Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0005400

Physical Location & Seq

Genomic Coordinates Reverse (-)

30927663 .. 30930620

Gene Structure 2958 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG306200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1377 bp

ATGGCAGGTCGAGGAACAGACATAATCCTTGGTGGGAATGCAGAATTTATGGCAAGGTTGAAGCTGCGTGAGATGCTTATGCCAAGAGTTGTAAAACTAACTGAAGGAGGTTACGTCTCAGTGAAAAAACTTCCGCCGAAAAAGTCCTGGAAGGTTAATGAAAAGCTATTTCCATGCAAACTGTCCAATGAAAAGACCAAGTTAGCTGAGGAAGCTGTGAATTTAGCTGTTGAAACTTGGGGTCAGAGATCATTGACGGAGCTTGAAGCAGAGGAGCGTCTTTCTTATTCTTGCGAAAAGGGACCTGCTTTGGATGAAGTGATAGCCAAACTGCGGAGTGCTTTTTTAGAAATCATGAAAGAATATAAGGGCTACACAGAGGAAGAAAGGAAGAAGGTTGTGTCAGCTGGTGGGCTTCATGTTGTCGGGACAGAACGCCATGAATCTCGCCGAGTTGATAATCAGTTACGTGGTCGAACTGGACGGCAGGGGGATCCTGGAAGTTCACGCTTCTTCTTAAGTCTTGAAGATAACATCTTTCGTATATTTGGTGGAGATCGTATTCAGGGTTTAATGAGAGCTTTTAGAGTCGAGGACTTGCCAATTGAGTCCAAGATGCTGACCAAAGCACTAGATGAAGCTCAGCGGAAAGTGGAAAACTATTTTTTCGATATTCGAAAGCAATTGTTTGAATTTGATGAAGTCCTAAACAGCCAAAGAGACCGTGTGTATACGGAAAGAAGGAGAGCCCTTGAATCTGACAATCTGCAATCACTTATAATTGAATATGCTGAACTAACAATGGATGATATCTTAGAGGCAAATATTGGTTCAGAGTCTTCAAAAGAAAGCTGGGATCTTGATAAGCTCATCAAGAAACTTCAACAATATTGCTATCTATTGAATGATTTGACGCCGGATGTGCTGAGGAGCGAATGTTCAAGTTATGAAGATTTGCAGGACTACCTCCGTCTTCGAGGTCGTGAAGCATATTTGCAGAAAAGGACTATTATCGAGAGCCAGGCACCGGGCTTGATGAAGGACGCTGAACGGTTCTTAGTTTTAAACAATATTGACCGATTGTGGAAGGAGCACTTACAAGCACTCAAGTTCGTTCAGCAAGCTGTTGGTTTGCGTGGGTACGCACAGCGGGATCCACTTATTGAATATAAGCTTGAAGGCTACAATCTTTTCTTGGACATGATGGCACAGATAAGAAGAAATGTTATATATTCCATATACCAGTTTCAACCTGTGATGGTAAAGAAGGATGGGGACCAAAGAGAGAATAAGAAATCAGGAAAACTTGTCACTAATGGTAGCGGTAATGGTAACCCCAATTCAGTTGGCAGTGTTGAGTCTTCTTCAGCAGCTTAG

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

458

Amino Acids

52.63

Weight (kDa)

8.1

Isoelectric Point (pI)

