Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0005400

Physical Location & Seq

Genomic Coordinates Reverse (-)

50700509 .. 50702996

Gene Structure 2488 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG255400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGTCGATAGTTGTAAAACTAACTGAAGGAGGTTATGTCTCAGTGAAAAAACTTCCGCTGAAAAAATCCTGGAAGGTTAATGAAAAGCTATTTCCATGCAAACTGTCCAATGAAAAGACCAAGTTAGCTGAGGAAGCTGTGAATTTAGCTGTTGAAACTTGGGGTCAGAGATCATTGACAAAGCTTGAAGCAGAGGAGCGTCTTTCTTATTCTTGCGAAAAGGGACCTGCTTTGGATGAAGTGATAGCCAAACTGTGGAGTGCTTTTTTAGAAATCATGAAAGAATATAAGGGCTACACAAAGGAAGAAAGGAAGAAGGTTGTGTCAGCTGGTGGACTTCATGTTGTCGGGACAAAACGCCATGAATCTCGCCGAGTTGATAATCAGTTACATGGTCGAATTGGACGACAGGGGGATCCTGGAAGTTCACGCTTCTTCTTAAGTCTTGAAGATAACATCTTTCGTATATTTGGTGGAGATCGTATTAAGGGTTTAATGAGAGCTTTTAGAGTTGAGGACTTGCCAATTGAGTCCAAGATGCTGACCAAAGCACTAGATGAAGCTCAGCGGAAAGTGGAAAACTATTTTTTTGATATTCGAAAGCAATTGTTTGAATTTGATGAAGTCCTAAACAGCCAAAGAGACCGTGTGTATATGGAAAGAATGAGAGCCCTTGAATCTAACAATCTGCAATCACTTATAATTGAATATGTTGAACTAACAATGGATGATATCTTAGAGGTAGGTGCCAAGTAG

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

251

Amino Acids

28.99

Weight (kDa)

8.86

Isoelectric Point (pI)

39.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	90 - 173	1.1e-33	SecA P-loop domain
SecA_SW	PF07516	175 - 247	8.7e-22	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)

