Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0001909

Physical Location & Seq

Genomic Coordinates Reverse (-)

22626504 .. 22628657

Gene Structure 2154 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG118000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1206 bp

ATGACAGCATCACCAGTTATTAAAAAAGGTGTCTCATCTGCCACGGACTGTGAGGATCAGATATCACAACTTGAAGGCATCTTGGATTCCCAGGTTTATACAATAGAAGACAGGACAGAGATTGAAGAGCATGTTCCCTCAGCAGTCCAAATTTGTAAATTTTATGACCCGACATGGTTGATCTGTGTGGATTTGAAAGCAAAAATGGAAGCTTTATGGTCAAAGTTTGATGCTTCTATCATGTCAAAGTTGCAAGGGCCAGAGAAAAGCGAGTATGAAGACATTAATGATAAAATCAAGATGCTAAGAAAGCGGTTGTCCAATGACTACATGAAAATTTTGTATTGCCTTGATGATCTTGGTATCGTATGCGCATATGAGGCTGTGAAAGTCTGTCTGGAGAATGCCCCTGATGTCAAAGAGGAGTGCACATTTTTTAGAGAAAGCTCTTTGCAATGCAGATATTTTCTTGATGAAGTCTTAAATATGATCAGTGAATTTCTTCAAAAAGGTTATATACTTCATACAGATCTTGAGTCAGACTATATAAAGGCACACAAAGTGGGATACATATCTCCGAAGTTACATGAACTTCTTCAAATTTTCCACTCATTTGAGAGGGATAGGCAAGTTCTGTGCCTTATTTTCGTAGAAAGAATTGTCACAGCCAAAGTAATGCAAAGATATGTGAAGAAACTGCCATGTTTATCTCATTTCACAGCTTCATATTTGACCGGAAGTACCACATCAGTTGATGCACTTGCACCGAAATTGCAGAAGGAAATTTTGGAGTCATTTTACAGTGGGAAGGTCAATCTACTATTTGCCACTGATGTAGTTGAGGAGGGAATTCATGTCCAGAACTGCTCCTGTGTGATCCGGTTTGATCTTCCCAAGATGGTTCGTAGCTATGTTCAGTCTCGGGGACGAGCACGAAAAAATGATTCCCAATATATCATAATGCTTGAAAGGGACAACAAGAAGCAAAGAGACCATCTGTTTGACATAATCAGGAGTGAGTACTCAATGACAGATACATCGAGAAATCGAGATCCTGATGGATGCAATTTAAGAGCTTGTAACTTTGAAGATGCAAATGCATACTATGTAGAAGCTACTGGAGCATCAGTTACTCCAGACTCTAGTGTCAGCCTCATATATCGGTACTGTGAAAAGCTCCCTGGAGATAGGTATGGAGATATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004525 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016442 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0031332 GO:0032296 GO:0032991 GO:0034641 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901698 GO:1901699 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko05206 map05206

Pfam Domains

Protein Families

DEAD Dicer_dimer Helicase_C PAZ ResIII Ribonuclease_3 dsrm

Protein Analysis

401

Amino Acids

46.15

Weight (kDa)

5.46

Isoelectric Point (pI)