49.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	1 - 199	4.4e-42	SecA P-loop domain
SecA_SW	PF07516	201 - 417	5.7e-57	SecA Wing and Scaffold 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: 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)
AanI	TTATAA	1 cut(s)	779
Acc36I	ACCTGC	1 cut(s)	313
AccB1I	GGYRCC	1 cut(s)	1024
AccI	GTMKAC	1 cut(s)	731
AciI	CCGC	5 cut(s)	134, 334, 646, 1150, 1323
AclWI	GGATC	5 cut(s)	488, 501, 864, 1148, 1161
AcsI	RAATTY	3 cut(s)	44, 220, 692
AcuI	CTGAAG	2 cut(s)	123, 1350
AcyI	GRCGYC	1 cut(s)	914
AfaI	GTAC	1 cut(s)	1142
AfiI	CCNNNNNNNGG	2 cut(s)	333, 1027
AflII	CTTAAG	1 cut(s)	517
AjnI	CCWGG	3 cut(s)	146, 496, 1020
AloI	GAACNNNNNNTCC	2 cut(s)	922, 954
Alw21I	GWGCWC	1 cut(s)	1095
Alw26I	GTCTC	2 cut(s)	121, 714
AlwI	GGATC	5 cut(s)	488, 501, 864, 1148, 1161
ApeKI	GCWGC	2 cut(s)	64, 1370
ApoI	RAATTY	3 cut(s)	44, 220, 692
AspS9I	GGNCC	2 cut(s)	302, 1276
AsuC2I	CCSGG	1 cut(s)	1029
AsuII	TTCGAA	1 cut(s)	676
AvaII	GGWCC	2 cut(s)	302, 1276
BamHI	GGATCC	2 cut(s)	493, 1153
BanI	GGYRCC	1 cut(s)	1024
BanII	GRGCYC	1 cut(s)	751
BbsI	GAAGAC	3 cut(s)	831, 965, 1353
Bbv12I	GWGCWC	1 cut(s)	1095
BbvCI	CCTCAGC	2 cut(s)	207, 926
BbvI	GCAGC	1 cut(s)	51
BccI	CCATC	3 cut(s)	1198, 1252, 1265
BceAI	ACGGC	1 cut(s)	500
BciT130I	CCWGG	3 cut(s)	148, 498, 1022
BcnI	CCSGG	1 cut(s)	1029
BcoDI	GTCTC	2 cut(s)	121, 714
BfaI	CTAG	1 cut(s)	632
BfrI	CTTAAG	1 cut(s)	517
BfuAI	ACCTGC	1 cut(s)	313
BisI	GCNGC	2 cut(s)	65, 1371
BlpI	GCTNAGC	1 cut(s)	642
BlsI	GCNGC	2 cut(s)	66, 1372
Bme1390I	CCNGG	4 cut(s)	148, 498, 1022, 1029
Bme18I	GGWCC	2 cut(s)	302, 1276
BmgT120I	GGNCC	2 cut(s)	302, 1276
BmiI	GGNNCC	5 cut(s)	303, 495, 1026, 1155, 1277
BmrFI	CCNGG	4 cut(s)	148, 498, 1022, 1029
BmsI	GCATC	2 cut(s)	63, 606
BpiI	GAAGAC	3 cut(s)	831, 965, 1353
Bpu10I	CCTNAGC	2 cut(s)	207, 926
Bpu1102I	GCTNAGC	1 cut(s)	642
Bpu14I	TTCGAA	1 cut(s)	676
BpuEI	CTTGAG	1 cut(s)	1091
BpuMI	CCSGG	1 cut(s)	1029
BsaAI	YACGTR	1 cut(s)	470
BsaHI	GRCGYC	1 cut(s)	914
BsaI	GGTCTC	1 cut(s)	714
BsaJI	CCNNGG	1 cut(s)	28
BsaXI	ACNNNNNCTCC	4 cut(s)	99, 129, 922, 952
Bsc4I	CCNNNNNNNGG	2 cut(s)	333, 1027
Bse1I	ACTGG	2 cut(s)	484, 1243
BseBI	CCWGG	3 cut(s)	148, 498, 1022
BseDI	CCNNGG	1 cut(s)	28
BseGI	GGATG	4 cut(s)	319, 811, 925, 1276
BseLI	CCNNNNNNNGG	2 cut(s)	333, 1027
BseMII	CTCAG	4 cut(s)	132, 198, 656, 917
BseNI	ACTGG	2 cut(s)	484, 1243
BseRI	GAGGAG	2 cut(s)	287, 943
