Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001671

Physical Location & Seq

Genomic Coordinates Forward (+)

34589175 .. 34605254

Gene Structure 16080 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG173800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 846 bp

ATGGGTTCTGTAGTTCATACGATGAGTTCAGAACTGAAAGGTGCTTATCCGTCCCAGAAATGCCAGTTGGATCCCGAGGATGCAATTCACAGTGCCTCCATGGGTTTTGCAGCTGTTTGTCTTGATTGCACAGTCCTAATTGTTGAGGCAAATGAACTCCAGCTCCAGCCTCGCCTTCGTCCGATTGAGAAGTCTTCAATTTCTGGGCGGAAGCTTTTGACAAACAGCTATTCTGGGTTAGCTCATGAACTCTCTAACAATGCCAAATTCGATAGATTTCCACACCCCGCGAATTTTGGCTCAAGAGCTCTGTCAGTTGATGCTGTTCAAGTTACTAATGGAGATGCAAGCAAAGGAGGGCCACTTGTTGAGTATGAGCGAAGAATTGCTGCGGGCGAACTTGTTGATGGTGATGCCTGCCAGGTAAGCACCTTAACAGAACTTCAAAGGCTATATGATGAACTTGTTCAGTCAGCTGATGCCTGCCGGCTGGATAGATATACAACTTCGAGGAAATCTGGAAGGAGTAGATGGTTGTGGTCTCGTTTCATCCCACAGTCTTCAAATGCCTCCCCTGTTAAAGGTATTTATCTTTATGGAGGAGTGGGAACTGGAAAAACTATGTTGATGGACTTGTTTTTCGATCAACTACAATGCAATTGGAGGAAAAAGAGGATTCATTTTCATGATTTTATGTTGAATGTCCACAGCTGCTTGCGAAAGCACCAGGGTGTAGAAGACCCTCTTGAAGTTGTTGCAGGAGAGATAACTGATGAGGCAGTCTTGTTATGTCTTGATGAATTCATGGTGGTCCAAGTCAGGACTGGAATATTGAATATTGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AFG1_ATPase

Protein Analysis

281

Amino Acids

31.18

Weight (kDa)

6.08

Isoelectric Point (pI)

45.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AFG1_ATPase	PF03969	122 - 271	2.5e-31	AFG1-like ATPase

