TCATGA	1 cut(s)	660
PcsI	WCGNNNNNNNCGW	1 cut(s)	787
PctI	GAATGC	3 cut(s)	153, 234, 379
PfeI	GAWTC	1 cut(s)	749
PflMI	CCANNNNNTGG	1 cut(s)	639
PfoI	TCCNGGA	2 cut(s)	452, 802
PkrI	GCNGC	2 cut(s)	75, 106
PleI	GAGTC	3 cut(s)	91, 197, 922
PpsI	GAGTC	3 cut(s)	91, 197, 922
PpuMI	RGGWCCY	1 cut(s)	608
Psp5II	RGGWCCY	1 cut(s)	608
Psp6I	CCWGG	2 cut(s)	452, 802
PspGI	CCWGG	2 cut(s)	452, 802
PspN4I	GGNNCC	2 cut(s)	609, 801
PspPI	GGNCC	1 cut(s)	608
PspPPI	RGGWCCY	1 cut(s)	608
PsuI	RGATCY	1 cut(s)	799
PvuII	CAGCTG	1 cut(s)	713
RsaI	GTAC	1 cut(s)	171
RsaNI	GTAC	1 cut(s)	170
SaqAI	TTAA	4 cut(s)	462, 824, 870, 878
SatI	GCNGC	2 cut(s)	74, 105
Sau3AI	GATC	3 cut(s)	554, 799, 862
Sau96I	GGNCC	1 cut(s)	608
SchI	GAGTC	3 cut(s)	92, 197, 923
ScrFI	CCNGG	2 cut(s)	454, 804
SfaNI	GCATC	1 cut(s)	912
SfcI	CTRYAG	1 cut(s)	108
SfuI	TTCGAA	1 cut(s)	982
SinI	GGWCC	1 cut(s)	608
SmlI	CTYRAG	1 cut(s)	823
SmoI	CTYRAG	1 cut(s)	823
Sse9I	AATT	7 cut(s)	288, 380, 526, 783, 909, 989, 998
SsiI	CCGC	4 cut(s)	74, 121, 440, 952
SspMI	CTAG	2 cut(s)	144, 938
StyD4I	CCNGG	2 cut(s)	452, 802
StyI	CCWWGG	1 cut(s)	364
TaaI	ACNGT	2 cut(s)	489, 639
TaqI	TCGA	3 cut(s)	346, 781, 982
TasI	AATT	7 cut(s)	288, 380, 526, 783, 909, 989, 998
TatI	WGTACW	1 cut(s)	169
TauI	GCSGC	1 cut(s)	76
TfiI	GAWTC	1 cut(s)	749
Tru1I	TTAA	4 cut(s)	462, 824, 870, 878
Tru9I	TTAA	4 cut(s)	462, 824, 870, 878
TscAI	CASTG	2 cut(s)	193, 432
TseFI	GTSAC	1 cut(s)	200
TseI	GCWGC	1 cut(s)	104
Tsp45I	GTSAC	1 cut(s)	200
TspDTI	ATGAA	9 cut(s)	17, 480, 510, 636, 677, 713, 762, 957, 1020
TspGWI	ACGGA	1 cut(s)	51
TspRI	CASTG	2 cut(s)	193, 432
Van91I	CCANNNNNTGG	1 cut(s)	639
Vha464I	CTTAAG	1 cut(s)	823
VpaK11BI	GGWCC	1 cut(s)	608
XapI	RAATTY	3 cut(s)	380, 526, 998
XbaI	TCTAGA	1 cut(s)	143
XcmI	CCANNNNNNNNNTGG	1 cut(s)	173
XmiI	GTMKAC	1 cut(s)	135
XspI	CTAG	2 cut(s)	144, 938

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