46.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	194 - 311	1.4e-17	Helicase conserved C-terminal 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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001909)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G43920 AT3G43920 AT3G43920 AT3G43920 AT3G43920 AT3G43920
fragaria_vesca	FvH4_2g07790 FvH4_2g18930 FvH4_2g18930 FvH4_2g30780 FvH4_2g30780 FvH4_2g30780 FvH4_2g30780
malus_domestica	MD08G1046300.v1.1 MD10G1163700.v1.1 MD15G1047500.v1.1
prunus_persica	Prupe.1G401900_v2.0.a1 Prupe.1G401900_v2.0.a1 Prupe.8G202000_v2.0.a1 Prupe.8G202000_v2.0.a1
pyrus_communis	pycom08g03830 pycom08g03840 pycom15g04670
rosa_chinensis	RchiOBHm_Chr6g0284721 RchiOBHm_Chr6g0312121
rosa_laevigata	RLG00000010353 RLG00000012724
rosa_multiflora	Rmu_sc0004065.1_g000007 Rmu_sc0007474.1_g000021
rosa_roxburghii	Rroxscaffold_7G00157050 Rroxscaffold_7G00184440
rosa_rugosa	Rorug06G0165900 Rorug06G0392600 Rorug06G0392700 Rorug06G0392800
rosa_samantha	Rh4CG118000 Rh6AG279000 Rh6AG509700 Rh6BG279000 Rh6BG520600 Rh6CG281300 Rh6CG526600 Rh6DG274000 Rh6DG512000
rosa_wichuraiana	Rw6G023980 Rw6G044350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	1145
Acc16I	TGCGCA	1 cut(s)	373
AciI	CCGC	1 cut(s)	313
AclWI	GGATC	3 cut(s)	63, 871, 1046
AcsI	RAATTY	7 cut(s)	150, 158, 336, 497, 600, 783, 849
AdeI	CACNNNGTG	1 cut(s)	562
AfaI	GTAC	3 cut(s)	742, 1022, 1166
AgsI	TTSAA	7 cut(s)	74, 125, 196, 506, 599, 968, 1088
AjnI	CCWGG	2 cut(s)	90, 1180
AjuI	GAANNNNNNNTTGG	2 cut(s)	770, 802
AluBI	AGCT	7 cut(s)	212, 447, 722, 909, 1076, 1115, 1177
AluI	AGCT	7 cut(s)	212, 447, 722, 909, 1076, 1115, 1177
Alw21I	GWGCWC	2 cut(s)	431, 934
Alw26I	GTCTC	3 cut(s)	37, 924, 984
Alw44I	GTGCAC	1 cut(s)	427
AlwI	GGATC	3 cut(s)	63, 871, 1046
Ama87I	CYCGRG	1 cut(s)	921
AoxI	GGCC	1 cut(s)	257
ApaLI	GTGCAC	1 cut(s)	427
ApoI	RAATTY	7 cut(s)	150, 158, 336, 497, 600, 783, 849
ArsI	GACNNNNNNTTYG	2 cut(s)	983, 1015
AseI	ATTAAT	1 cut(s)	285
Asp700I	GAANNNNTTC	2 cut(s)	501, 594
AspLEI	GCGC	1 cut(s)	374
AspS9I	GGNCC	1 cut(s)	257
AsuHPI	GGTGA	1 cut(s)	3
AvaI	CYCGRG	1 cut(s)	921
BaeGI	GKGCMC	1 cut(s)	431
BbsI	GAAGAC	2 cut(s)	114, 285
Bbv12I	GWGCWC	2 cut(s)	431, 934
BbvCI	CCTCAGC	1 cut(s)	139
BccI	CCATC	3 cut(s)	892, 1002, 1052
BciT130I	CCWGG	2 cut(s)	92, 1182
BciVI	GTATCC	1 cut(s)	560
BclI	TGATCA	1 cut(s)	489
BcoDI	GTCTC	3 cut(s)	37, 924, 984
BfaI	CTAG	1 cut(s)	1143
BfuI	GTATCC	1 cut(s)	560
BglII	AGATCT	1 cut(s)	529
BmcAI	AGTACT	1 cut(s)	1022
Bme1390I	CCNGG	2 cut(s)	92, 1182
BmeT110I	CYCGRG	1 cut(s)	921
BmgT120I	GGNCC	1 cut(s)	257
BmrFI	CCNGG	2 cut(s)	92, 1182
BmsI	GCATC	8 cut(s)	17, 87, 220, 291, 745, 1052, 1081, 1133
BpiI	GAAGAC	2 cut(s)	114, 285
BpmI	CTGGAG	4 cut(s)	419, 1119, 1140, 1203
Bpu10I	CCTNAGC	1 cut(s)	139
BpuEI	CTTGAG	1 cut(s)	554
BsaBI	GATNNNNATC	1 cut(s)	571
BsaI	GGTCTC	1 cut(s)	984
BsaJI	CCNNGG	3 cut(s)	42, 90, 1180