BseXI	GCAGC	1 cut(s)	51
BseYI	CCCAGC	1 cut(s)	852
BshNI	GGYRCC	1 cut(s)	1024
BsiHKAI	GWGCWC	1 cut(s)	1095
BsiSI	CCGG	2 cut(s)	917, 1028
BslFI	GGGAC	3 cut(s)	315, 442, 1289
BslI	CCNNNNNNNGG	2 cut(s)	333, 1027
BsmAI	GTCTC	2 cut(s)	121, 714
BsmBI	CGTCTC	1 cut(s)	121
BsmFI	GGGAC	3 cut(s)	315, 442, 1289
BsmI	GAATGC	1 cut(s)	43
Bso31I	GGTCTC	1 cut(s)	714
Bsp119I	TTCGAA	1 cut(s)	676
Bsp1286I	GDGCHC	2 cut(s)	751, 1095
Bsp143I	GATC	5 cut(s)	248, 493, 556, 856, 1153
Bsp1720I	GCTNAGC	1 cut(s)	642
BspACI	CCGC	5 cut(s)	134, 334, 646, 1150, 1323
BspCNI	CTCAG	4 cut(s)	131, 199, 655, 918
BspHI	TCATGA	1 cut(s)	354
BspLI	GGNNCC	5 cut(s)	303, 495, 1026, 1155, 1277
BspMI	ACCTGC	1 cut(s)	313
BspPI	GGATC	5 cut(s)	488, 501, 864, 1148, 1161
BspT104I	TTCGAA	1 cut(s)	676
BspT107I	GGYRCC	1 cut(s)	1024
BspTI	CTTAAG	1 cut(s)	517
BspTNI	GGTCTC	1 cut(s)	714
BsrI	ACTGG	2 cut(s)	484, 1243
BssECI	CCNNGG	1 cut(s)	28
BssMI	GATC	5 cut(s)	248, 493, 556, 856, 1153
BssNAI	GTATAC	1 cut(s)	732
BssNI	GRCGYC	1 cut(s)	914
BssT1I	CCWWGG	1 cut(s)	28
Bst1107I	GTATAC	1 cut(s)	732
Bst2UI	CCWGG	3 cut(s)	148, 498, 1022
Bst4CI	ACNGT	3 cut(s)	183, 725, 1053
BstACI	GRCGYC	1 cut(s)	914
BstAFI	CTTAAG	1 cut(s)	517
BstBAI	YACGTR	1 cut(s)	470
BstBI	TTCGAA	1 cut(s)	676
BstC8I	GCNNGC	1 cut(s)	1122
BstDEI	CTNAG	7 cut(s)	118, 207, 642, 814, 926, 1057, 1374
BstEII	GGTNACC	1 cut(s)	1331
BstF5I	GGATG	4 cut(s)	319, 811, 925, 1276
BstKTI	GATC	5 cut(s)	251, 496, 559, 859, 1156
BstMAI	GTCTC	2 cut(s)	121, 714
BstMBI	GATC	5 cut(s)	248, 493, 556, 856, 1153
BstMWI	GCNNNNNNNGC	3 cut(s)	73, 212, 922
BstNI	CCWGG	3 cut(s)	148, 498, 1022
BstPI	GGTNACC	1 cut(s)	1331
BstSCI	CCNGG	4 cut(s)	146, 496, 1020, 1027
BstV1I	GCAGC	1 cut(s)	51
BstV2I	GAAGAC	3 cut(s)	831, 965, 1353
BstX2I	RGATCY	3 cut(s)	493, 856, 1153
BstYI	RGATCY	3 cut(s)	493, 856, 1153
BstZ17I	GTATAC	1 cut(s)	732
BtsCI	GGATG	4 cut(s)	319, 811, 925, 1276
BtsI	GCAGTG	1 cut(s)	1357
BtsIMutI	CAGTG	2 cut(s)	126, 1357
BveI	ACCTGC	1 cut(s)	313
Cac8I	GCNNGC	1 cut(s)	1122
CciI	TCATGA	1 cut(s)	354
Cfr13I	GGNCC	2 cut(s)	302, 1276
CseI	GACGC	3 cut(s)	266, 922, 1052
Csp6I	GTAC	1 cut(s)	1141
CviAII	CATG	5 cut(s)	174, 355, 419, 440, 1201
CviQI	GTAC	1 cut(s)	1141
DdeI	CTNAG	7 cut(s)	118, 207, 642, 814, 926, 1057, 1374
DpnI	GATC	5 cut(s)	250, 495, 558, 858, 1155
DpnII	GATC	5 cut(s)	248, 493, 556, 856, 1153
DraI	TTTAAA	1 cut(s)	1065