Image

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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)	701
Acc36I	ACCTGC	1 cut(s)	235
AccB1I	GGYRCC	1 cut(s)	746
AccB7I	CCANNNNNTGG	1 cut(s)	255
AciI	CCGC	2 cut(s)	56, 568
AclWI	GGATC	2 cut(s)	410, 423
AcsI	RAATTY	2 cut(s)	142, 614
AcuI	CTGAAG	1 cut(s)	45
AfiI	CCNNNNNNNGG	1 cut(s)	255
AflII	CTTAAG	1 cut(s)	439
AgsI	TTSAA	7 cut(s)	155, 188, 449, 614, 677, 707, 716
AjnI	CCWGG	2 cut(s)	68, 418
AluBI	AGCT	8 cut(s)	88, 128, 137, 149, 184, 329, 503, 563
AluI	AGCT	8 cut(s)	88, 128, 137, 149, 184, 329, 503, 563
Alw26I	GTCTC	2 cut(s)	43, 636
AlwI	GGATC	2 cut(s)	410, 423
ApoI	RAATTY	2 cut(s)	142, 614
AspS9I	GGNCC	1 cut(s)	224
AsuII	TTCGAA	1 cut(s)	598
AvaII	GGWCC	1 cut(s)	224
BamHI	GGATCC	1 cut(s)	415
BanI	GGYRCC	1 cut(s)	746
BanII	GRGCYC	1 cut(s)	673
BbvCI	CCTCAGC	1 cut(s)	129
BciT130I	CCWGG	2 cut(s)	70, 420
BcoDI	GTCTC	2 cut(s)	43, 636
BfaI	CTAG	1 cut(s)	554
BfrI	CTTAAG	1 cut(s)	439
BfuAI	ACCTGC	1 cut(s)	235
BlpI	GCTNAGC	1 cut(s)	564
Bme1390I	CCNGG	2 cut(s)	70, 420
Bme18I	GGWCC	1 cut(s)	224
BmgT120I	GGNCC	1 cut(s)	224
BmiI	GGNNCC	3 cut(s)	225, 417, 748
BmrFI	CCNGG	2 cut(s)	70, 420
BmsI	GCATC	1 cut(s)	528
Bpu10I	CCTNAGC	1 cut(s)	129
Bpu1102I	GCTNAGC	1 cut(s)	564
Bpu14I	TTCGAA	1 cut(s)	598
BsaI	GGTCTC	1 cut(s)	636
BsaXI	ACNNNNNCTCC	2 cut(s)	21, 51
Bsc4I	CCNNNNNNNGG	1 cut(s)	255
BseBI	CCWGG	2 cut(s)	70, 420
BseGI	GGATG	2 cut(s)	241, 733
BseLI	CCNNNNNNNGG	1 cut(s)	255
BseMII	CTCAG	3 cut(s)	54, 120, 578
BseRI	GAGGAG	1 cut(s)	209
BshNI	GGYRCC	1 cut(s)	746
BslFI	GGGAC	2 cut(s)	237, 364
BslI	CCNNNNNNNGG	1 cut(s)	255
BsmAI	GTCTC	2 cut(s)	43, 636
BsmFI	GGGAC	2 cut(s)	237, 364
Bso31I	GGTCTC	1 cut(s)	636
Bsp119I	TTCGAA	1 cut(s)	598
Bsp1286I	GDGCHC	1 cut(s)	673
Bsp143I	GATC	3 cut(s)	170, 415, 478
Bsp1720I	GCTNAGC	1 cut(s)	564
BspACI	CCGC	2 cut(s)	56, 568
BspCNI	CTCAG	3 cut(s)	53, 121, 577
BspHI	TCATGA	1 cut(s)	276
BspLI	GGNNCC	3 cut(s)	225, 417, 748
BspMI	ACCTGC	1 cut(s)	235
BspPI	GGATC	2 cut(s)	410, 423
BspT104I	TTCGAA	1 cut(s)	598
BspT107I	GGYRCC	1 cut(s)	746
BspTI	CTTAAG	1 cut(s)	439
BspTNI	GGTCTC	1 cut(s)	636
BssMI	GATC	3 cut(s)	170, 415, 478
Bst2UI	CCWGG	2 cut(s)	70, 420
Bst4CI	ACNGT	3 cut(s)	105, 255, 647
BstAFI	CTTAAG	1 cut(s)	439
BstBI	TTCGAA	1 cut(s)	598
BstDEI	CTNAG	4 cut(s)	40, 129, 564, 736
BstF5I	GGATG	2 cut(s)	241, 733
BstKTI	GATC	3 cut(s)	173, 418, 481
BstMAI	GTCTC	2 cut(s)	43, 636
BstMBI	GATC	3 cut(s)	170, 415, 478
BstMWI	GCNNNNNNNGC	1 cut(s)	134
BstNI	CCWGG	2 cut(s)	70, 420
BstSCI	CCNGG	2 cut(s)	68, 418
BstX2I	RGATCY	1 cut(s)	415
BstYI	RGATCY	1 cut(s)	415
BtsCI	GGATG	2 cut(s)	241, 733
BtsIMutI	CAGTG	1 cut(s)	48
BveI	ACCTGC	1 cut(s)	235
CciI	TCATGA	1 cut(s)	276
Cfr13I	GGNCC	1 cut(s)	224
CseI	GACGC	1 cut(s)	188
CviAII	CATG	5 cut(s)	96, 277, 341, 362, 392
DdeI	CTNAG	4 cut(s)	40, 129, 564, 736
DpnI	GATC	3 cut(s)	172, 417, 480
DpnII	GATC	3 cut(s)	170, 415, 478
Eco24I	GRGCYC	1 cut(s)	673
Eco31I	GGTCTC	1 cut(s)	636
Eco32I	GATATC	1 cut(s)	733
Eco47I	GGWCC	1 cut(s)	224
Eco57I	CTGAAG	1 cut(s)	45
EcoO109I	RGGNCCY	1 cut(s)	224
