Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001331

Physical Location & Seq

Genomic Coordinates Reverse (-)

15343943 .. 15351200

Gene Structure 7258 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG088800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 560 bp

ATGTTGGAACCCATCAAGGCAATGTTTACCTATATACTAAAGTTGGATACTGATGTTGGAACCCATCATGCTCAACTTTCCATATACAAGCTTAAAGTTAAAATTGTCCCCACAAACAAGCCTATGATACGAAAGGATGGGTCTGATGTAGTTTTCAGGGAAACTAAAGGTAAATGGCAGGCAGTTGTAGTAGAGATTTCTAGAATGCACAAAATAGGTCACCCTGTACTTAAGTTGGCACAACTAGTGTTGAGCAGAGTGACTCATTGTCTGAGCAGTTGCAAGAAGTTGGCATTCCCCATGAGAGTTGTAAAACTAACTGAAGGAGGTTATTTCTCAGTGAAAAAACTTCCGCCGAAAAAGTCCTGGAAGGTTAATGAAAAGCTATTTCCATGCAAACTGACCAATGAAAAGACCAAGTTGGCTGAGGAAGCTGTGAATTTAGTTGTTGAAACTTGGGGTCAGAGATCATTGACGGAGCTTGAAGCTAGCAGAGGAGAGTATTTCTTATTCTTGCGAAAAGGTTTTAGAGTGATAGTTCAAAGCTCCCGTTCTCTTCT

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

186

Amino Acids

21.28

Weight (kDa)

10.01

Isoelectric Point (pI)

27.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	41 - 77	2.6e-06	SecA P-loop domain

