Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000831

Physical Location & Seq

Genomic Coordinates Forward (+)

47350503 .. 47374909

Gene Structure 24407 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG320000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGAATGATGTTGACAATGTTATTATGGATGAGTTGGACTTAGAAGCTGCAAGAAATACAGTAAGTGACATTGATGAATGGTTTGTGTATAATGAAGAATATAATAATGAGTCTGGTGCATTGAATGAAGAAGTGATGGCAGCTCCAAATTTGGACAATGTTGTACCACCAGTTAATAATATTGCAGAAGTAAATGAGGAGGAAAATCATGTGCAGCAGCGGTTAGAAGATGACCAGATTAATATTCCAGTACCACCACCACCACAACACCAGGAACCAGTAGTGCAGTTGAGGAGATCTCAAAGAGATGAGTTTGATGTAGTTTTCAGGGCAACTAAAGGTAAATGGCGGGCAGTTGTAGTAGAGATTTCTAGAATGCACAAAACAATTCGCCCTGTACTTGTTGGCACAACTAGTGTTGAGCAGAGTGACTCATTGTCTGAGCAGTTGCAAGAAGTTGGCATTCCCCATGAGGTTAATGAAAAGCTATTTCCATGTAAACTGTTCAATGAAAAGACCAAGTTAGCTGAGGAAGCTGTGAATTTAGCTGCTGAAACTTGGGGTCAGAGATCATTGACGGAGCTAGAAGCAGAGGAGCGTCTTTCTTACTCTTGCGAAAAGGTAAGAAGGGATTTGAGGCTTTTACAATCAACTATTCAGAATTGCATTGCTTGA

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

224

Amino Acids

25.65

Weight (kDa)

4.52

Isoelectric Point (pI)