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: OG0001671)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G28070 AT4G28070 AT4G30490
fragaria_vesca	FvH4_4g08720 FvH4_4g08720
malus_domestica	MD13G1275200.v1.1 MD16G1260700.v1.1
prunus_persica	Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1 Prupe.1G100000_v2.0.a1
pyrus_communis	pycom13g28650 pycom16g22820
rosa_chinensis	RchiOBHm_Chr2g0167931 RchiOBHm_Chr4g0405201 RchiOBHm_Chr6g0283891
rosa_laevigata	RLG00000008864
rosa_multiflora	Rmu_sc0000555.1_g000029 Rmu_sc0002500.1_g000005 Rmu_ssc0000255.1_g000022
rosa_roxburghii	Rroxscaffold_1G00033980 Rroxscaffold_2G00108990 Rroxscaffold_3G00223720 Rroxscaffold_5G00344940 Rroxscaffold_5G00349450 Rroxscaffold_6G00399190 Rroxscaffold_7G00214630
rosa_rugosa	Rorug04G0054800 Rorug04G0054900
rosa_samantha	Rh1AG171300 Rh2BG612400 Rh4AG129700 Rh4AG188200 Rh4BG123600 Rh4CG137000 Rh4DG123200 Rh4DG173800 Rh4DG239400 Rh7DG352600
rosa_wichuraiana	Rw4G002430 Rw4G010480 Rw4G026910 Rw7G028210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	290
AciI	CCGC	3 cut(s)	208, 288, 392
AclWI	GGATC	2 cut(s)	65, 78
AcsI	RAATTY	3 cut(s)	266, 292, 800
AfiI	CCNNNNNNNGG	1 cut(s)	581
AgsI	TTSAA	7 cut(s)	198, 329, 446, 564, 700, 749, 835
AjnI	CCWGG	2 cut(s)	420, 726
AjuI	GAANNNNNNNTTGG	2 cut(s)	50, 82
AleI	CACNNNNGTG	1 cut(s)	729
AloI	GAACNNNNNNTCC	2 cut(s)	147, 179
AluBI	AGCT	8 cut(s)	113, 163, 214, 228, 242, 308, 476, 711
AluI	AGCT	8 cut(s)	113, 163, 214, 228, 242, 308, 476, 711
Alw21I	GWGCWC	1 cut(s)	310
Alw26I	GTCTC	1 cut(s)	546
AlwI	GGATC	2 cut(s)	65, 78
Ama87I	CYCGRG	1 cut(s)	74
AoxI	GGCC	1 cut(s)	359
ApeKI	GCWGC	3 cut(s)	110, 389, 711
ApoI	RAATTY	3 cut(s)	266, 292, 800
ArsI	GACNNNNNNTTYG	2 cut(s)	623, 655
Asp700I	GAANNNNTTC	1 cut(s)	465
AspS9I	GGNCC	2 cut(s)	359, 811
AsuHPI	GGTGA	1 cut(s)	422
AvaI	CYCGRG	1 cut(s)	74
AvaII	GGWCC	1 cut(s)	811
BamHI	GGATCC	1 cut(s)	70
BanII	GRGCYC	1 cut(s)	310
BbsI	GAAGAC	3 cut(s)	186, 552, 744
Bbv12I	GWGCWC	1 cut(s)	310
BbvI	GCAGC	3 cut(s)	122, 376, 698
BccI	CCATC	3 cut(s)	401, 525, 622
BciT130I	CCWGG	2 cut(s)	422, 728
BcoDI	GTCTC	1 cut(s)	546
BfmI	CTRYAG	1 cut(s)	9
BisI	GCNGC	3 cut(s)	111, 390, 712
BlsI	GCNGC	3 cut(s)	112, 391, 713
Bme1390I	CCNGG	2 cut(s)	422, 728
Bme18I	GGWCC	1 cut(s)	811
BmeT110I	CYCGRG	1 cut(s)	74
BmgT120I	GGNCC	2 cut(s)	359, 811
BmiI	GGNNCC	1 cut(s)	72
BmrFI	CCNGG	2 cut(s)	422, 728
BmsI	GCATC	5 cut(s)	70, 310, 334, 403, 469
BpiI	GAAGAC	3 cut(s)	186, 552, 744
BpmI	CTGGAG	2 cut(s)	143, 149
BpuEI	CTTGAG	1 cut(s)	286
BsaI	GGTCTC	1 cut(s)	546
BsaJI	CCNNGG	3 cut(s)	75, 99, 727
BsaXI	ACNNNNNCTCC	4 cut(s)	80, 110, 147, 177
Bsc4I	CCNNNNNNNGG	1 cut(s)	581
Bse118I	RCCGGY	1 cut(s)	486
Bse1I	ACTGG	3 cut(s)	64, 616, 829
BseBI	CCWGG	2 cut(s)	422, 728
BseDI	CCNNGG	3 cut(s)	75, 99, 727
BseGI	GGATG	2 cut(s)	85, 549
BseLI	CCNNNNNNNGG	1 cut(s)	581