EciI	GGCGGA	1 cut(s)	123
Eco130I	CCWWGG	1 cut(s)	28
Eco24I	GRGCYC	1 cut(s)	751
Eco31I	GGTCTC	1 cut(s)	714
Eco32I	GATATC	1 cut(s)	811
Eco47I	GGWCC	2 cut(s)	302, 1276
Eco57I	CTGAAG	2 cut(s)	123, 1350
Eco91I	GGTNACC	1 cut(s)	1331
EcoO109I	RGGNCCY	1 cut(s)	302
EcoO65I	GGTNACC	1 cut(s)	1331
EcoRII	CCWGG	3 cut(s)	146, 496, 1020
EcoRV	GATATC	1 cut(s)	811
EcoT14I	CCWWGG	1 cut(s)	28
EcoT38I	GRGCYC	1 cut(s)	751
ErhI	CCWWGG	1 cut(s)	28
Esp3I	CGTCTC	1 cut(s)	121
FaeI	CATG	5 cut(s)	177, 358, 422, 443, 1204
FalI	AAGNNNNNCTT	2 cut(s)	1079, 1111
FaqI	GGGAC	3 cut(s)	315, 442, 1289
FatI	CATG	5 cut(s)	173, 354, 418, 439, 1200
FauI	CCCGC	1 cut(s)	1143
FblI	GTMKAC	1 cut(s)	731
Fnu4HI	GCNGC	2 cut(s)	65, 1371
FokI	GGATG	4 cut(s)	326, 818, 932, 1283
FriOI	GRGCYC	1 cut(s)	751
Fsp4HI	GCNGC	2 cut(s)	65, 1371
FspBI	CTAG	1 cut(s)	632
GluI	GCNGC	2 cut(s)	65, 1371
GsaI	CCCAGC	1 cut(s)	856
HapII	CCGG	2 cut(s)	917, 1028
HgaI	GACGC	3 cut(s)	266, 922, 1052
Hin1I	GRCGYC	1 cut(s)	914
Hin1II	CATG	5 cut(s)	177, 358, 422, 443, 1204
HindIII	AAGCTT	1 cut(s)	1172
HinfI	GANTC	6 cut(s)	443, 588, 608, 755, 836, 1358
HpaII	CCGG	2 cut(s)	917, 1028
Hpy166II	GTNNAC	2 cut(s)	506, 732
Hpy188I	TCNGA	3 cut(s)	246, 760, 835
Hpy188III	TCNNGA	8 cut(s)	355, 427, 524, 860, 874, 983, 1015, 1299
Hpy8I	GTNNAC	2 cut(s)	506, 732
HpyAV	CCTTC	8 cut(s)	98, 145, 388, 735, 1033, 1081, 1172, 1261
HpyCH4III	ACNGT	3 cut(s)	183, 725, 1053
HpyCH4IV	ACGT	2 cut(s)	114, 469
HpyCH4V	TGCA	5 cut(s)	41, 177, 769, 958, 997
HpyF10VI	GCNNNNNNNGC	3 cut(s)	73, 212, 922
HpyF3I	CTNAG	7 cut(s)	118, 207, 642, 814, 926, 1057, 1374
HpySE526I	ACGT	2 cut(s)	114, 469
Hsp92I	GRCGYC	1 cut(s)	914
Hsp92II	CATG	5 cut(s)	177, 358, 422, 443, 1204
Kzo9I	GATC	5 cut(s)	248, 493, 556, 856, 1153
LmnI	GCTCC	4 cut(s)	259, 274, 930, 1090
Lsp1109I	GCAGC	1 cut(s)	51
LweI	GCATC	2 cut(s)	63, 606
MaeI	CTAG	1 cut(s)	632
MaeII	ACGT	2 cut(s)	114, 469
MaeIII	GTNAC	4 cut(s)	110, 465, 1309, 1331
MalI	GATC	5 cut(s)	250, 495, 558, 858, 1155
MboI	GATC	5 cut(s)	248, 493, 556, 856, 1153
MfeI	CAATTG	2 cut(s)	603, 683
MflI	RGATCY	3 cut(s)	493, 856, 1153
MhlI	GDGCHC	2 cut(s)	751, 1095
MluCI	AATT	7 cut(s)	44, 220, 603, 683, 692, 780, 1339
MlyI	GAGTC	4 cut(s)	597, 617, 845, 1367
MseI	TTAA	4 cut(s)	156, 518, 572, 1064
MspA1I	CMGCKG	3 cut(s)	407, 646, 1150
MspCI	CTTAAG	1 cut(s)	517
MspI	CCGG	2 cut(s)	917, 1028
MspR9I	CCNGG	4 cut(s)	148, 498, 1022, 1029