62.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	101 - 159	1.2e-15	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: OG0000831)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G11980
fragaria_vesca	FvH4_5g01080 FvH4_5g01080 FvH4_5g01080 FvH4_5g01080 FvH4_5g01080
malus_domestica	MD04G1073000.v1.1
prunus_persica	Prupe.5G084800_v2.0.a1 Prupe.5G084800_v2.0.a1 Prupe.5G084800_v2.0.a1
pyrus_communis	pycom04g06610
rosa_chinensis	RchiOBHm_Chr0c37g0502981 RchiOBHm_Chr1g0341841 RchiOBHm_Chr2g0125491 RchiOBHm_Chr4g0403961 RchiOBHm_Chr4g0425481 RchiOBHm_Chr6g0265101 RchiOBHm_Chr6g0265181 RchiOBHm_Chr7g0200241
rosa_laevigata	RLG00000001516 RLG00000002981 RLG00000003741 RLG00000013747 RLG00000016807
rosa_multiflora	Rmu_sc0003776.1_g000038 Rmu_sc0006398.1_g000015 Rmu_sc0019284.1_g000002
rosa_roxburghii	Rroxscaffold_3G00233480 Rroxscaffold_3G00233540 Rroxscaffold_3G00256200 Rroxscaffold_5G00387730 Rroxscaffold_6G00396100
rosa_rugosa	Rorug01G0208200 Rorug01G0280900 Rorug01G0418600 Rorug02G0279000 Rorug04G0081200 Rorug05G0323800 Rorug05G0574400 Rorug07G0058700
rosa_samantha	Rh1AG260600 Rh1BG135400 Rh1BG136300 Rh1CG070000 Rh1DG074600 Rh2AG365800 Rh2AG365900 Rh2BG539700 Rh3BG097600 Rh4AG421000 Rh4BG432900 Rh5AG197000 Rh5AG320000 Rh5BG196900 Rh5CG106200 Rh6AG247800 Rh6BG133700 Rh6CG132200 Rh6CG525100 Rh6DG119400 Rh7AG144000 Rh7AG184200 Rh7AG200500 Rh7BG186900 Rh7CG194600 Rh7DG188300
rosa_wichuraiana	Rw5G029930 Rw7G016120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	220, 349
AcsI	RAATTY	2 cut(s)	148, 541
AfaI	GTAC	3 cut(s)	165, 252, 399
AgsI	TTSAA	2 cut(s)	124, 508
AhdI	GACNNNNNGTC	1 cut(s)	436
AhlI	ACTAGT	1 cut(s)	413
AjnI	CCWGG	1 cut(s)	270
AluBI	AGCT	7 cut(s)	47, 143, 487, 527, 536, 548, 583
AluI	AGCT	7 cut(s)	47, 143, 487, 527, 536, 548, 583
ApeKI	GCWGC	5 cut(s)	47, 140, 214, 217, 548
ApoI	RAATTY	2 cut(s)	148, 541
AseI	ATTAAT	1 cut(s)	240
BbvCI	CCTCAGC	1 cut(s)	528
BbvI	GCAGC	5 cut(s)	34, 152, 226, 229, 535
BccI	CCATC	1 cut(s)	130
BciT130I	CCWGG	1 cut(s)	272
BcuI	ACTAGT	1 cut(s)	413
BfaI	CTAG	3 cut(s)	372, 414, 584
BglII	AGATCT	1 cut(s)	296
BisI	GCNGC	5 cut(s)	48, 141, 215, 218, 549
BlsI	GCNGC	5 cut(s)	49, 142, 216, 219, 550
Bme1390I	CCNGG	1 cut(s)	272
BmeRI	GACNNNNNGTC	1 cut(s)	436
BmiI	GGNNCC	1 cut(s)	276
BmrFI	CCNGG	1 cut(s)	272
BplI	GAGNNNNNCTC	2 cut(s)	283, 315
Bpu10I	CCTNAGC	1 cut(s)	528
Bse1I	ACTGG	3 cut(s)	170, 248, 278
Bse3DI	GCAATG	1 cut(s)	666
BseBI	CCWGG	1 cut(s)	272
BseGI	GGATG	1 cut(s)	34
BseMI	GCAATG	1 cut(s)	666
BseMII	CTCAG	2 cut(s)	432, 519
BseNI	ACTGG	3 cut(s)	170, 248, 278
BseRI	GAGGAG	3 cut(s)	212, 307, 608
BseXI	GCAGC	5 cut(s)	34, 152, 226, 229, 535
BsgI	GTGCAG	2 cut(s)	233, 305
BsmI	GAATGC	2 cut(s)	381, 462
Bsp143I	GATC	2 cut(s)	296, 569
BspACI	CCGC	2 cut(s)	220, 349
BspCNI	CTCAG	2 cut(s)	433, 520
BspLI	GGNNCC	1 cut(s)	276
BsrDI	GCAATG	1 cut(s)	666
BsrI	ACTGG	3 cut(s)	170, 248, 278
BssMI	GATC	2 cut(s)	296, 569
Bst2UI	CCWGG	1 cut(s)	272
Bst4CI	ACNGT	2 cut(s)	61, 504
BstC8I	GCNNGC	1 cut(s)	351
BstDEI	CTNAG	3 cut(s)	40, 441, 528
BstF5I	GGATG	1 cut(s)	34
BstKTI	GATC	2 cut(s)	299, 572
BstMBI	GATC	2 cut(s)	296, 569
BstMWI	GCNNNNNNNGC	1 cut(s)	533
BstNI	CCWGG	1 cut(s)	272
BstSCI	CCNGG	1 cut(s)	270
BstV1I	GCAGC	5 cut(s)	34, 152, 226, 229, 535
BstX2I	RGATCY	1 cut(s)	296
BstYI	RGATCY	1 cut(s)	296