BseNI	ACTGG	3 cut(s)	64, 616, 829
BseRI	GAGGAG	1 cut(s)	615
BseXI	GCAGC	3 cut(s)	122, 376, 698
Bsh1236I	CGCG	1 cut(s)	290
BshFI	GGCC	1 cut(s)	361
BsiHKAI	GWGCWC	1 cut(s)	310
BsiHKCI	CYCGRG	1 cut(s)	74
BsiSI	CCGG	1 cut(s)	487
BslFI	GGGAC	1 cut(s)	37
BslI	CCNNNNNNNGG	1 cut(s)	581
BsmAI	GTCTC	1 cut(s)	546
BsmFI	GGGAC	1 cut(s)	37
BsnI	GGCC	1 cut(s)	361
Bso31I	GGTCTC	1 cut(s)	546
BsoBI	CYCGRG	1 cut(s)	74
Bsp1286I	GDGCHC	1 cut(s)	310
Bsp143I	GATC	2 cut(s)	70, 643
Bsp19I	CCATGG	1 cut(s)	99
BspACI	CCGC	3 cut(s)	208, 288, 392
BspANI	GGCC	1 cut(s)	361
BspFNI	CGCG	1 cut(s)	290
BspHI	TCATGA	2 cut(s)	244, 685
BspLI	GGNNCC	1 cut(s)	72
BspPI	GGATC	2 cut(s)	65, 78
BspTNI	GGTCTC	1 cut(s)	546
BsrFI	RCCGGY	1 cut(s)	486
BsrI	ACTGG	3 cut(s)	64, 616, 829
BssAI	RCCGGY	1 cut(s)	486
BssECI	CCNNGG	3 cut(s)	75, 99, 727
BssMI	GATC	2 cut(s)	70, 643
BssT1I	CCWWGG	1 cut(s)	99
Bst2UI	CCWGG	2 cut(s)	422, 728
Bst4CI	ACNGT	3 cut(s)	92, 133, 558
BstC8I	GCNNGC	6 cut(s)	349, 394, 418, 484, 488, 716
BstDSI	CCRYGG	1 cut(s)	99
BstENI	CCTNNNNNAGG	1 cut(s)	579
BstF5I	GGATG	2 cut(s)	85, 549
BstFNI	CGCG	1 cut(s)	290
BstKTI	GATC	2 cut(s)	73, 646
BstMAI	GTCTC	1 cut(s)	546
BstMBI	GATC	2 cut(s)	70, 643
BstMWI	GCNNNNNNNGC	1 cut(s)	426
BstNI	CCWGG	2 cut(s)	422, 728
BstSCI	CCNGG	2 cut(s)	420, 726
BstSFI	CTRYAG	1 cut(s)	9
BstUI	CGCG	1 cut(s)	290
BstV1I	GCAGC	3 cut(s)	122, 376, 698
BstV2I	GAAGAC	3 cut(s)	186, 552, 744
BstX2I	RGATCY	1 cut(s)	70
BstYI	RGATCY	1 cut(s)	70
BsuRI	GGCC	1 cut(s)	361
BtgI	CCRYGG	1 cut(s)	99
BtsCI	GGATG	2 cut(s)	85, 549
BtsIMutI	CAGTG	1 cut(s)	97
Cac8I	GCNNGC	6 cut(s)	349, 394, 418, 484, 488, 716
CciI	TCATGA	2 cut(s)	244, 685
Cfr10I	RCCGGY	1 cut(s)	486
Cfr13I	GGNCC	2 cut(s)	359, 811
CviAII	CATG	4 cut(s)	100, 245, 686, 805
DpnI	GATC	2 cut(s)	72, 645
DpnII	GATC	2 cut(s)	70, 643
EciI	GGCGGA	1 cut(s)	223
Ecl136II	GAGCTC	1 cut(s)	308
Eco130I	CCWWGG	1 cut(s)	99
Eco24I	GRGCYC	1 cut(s)	310
Eco31I	GGTCTC	1 cut(s)	546
Eco47I	GGWCC	1 cut(s)	811
Eco53kI	GAGCTC	1 cut(s)	308
Eco88I	CYCGRG	1 cut(s)	74
EcoICRI	GAGCTC	1 cut(s)	308
EcoNI	CCTNNNNNAGG	1 cut(s)	579
EcoRI	GAATTC	1 cut(s)	800
EcoRII	CCWGG	2 cut(s)	420, 726
EcoT14I	CCWWGG	1 cut(s)	99
EcoT38I	GRGCYC	1 cut(s)	310
ErhI	CCWWGG	1 cut(s)	99
FaeI	CATG	4 cut(s)	103, 248, 689, 808
FalI	AAGNNNNNCTT	2 cut(s)	729, 761
FaqI	GGGAC	1 cut(s)	37
FatI	CATG	4 cut(s)	99, 244, 685, 804
FauI	CCCGC	2 cut(s)	295, 385
Fnu4HI	GCNGC	3 cut(s)	111, 390, 712
FokI	GGATG	2 cut(s)	92, 536
FriOI	GRGCYC	1 cut(s)	310
Fsp4HI	GCNGC	3 cut(s)	111, 390, 712
GluI	GCNGC	3 cut(s)	111, 390, 712
GsuI	CTGGAG	2 cut(s)	143, 149
HaeIII	GGCC	1 cut(s)	361
HapII	CCGG	1 cut(s)	487
Hin1II	CATG	4 cut(s)	103, 248, 689, 808
HindIII	AAGCTT	1 cut(s)	212
HinfI	GANTC	1 cut(s)	676
HpaII	CCGG	1 cut(s)	487
HphI	GGTGA	1 cut(s)	422
Hpy166II	GTNNAC	1 cut(s)	706
Hpy188I	TCNGA	2 cut(s)	31, 183