EcoRII	CCWGG	2 cut(s)	68, 418
EcoRV	GATATC	1 cut(s)	733
EcoT38I	GRGCYC	1 cut(s)	673
FaeI	CATG	5 cut(s)	99, 280, 344, 365, 395
FaqI	GGGAC	2 cut(s)	237, 364
FatI	CATG	5 cut(s)	95, 276, 340, 361, 391
FokI	GGATG	2 cut(s)	248, 740
FriOI	GRGCYC	1 cut(s)	673
FspBI	CTAG	1 cut(s)	554
HgaI	GACGC	1 cut(s)	188
Hin1II	CATG	5 cut(s)	99, 280, 344, 365, 395
HindIII	AAGCTT	1 cut(s)	182
HinfI	GANTC	3 cut(s)	365, 530, 677
Hpy166II	GTNNAC	2 cut(s)	335, 428
Hpy188I	TCNGA	1 cut(s)	168
Hpy188III	TCNNGA	3 cut(s)	277, 349, 446
Hpy8I	GTNNAC	2 cut(s)	335, 428
HpyAV	CCTTC	3 cut(s)	20, 67, 310
HpyCH4III	ACNGT	3 cut(s)	105, 255, 647
HpyCH4V	TGCA	2 cut(s)	99, 691
HpyF10VI	GCNNNNNNNGC	1 cut(s)	134
HpyF3I	CTNAG	4 cut(s)	40, 129, 564, 736
Hsp92II	CATG	5 cut(s)	99, 280, 344, 365, 395
Kzo9I	GATC	3 cut(s)	170, 415, 478
LmnI	GCTCC	1 cut(s)	196
LpnPI	CCDG	7 cut(s)	55, 82, 240, 315, 395, 405, 432
LweI	GCATC	1 cut(s)	528
MaeI	CTAG	1 cut(s)	554
MaeIII	GTNAC	1 cut(s)	387
MalI	GATC	3 cut(s)	172, 417, 480
MboI	GATC	3 cut(s)	170, 415, 478
MboII	GAAGA	4 cut(s)	317, 325, 427, 461
MfeI	CAATTG	2 cut(s)	525, 605
MflI	RGATCY	1 cut(s)	415
MhlI	GDGCHC	1 cut(s)	673
MluCI	AATT	6 cut(s)	142, 399, 525, 605, 614, 702
MlyI	GAGTC	1 cut(s)	539
MnlI	CCTC	5 cut(s)	23, 124, 187, 508, 733
MseI	TTAA	4 cut(s)	78, 440, 486, 494
MspA1I	CMGCKG	3 cut(s)	58, 329, 568
MspCI	CTTAAG	1 cut(s)	439
MspR9I	CCNGG	2 cut(s)	70, 420
MunI	CAATTG	2 cut(s)	525, 605
MvaI	CCWGG	2 cut(s)	70, 420
MwoI	GCNNNNNNNGC	1 cut(s)	134
NdeII	GATC	3 cut(s)	170, 415, 478
NlaIII	CATG	5 cut(s)	99, 280, 344, 365, 395
NlaIV	GGNNCC	3 cut(s)	225, 417, 748
NmeAIII	GCCGAG	1 cut(s)	398
NspV	TTCGAA	1 cut(s)	598
PagI	TCATGA	1 cut(s)	276
PcsI	WCGNNNNNNNCGW	1 cut(s)	403
PfeI	GAWTC	2 cut(s)	365, 677
PflMI	CCANNNNNTGG	1 cut(s)	255
PfoI	TCCNGGA	2 cut(s)	68, 418
PleI	GAGTC	1 cut(s)	538
PpsI	GAGTC	1 cut(s)	538
PpuMI	RGGWCCY	1 cut(s)	224
PsiI	TTATAA	1 cut(s)	701
Psp5II	RGGWCCY	1 cut(s)	224
Psp6I	CCWGG	2 cut(s)	68, 418
PspGI	CCWGG	2 cut(s)	68, 418
PspN4I	GGNNCC	3 cut(s)	225, 417, 748
PspPI	GGNCC	1 cut(s)	224
PspPPI	RGGWCCY	1 cut(s)	224
PsuI	RGATCY	1 cut(s)	415
PvuII	CAGCTG	1 cut(s)	329
SaqAI	TTAA	4 cut(s)	78, 440, 486, 494
Sau3AI	GATC	3 cut(s)	170, 415, 478
Sau96I	GGNCC	1 cut(s)	224
SchI	GAGTC	1 cut(s)	539
ScrFI	CCNGG	2 cut(s)	70, 420
SduI	GDGCHC	1 cut(s)	673
SfaNI	GCATC	1 cut(s)	528
SfuI	TTCGAA	1 cut(s)	598
SinI	GGWCC	1 cut(s)	224
SmlI	CTYRAG	1 cut(s)	439
SmoI	CTYRAG	1 cut(s)	439
Sse9I	AATT	6 cut(s)	142, 399, 525, 605, 614, 702
SsiI	CCGC	2 cut(s)	56, 568
SspMI	CTAG	1 cut(s)	554
StyD4I	CCNGG	2 cut(s)	68, 418
TaaI	ACNGT	3 cut(s)	105, 255, 647
TaqI	TCGA	3 cut(s)	5, 397, 598
TasI	AATT	6 cut(s)	142, 399, 525, 605, 614, 702
TfiI	GAWTC	2 cut(s)	365, 677
Tru1I	TTAA	4 cut(s)	78, 440, 486, 494
Tru9I	TTAA	4 cut(s)	78, 440, 486, 494
TscAI	CASTG	1 cut(s)	48
TspDTI	ATGAA	8 cut(s)	96, 126, 252, 293, 329, 378, 573, 636
TspRI	CASTG	1 cut(s)	48
Van91I	CCANNNNNTGG	1 cut(s)	255
Vha464I	CTTAAG	1 cut(s)	439
VpaK11BI	GGWCC	1 cut(s)	224
XapI	RAATTY	2 cut(s)	142, 614
XspI	CTAG	1 cut(s)	554

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