BtsCI	GGATG	1 cut(s)	34
Cac8I	GCNNGC	1 cut(s)	351
CseI	GACGC	1 cut(s)	587
Csp6I	GTAC	3 cut(s)	164, 251, 398
CviAII	CATG	3 cut(s)	209, 470, 495
CviJI	RGCY	8 cut(s)	47, 143, 487, 527, 536, 548, 583, 640
CviKI_1	RGCY	8 cut(s)	47, 143, 487, 527, 536, 548, 583, 640
CviQI	GTAC	3 cut(s)	164, 251, 398
DdeI	CTNAG	3 cut(s)	40, 441, 528
DpnI	GATC	2 cut(s)	298, 571
DpnII	GATC	2 cut(s)	296, 569
DriI	GACNNNNNGTC	1 cut(s)	436
Eam1105I	GACNNNNNGTC	1 cut(s)	436
EcoRII	CCWGG	1 cut(s)	270
FaeI	CATG	3 cut(s)	212, 473, 498
FaiI	YATR	6 cut(s)	26, 90, 102, 210, 471, 496
FatI	CATG	3 cut(s)	208, 469, 494
FauI	CCCGC	1 cut(s)	342
Fnu4HI	GCNGC	5 cut(s)	48, 141, 215, 218, 549
FokI	GGATG	1 cut(s)	41
Fsp4HI	GCNGC	5 cut(s)	48, 141, 215, 218, 549
FspBI	CTAG	3 cut(s)	372, 414, 584
GluI	GCNGC	5 cut(s)	48, 141, 215, 218, 549
HgaI	GACGC	1 cut(s)	587
Hin1II	CATG	3 cut(s)	212, 473, 498
HincII	GTYRAC	1 cut(s)	13
HindII	GTYRAC	1 cut(s)	13
HinfI	GANTC	2 cut(s)	110, 431
Hpy166II	GTNNAC	2 cut(s)	13, 500
Hpy188I	TCNGA	3 cut(s)	442, 567, 660
Hpy188III	TCNNGA	1 cut(s)	372
Hpy8I	GTNNAC	2 cut(s)	13, 500
HpyAV	CCTTC	1 cut(s)	621
HpyCH4III	ACNGT	2 cut(s)	61, 504
HpyCH4V	TGCA	8 cut(s)	50, 119, 185, 214, 286, 379, 451, 666
HpyF10VI	GCNNNNNNNGC	1 cut(s)	533
HpyF3I	CTNAG	3 cut(s)	40, 441, 528
Hsp92II	CATG	3 cut(s)	212, 473, 498
Kzo9I	GATC	2 cut(s)	296, 569
LmnI	GCTCC	3 cut(s)	148, 580, 595
LpnPI	CCDG	9 cut(s)	99, 183, 248, 257, 261, 284, 291, 313, 408
Lsp1109I	GCAGC	5 cut(s)	34, 152, 226, 229, 535
MaeI	CTAG	3 cut(s)	372, 414, 584
MaeIII	GTNAC	2 cut(s)	65, 428
MalI	GATC	2 cut(s)	298, 571
MboI	GATC	2 cut(s)	296, 569
MboII	GAAGA	3 cut(s)	107, 140, 239
MflI	RGATCY	1 cut(s)	296
MluCI	AATT	4 cut(s)	148, 387, 541, 661
MlyI	GAGTC	2 cut(s)	119, 425
MmeI	TCCRAC	1 cut(s)	15
MnlI	CCTC	7 cut(s)	190, 193, 285, 466, 523, 586, 630
MseI	TTAA	3 cut(s)	174, 240, 477
MspA1I	CMGCKG	1 cut(s)	220
MspR9I	CCNGG	1 cut(s)	272
Mva1269I	GAATGC	2 cut(s)	381, 462
MvaI	CCWGG	1 cut(s)	272
MwoI	GCNNNNNNNGC	1 cut(s)	533
NdeII	GATC	2 cut(s)	296, 569
NlaIII	CATG	3 cut(s)	212, 473, 498
NlaIV	GGNNCC	1 cut(s)	276
NmuCI	GTSAC	2 cut(s)	65, 428
PctI	GAATGC	2 cut(s)	381, 462
PkrI	GCNGC	5 cut(s)	49, 142, 216, 219, 550
PleI	GAGTC	2 cut(s)	118, 425
PpsI	GAGTC	2 cut(s)	118, 425
PshBI	ATTAAT	1 cut(s)	240
Psp6I	CCWGG	1 cut(s)	270
PspGI	CCWGG	1 cut(s)	270
PspN4I	GGNNCC	1 cut(s)	276
PsuI	RGATCY	1 cut(s)	296
RsaI	GTAC	3 cut(s)	165, 252, 399
RsaNI	GTAC	3 cut(s)	164, 251, 398
SaqAI	TTAA	3 cut(s)	174, 240, 477
SatI	GCNGC	5 cut(s)	48, 141, 215, 218, 549
Sau3AI	GATC	2 cut(s)	296, 569
SchI	GAGTC	2 cut(s)	119, 425
ScrFI	CCNGG	1 cut(s)	272
SpeI	ACTAGT	1 cut(s)	413
Sse9I	AATT	4 cut(s)	148, 387, 541, 661
SsiI	CCGC	2 cut(s)	220, 349
SspI	AATATT	2 cut(s)	181, 244
SspMI	CTAG	3 cut(s)	372, 414, 584
StyD4I	CCNGG	1 cut(s)	270
TaaI	ACNGT	2 cut(s)	61, 504
TasI	AATT	4 cut(s)	148, 387, 541, 661
TatI	WGTACW	1 cut(s)	397
Tru1I	TTAA	3 cut(s)	174, 240, 477
Tru9I	TTAA	3 cut(s)	174, 240, 477
TseFI	GTSAC	2 cut(s)	65, 428
TseI	GCWGC	5 cut(s)	47, 140, 214, 217, 548
Tsp45I	GTSAC	2 cut(s)	65, 428
TspDTI	ATGAA	6 cut(s)	17, 90, 108, 141, 495, 525
TspGWI	ACGGA	1 cut(s)	593
VspI	ATTAAT	1 cut(s)	240
XapI	RAATTY	2 cut(s)	148, 541
XbaI	TCTAGA	1 cut(s)	371
XspI	CTAG	3 cut(s)	372, 414, 584

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