Hpy188III	TCNNGA	9 cut(s)	74, 122, 245, 303, 519, 686, 746, 794, 820
Hpy8I	GTNNAC	1 cut(s)	706
HpyAV	CCTTC	2 cut(s)	185, 516
HpyCH4III	ACNGT	3 cut(s)	92, 133, 558
HpyCH4V	TGCA	6 cut(s)	83, 110, 129, 347, 657, 758
HpyF10VI	GCNNNNNNNGC	1 cut(s)	426
Hsp92II	CATG	4 cut(s)	103, 248, 689, 808
KroI	GCCGGC	1 cut(s)	486
KroNI	GCCGGC	1 cut(s)	488
Kzo9I	GATC	2 cut(s)	70, 643
LmnI	GCTCC	1 cut(s)	168
Lsp1109I	GCAGC	3 cut(s)	122, 376, 698
LweI	GCATC	5 cut(s)	70, 310, 334, 403, 469
MaeIII	GTNAC	1 cut(s)	331
MalI	GATC	2 cut(s)	72, 645
MboI	GATC	2 cut(s)	70, 643
MboII	GAAGA	4 cut(s)	186, 393, 552, 749
MfeI	CAATTG	1 cut(s)	658
MflI	RGATCY	1 cut(s)	70
MhlI	GDGCHC	1 cut(s)	310
MluCI	AATT	8 cut(s)	84, 138, 198, 266, 292, 384, 658, 800
MmeI	TCCRAC	1 cut(s)	48
MroNI	GCCGGC	1 cut(s)	486
MroXI	GAANNNNTTC	1 cut(s)	465
MseI	TTAA	3 cut(s)	434, 579, 844
MslI	CAYNNNNRTG	2 cut(s)	684, 729
MspA1I	CMGCKG	3 cut(s)	113, 476, 711
MspI	CCGG	1 cut(s)	487
MspR9I	CCNGG	2 cut(s)	422, 728
MunI	CAATTG	1 cut(s)	658
MvaI	CCWGG	2 cut(s)	422, 728
MvnI	CGCG	1 cut(s)	290
MwoI	GCNNNNNNNGC	1 cut(s)	426
NaeI	GCCGGC	1 cut(s)	488
NcoI	CCATGG	1 cut(s)	99
NdeII	GATC	2 cut(s)	70, 643
NgoMIV	GCCGGC	1 cut(s)	486
NlaIII	CATG	4 cut(s)	103, 248, 689, 808
NlaIV	GGNNCC	1 cut(s)	72
OliI	CACNNNNGTG	1 cut(s)	729
PagI	TCATGA	2 cut(s)	244, 685
PdiI	GCCGGC	1 cut(s)	488
PdmI	GAANNNNTTC	1 cut(s)	465
PfeI	GAWTC	1 cut(s)	676
PkrI	GCNGC	3 cut(s)	112, 391, 713
Psp124BI	GAGCTC	1 cut(s)	310
Psp6I	CCWGG	2 cut(s)	420, 726
PspGI	CCWGG	2 cut(s)	420, 726
PspN4I	GGNNCC	1 cut(s)	72
PspPI	GGNCC	2 cut(s)	359, 811
PsuI	RGATCY	1 cut(s)	70
PvuII	CAGCTG	3 cut(s)	113, 476, 711
RseI	CAYNNNNRTG	2 cut(s)	684, 729
SacI	GAGCTC	1 cut(s)	310
SaqAI	TTAA	3 cut(s)	434, 579, 844
SatI	GCNGC	3 cut(s)	111, 390, 712
Sau3AI	GATC	2 cut(s)	70, 643
Sau96I	GGNCC	2 cut(s)	359, 811
ScrFI	CCNGG	2 cut(s)	422, 728
SduI	GDGCHC	1 cut(s)	310
SfaNI	GCATC	5 cut(s)	70, 310, 334, 403, 469
SfcI	CTRYAG	1 cut(s)	9
SinI	GGWCC	1 cut(s)	811
SmiMI	CAYNNNNRTG	2 cut(s)	684, 729
SmlI	CTYRAG	1 cut(s)	301
SmoI	CTYRAG	1 cut(s)	301
Sse9I	AATT	8 cut(s)	84, 138, 198, 266, 292, 384, 658, 800
SsiI	CCGC	3 cut(s)	208, 288, 392
SspI	AATATT	2 cut(s)	831, 838
SstI	GAGCTC	1 cut(s)	310
StyD4I	CCNGG	2 cut(s)	420, 726
StyI	CCWWGG	1 cut(s)	99
TaaI	ACNGT	3 cut(s)	92, 133, 558
TaqI	TCGA	3 cut(s)	270, 509, 642
TasI	AATT	8 cut(s)	84, 138, 198, 266, 292, 384, 658, 800
TfiI	GAWTC	1 cut(s)	676
Tru1I	TTAA	3 cut(s)	434, 579, 844
Tru9I	TTAA	3 cut(s)	434, 579, 844
TscAI	CASTG	1 cut(s)	97
TseI	GCWGC	3 cut(s)	110, 389, 711
TspDTI	ATGAA	9 cut(s)	5, 168, 261, 474, 538, 668, 674, 793, 813
TspGWI	ACGGA	1 cut(s)	39
TspRI	CASTG	1 cut(s)	97
VpaK11BI	GGWCC	1 cut(s)	811
XagI	CCTNNNNNAGG	1 cut(s)	579
XapI	RAATTY	3 cut(s)	266, 292, 800
XcmI	CCANNNNNNNNNTGG	1 cut(s)	821
XmnI	GAANNNNTTC	1 cut(s)	465

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