MunI	CAATTG	2 cut(s)	603, 683
Mva1269I	GAATGC	1 cut(s)	43
MvaI	CCWGG	3 cut(s)	148, 498, 1022
MwoI	GCNNNNNNNGC	3 cut(s)	73, 212, 922
NciI	CCSGG	1 cut(s)	1029
NdeII	GATC	5 cut(s)	248, 493, 556, 856, 1153
NlaIII	CATG	5 cut(s)	177, 358, 422, 443, 1204
NlaIV	GGNNCC	5 cut(s)	303, 495, 1026, 1155, 1277
NmeAIII	GCCGAG	1 cut(s)	476
NmuCI	GTSAC	1 cut(s)	1309
NspV	TTCGAA	1 cut(s)	676
PagI	TCATGA	1 cut(s)	354
PctI	GAATGC	1 cut(s)	43
PfeI	GAWTC	2 cut(s)	443, 755
PfoI	TCCNGGA	2 cut(s)	146, 496
PkrI	GCNGC	2 cut(s)	66, 1372
PleI	GAGTC	4 cut(s)	596, 616, 844, 1366
PpsI	GAGTC	4 cut(s)	596, 616, 844, 1366
Ppu21I	YACGTR	1 cut(s)	470
PpuMI	RGGWCCY	1 cut(s)	302
PsiI	TTATAA	1 cut(s)	779
Psp5II	RGGWCCY	1 cut(s)	302
Psp6I	CCWGG	3 cut(s)	146, 496, 1020
PspEI	GGTNACC	1 cut(s)	1331
PspFI	CCCAGC	1 cut(s)	852
PspGI	CCWGG	3 cut(s)	146, 496, 1020
PspN4I	GGNNCC	5 cut(s)	303, 495, 1026, 1155, 1277
PspPI	GGNCC	2 cut(s)	302, 1276
PspPPI	RGGWCCY	1 cut(s)	302
PsuI	RGATCY	3 cut(s)	493, 856, 1153
PvuII	CAGCTG	1 cut(s)	407
RsaI	GTAC	1 cut(s)	1142
RsaNI	GTAC	1 cut(s)	1141
SaqAI	TTAA	4 cut(s)	156, 518, 572, 1064
SatI	GCNGC	2 cut(s)	65, 1371
Sau3AI	GATC	5 cut(s)	248, 493, 556, 856, 1153
Sau96I	GGNCC	2 cut(s)	302, 1276
SchI	GAGTC	4 cut(s)	597, 617, 845, 1367
ScrFI	CCNGG	4 cut(s)	148, 498, 1022, 1029
SduI	GDGCHC	2 cut(s)	751, 1095
SfaNI	GCATC	2 cut(s)	63, 606
SfuI	TTCGAA	1 cut(s)	676
SinI	GGWCC	2 cut(s)	302, 1276
SmlI	CTYRAG	2 cut(s)	517, 1106
SmoI	CTYRAG	2 cut(s)	517, 1106
Sse9I	AATT	7 cut(s)	44, 220, 603, 683, 692, 780, 1339
SsiI	CCGC	5 cut(s)	134, 334, 646, 1150, 1323
SspI	AATATT	3 cut(s)	826, 890, 1072
SspMI	CTAG	1 cut(s)	632
StyD4I	CCNGG	4 cut(s)	146, 496, 1020, 1027
StyI	CCWWGG	1 cut(s)	28
TaaI	ACNGT	3 cut(s)	183, 725, 1053
TaiI	ACGT	2 cut(s)	117, 472
TaqI	TCGA	7 cut(s)	10, 475, 591, 669, 676, 976, 1014
TaqII	GACCGA	1 cut(s)	1092
TasI	AATT	7 cut(s)	44, 220, 603, 683, 692, 780, 1339
TfiI	GAWTC	2 cut(s)	443, 755
Tru1I	TTAA	4 cut(s)	156, 518, 572, 1064
Tru9I	TTAA	4 cut(s)	156, 518, 572, 1064
TscAI	CASTG	2 cut(s)	126, 1357
TseFI	GTSAC	1 cut(s)	1309
TseI	GCWGC	2 cut(s)	64, 1370
Tsp45I	GTSAC	1 cut(s)	1309
TspGWI	ACGGA	3 cut(s)	272, 749, 959
TspRI	CASTG	2 cut(s)	126, 1357
Vha464I	CTTAAG	1 cut(s)	517
VpaK11BI	GGWCC	2 cut(s)	302, 1276
XapI	RAATTY	3 cut(s)	44, 220, 692
XmiI	GTMKAC	1 cut(s)	731
XspI	CTAG	1 cut(s)	632

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