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: OG0001331)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G00990 AT4G00990
fragaria_vesca	FvH4_7g31570 FvH4_7g31570 FvH4_7g31570 FvH4_7g31570 FvH4_7g31570 FvH4_7g31570
malus_domestica	MD01G1218500.v1.1
prunus_persica	Prupe.2G309900_v2.0.a1 Prupe.2G309900_v2.0.a1 Prupe.4G196700_v2.0.a1
pyrus_communis	pycom01g22840
rosa_chinensis	RchiOBHm_Chr1g0380571 RchiOBHm_Chr2g0102041
rosa_laevigata	RLG00000001517 RLG00000003267 RLG00000004936 RLG00000008941 RLG00000021775 RLG00000023713 RLG00000026284 RLG00000035166
rosa_multiflora	Rmu_co8145792.1_g000001 Rmu_co8424905.1_g000001 Rmu_co8458399.1_g000001 Rmu_sc0002486.1_g000005 Rmu_sc0003730.1_g000009 Rmu_sc0011739.1_g000001 Rmu_ssc0000015.1_g000010
rosa_roxburghii	Rroxscaffold_2G00097880 Rroxscaffold_4G00279180 Rroxscaffold_4G00279190 Rroxscaffold_6G00388540
rosa_rugosa	Rorug01G0422600
rosa_samantha	Rh1AG447100 Rh1BG202200 Rh1BG402400 Rh1CG416600 Rh1CG416700 Rh1CG416800 Rh1CG416900 Rh1DG432600 Rh2CG116900 Rh2CG157700 Rh2CG157800 Rh2CG241900 Rh4BG088800 Rh4BG088900 Rh5BG519200 Rh5CG542800 Rh5DG400800
rosa_wichuraiana	Rw1G038890 Rw5G046210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	353
AcsI	RAATTY	1 cut(s)	439
AcuI	CTGAAG	1 cut(s)	342
AfaI	GTAC	1 cut(s)	228
AflII	CTTAAG	1 cut(s)	230
AgsI	TTSAA	3 cut(s)	452, 485, 542
AhdI	GACNNNNNGTC	1 cut(s)	267
AhlI	ACTAGT	1 cut(s)	244
AjnI	CCWGG	1 cut(s)	365
AluBI	AGCT	6 cut(s)	91, 385, 434, 481, 488, 546
AluI	AGCT	6 cut(s)	91, 385, 434, 481, 488, 546
ApoI	RAATTY	1 cut(s)	439
AsuHPI	GGTGA	1 cut(s)	212
AsuNHI	GCTAGC	1 cut(s)	488
BaeI	ACNNNNGTAYC	2 cut(s)	39, 72
BbvCI	CCTCAGC	1 cut(s)	426
BccI	CCATC	3 cut(s)	20, 72, 131
BciT130I	CCWGG	1 cut(s)	367
BciVI	GTATCC	1 cut(s)	40
BcuI	ACTAGT	1 cut(s)	244
BfaI	CTAG	3 cut(s)	201, 245, 489
BfrI	CTTAAG	1 cut(s)	230
BfuI	GTATCC	1 cut(s)	40
Bme1390I	CCNGG	1 cut(s)	367
BmeRI	GACNNNNNGTC	1 cut(s)	267
BmiI	GGNNCC	2 cut(s)	9, 61
BmrFI	CCNGG	1 cut(s)	367
BmtI	GCTAGC	1 cut(s)	492
Bpu10I	CCTNAGC	1 cut(s)	426
Bse3DI	GCAATG	1 cut(s)	27
BseBI	CCWGG	1 cut(s)	367
BseGI	GGATG	1 cut(s)	142
BseMI	GCAATG	1 cut(s)	27
BseMII	CTCAG	3 cut(s)	263, 351, 417
BseRI	GAGGAG	1 cut(s)	510
BslFI	GGGAC	1 cut(s)	92
BsmFI	GGGAC	1 cut(s)	92
BsmI	GAATGC	2 cut(s)	210, 293
Bsp143I	GATC	1 cut(s)	467
BspACI	CCGC	1 cut(s)	353
BspCNI	CTCAG	3 cut(s)	264, 350, 418
BspLI	GGNNCC	2 cut(s)	9, 61
BspOI	GCTAGC	1 cut(s)	492
BspTI	CTTAAG	1 cut(s)	230
BsrDI	GCAATG	1 cut(s)	27
BssMI	GATC	1 cut(s)	467
Bst2UI	CCWGG	1 cut(s)	367
BstAFI	CTTAAG	1 cut(s)	230
BstC8I	GCNNGC	2 cut(s)	180, 490
BstDEI	CTNAG	3 cut(s)	272, 337, 426
BstEII	GGTNACC	1 cut(s)	218
BstF5I	GGATG	1 cut(s)	142
BstKTI	GATC	1 cut(s)	470
BstMBI	GATC	1 cut(s)	467
BstMWI	GCNNNNNNNGC	1 cut(s)	431
BstNI	CCWGG	1 cut(s)	367
BstPI	GGTNACC	1 cut(s)	218
BstSCI	CCNGG	1 cut(s)	365
BsuI	GTATCC	1 cut(s)	40
BtsCI	GGATG	1 cut(s)	142
BtsIMutI	CAGTG	1 cut(s)	345
Cac8I	GCNNGC	2 cut(s)	180, 490
Csp6I	GTAC	1 cut(s)	227
CviAII	CATG	3 cut(s)	68, 301, 393
CviJI	RGCY	8 cut(s)	91, 121, 385, 425, 434, 481, 488, 546
CviKI_1	RGCY	8 cut(s)	91, 121, 385, 425, 434, 481, 488, 546
CviQI	GTAC	1 cut(s)	227
DdeI	CTNAG	3 cut(s)	272, 337, 426
DpnI	GATC	1 cut(s)	469
DpnII	GATC	1 cut(s)	467
DriI	GACNNNNNGTC	1 cut(s)	267
Eam1105I	GACNNNNNGTC	1 cut(s)	267
EciI	GGCGGA	1 cut(s)	342
Eco57I	CTGAAG	1 cut(s)	342
Eco91I	GGTNACC	1 cut(s)	218
EcoO65I	GGTNACC	1 cut(s)	218
EcoRII	CCWGG	1 cut(s)	365
FaeI	CATG	3 cut(s)	71, 304, 396
FaiI	YATR	8 cut(s)	33, 35, 69, 83, 85, 125, 302, 394
FaqI	GGGAC	1 cut(s)	92
FatI	CATG	3 cut(s)	67, 300, 392
FokI	GGATG	1 cut(s)	149
FspBI	CTAG	3 cut(s)	201, 245, 489
Hin1II	CATG	3 cut(s)	71, 304, 396
HindIII	AAGCTT	1 cut(s)	89
HinfI	GANTC	1 cut(s)	262
HphI	GGTGA	1 cut(s)	212
Hpy166II	GTNNAC	1 cut(s)	27
Hpy188I	TCNGA	3 cut(s)	145, 273, 465
Hpy188III	TCNNGA	1 cut(s)	201
Hpy8I	GTNNAC	1 cut(s)	27
HpyAV	CCTTC	2 cut(s)	317, 364
HpyCH4V	TGCA	3 cut(s)	208, 282, 396
HpyF10VI	GCNNNNNNNGC	1 cut(s)	431
HpyF3I	CTNAG	3 cut(s)	272, 337, 426
Hsp92II	CATG	3 cut(s)	71, 304, 396
Kzo9I	GATC	1 cut(s)	467
LmnI	GCTCC	2 cut(s)	478, 551
LpnPI	CCDG	5 cut(s)	142, 164, 237, 352, 379
MaeI	CTAG	3 cut(s)	201, 245, 489
MaeIII	GTNAC	2 cut(s)	218, 259
MalI	GATC	1 cut(s)	469
MboI	GATC	1 cut(s)	467
MboII	GAAGA	1 cut(s)	548
MluCI	AATT	2 cut(s)	102, 439
MlyI	GAGTC	1 cut(s)	256
MmeI	TCCRAC	2 cut(s)	24, 37
MnlI	CCTC	3 cut(s)	320, 421, 488
MseI	TTAA	4 cut(s)	93, 99, 231, 375
MspCI	CTTAAG	1 cut(s)	230
MspR9I	CCNGG	1 cut(s)	367
Mva1269I	GAATGC	2 cut(s)	210, 293
MvaI	CCWGG	1 cut(s)	367
MwoI	GCNNNNNNNGC	1 cut(s)	431
NdeII	GATC	1 cut(s)	467
NheI	GCTAGC	1 cut(s)	488
NlaIII	CATG	3 cut(s)	71, 304, 396
NlaIV	GGNNCC	2 cut(s)	9, 61
NmuCI	GTSAC	2 cut(s)	218, 259
PctI	GAATGC	2 cut(s)	210, 293
PfoI	TCCNGGA	1 cut(s)	365
PleI	GAGTC	1 cut(s)	256
PpsI	GAGTC	1 cut(s)	256
Psp6I	CCWGG	1 cut(s)	365
PspEI	GGTNACC	1 cut(s)	218
PspGI	CCWGG	1 cut(s)	365
PspN4I	GGNNCC	2 cut(s)	9, 61
RsaI	GTAC	1 cut(s)	228
RsaNI	GTAC	1 cut(s)	227
SaqAI	TTAA	4 cut(s)	93, 99, 231, 375
Sau3AI	GATC	1 cut(s)	467
SchI	GAGTC	1 cut(s)	256
ScrFI	CCNGG	1 cut(s)	367
SmlI	CTYRAG	1 cut(s)	230
SmoI	CTYRAG	1 cut(s)	230
SpeI	ACTAGT	1 cut(s)	244
Sse9I	AATT	2 cut(s)	102, 439
SsiI	CCGC	1 cut(s)	353
SspMI	CTAG	3 cut(s)	201, 245, 489
StyD4I	CCNGG	1 cut(s)	365
TasI	AATT	2 cut(s)	102, 439
TatI	WGTACW	1 cut(s)	226
Tru1I	TTAA	4 cut(s)	93, 99, 231, 375
Tru9I	TTAA	4 cut(s)	93, 99, 231, 375
TscAI	CASTG	1 cut(s)	345
TseFI	GTSAC	2 cut(s)	218, 259
Tsp45I	GTSAC	2 cut(s)	218, 259
TspDTI	ATGAA	2 cut(s)	393, 423
TspGWI	ACGGA	1 cut(s)	491
TspRI	CASTG	1 cut(s)	345
Vha464I	CTTAAG	1 cut(s)	230
XapI	RAATTY	1 cut(s)	439
XbaI	TCTAGA	1 cut(s)	200
XspI	CTAG	3 cut(s)	201, 245, 489

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