BsaWI	WCCGGW	2 cut(s)	734, 879
BsaXI	ACNNNNNCTCC	2 cut(s)	1113, 1143
Bse1I	ACTGG	2 cut(s)	14, 1123
Bse3DI	GCAATG	1 cut(s)	461
Bse8I	GATNNNNATC	1 cut(s)	571
BseBI	CCWGG	2 cut(s)	92, 1182
BseDI	CCNNGG	3 cut(s)	42, 90, 1180
BseGI	GGATG	1 cut(s)	1067
BseJI	GATNNNNATC	1 cut(s)	571
BseMI	GCAATG	1 cut(s)	461
BseMII	CTCAG	1 cut(s)	153
BseNI	ACTGG	2 cut(s)	14, 1123
BseRI	GAGGAG	2 cut(s)	437, 857
BseSI	GKGCMC	1 cut(s)	431
BshFI	GGCC	1 cut(s)	259
BsiHKAI	GWGCWC	2 cut(s)	431, 934
BsiHKCI	CYCGRG	1 cut(s)	921
BsiSI	CCGG	2 cut(s)	735, 880
BslFI	GGGAC	2 cut(s)	939, 986
BsmAI	GTCTC	3 cut(s)	37, 924, 984
BsmFI	GGGAC	2 cut(s)	939, 986
BsmI	GAATGC	1 cut(s)	409
BsnI	GGCC	1 cut(s)	259
Bso31I	GGTCTC	1 cut(s)	984
BsoBI	CYCGRG	1 cut(s)	921
Bsp1286I	GDGCHC	2 cut(s)	431, 934
Bsp143I	GATC	8 cut(s)	55, 180, 355, 489, 529, 876, 886, 1051
BspACI	CCGC	1 cut(s)	313
BspANI	GGCC	1 cut(s)	259
BspCNI	CTCAG	1 cut(s)	152
BspPI	GGATC	3 cut(s)	63, 871, 1046
BspQI	GCTCTTC	1 cut(s)	120
BspTNI	GGTCTC	1 cut(s)	984
BsrDI	GCAATG	1 cut(s)	461
BsrI	ACTGG	2 cut(s)	14, 1123
BssECI	CCNNGG	3 cut(s)	42, 90, 1180
BssMI	GATC	8 cut(s)	55, 180, 355, 489, 529, 876, 886, 1051
Bst2UI	CCWGG	2 cut(s)	92, 1182
Bst4CI	ACNGT	3 cut(s)	50, 803, 1169
Bst6I	CTCTTC	1 cut(s)	120
BstDEI	CTNAG	2 cut(s)	139, 305
BstDSI	CCRYGG	1 cut(s)	42
BstF5I	GGATG	1 cut(s)	1067
BstHHI	GCGC	1 cut(s)	374
BstKTI	GATC	8 cut(s)	58, 183, 358, 492, 532, 879, 889, 1054
BstMAI	GTCTC	3 cut(s)	37, 924, 984
BstMBI	GATC	8 cut(s)	55, 180, 355, 489, 529, 876, 886, 1051
BstMWI	GCNNNNNNNGC	3 cut(s)	310, 380, 1121
BstNI	CCWGG	2 cut(s)	92, 1182
BstNSI	RCATGY	1 cut(s)	134
BstSCI	CCNGG	2 cut(s)	90, 1180
BstSLI	GKGCMC	1 cut(s)	431
BstV2I	GAAGAC	2 cut(s)	114, 285
BstX2I	RGATCY	2 cut(s)	529, 1051
BstYI	RGATCY	2 cut(s)	529, 1051
BsuI	GTATCC	1 cut(s)	560
BsuRI	GGCC	1 cut(s)	259
BtgI	CCRYGG	1 cut(s)	42
BtsCI	GGATG	1 cut(s)	1067
BtsIMutI	CAGTG	3 cut(s)	499, 808, 828
CfoI	GCGC	1 cut(s)	374
Cfr13I	GGNCC	1 cut(s)	257
Csp6I	GTAC	3 cut(s)	741, 1021, 1165
CspCI	CAANNNNNGTGG	2 cut(s)	733, 768
CviAII	CATG	7 cut(s)	131, 174, 241, 331, 587, 702, 854
CviQI	GTAC	3 cut(s)	741, 1021, 1165
DdeI	CTNAG	2 cut(s)	139, 305
DpnI	GATC	8 cut(s)	57, 182, 357, 491, 531, 878, 888, 1053
DpnII	GATC	8 cut(s)	55, 180, 355, 489, 529, 876, 886, 1051
DraIII	CACNNNGTG	1 cut(s)	562
DrdI	GACNNNNNNGTC	1 cut(s)	1145
DseDI	GACNNNNNNGTC	1 cut(s)	1145
Eam1104I	CTCTTC	1 cut(s)	120
EarI	CTCTTC	1 cut(s)	120
Eco31I	GGTCTC	1 cut(s)	984
Eco32I	GATATC	1 cut(s)	63
Eco88I	CYCGRG	1 cut(s)	921
EcoRI	GAATTC	1 cut(s)	849
EcoRII	CCWGG	2 cut(s)	90, 1180
EcoRV	GATATC	1 cut(s)	63
EcoT22I	ATGCAT	1 cut(s)	1102
FaeI	CATG	7 cut(s)	134, 177, 244, 334, 590, 705, 857
FaqI	GGGAC	2 cut(s)	939, 986
FatI	CATG	7 cut(s)	130, 173, 240, 330, 586, 701, 853
FauNDI	CATATG	1 cut(s)	376
FbaI	TGATCA	1 cut(s)	489
FokI	GGATG	1 cut(s)	1074
FspAI	RTGCGCAY	1 cut(s)	373
FspBI	CTAG	1 cut(s)	1143
FspI	TGCGCA	1 cut(s)	373
GlaI	GCGC	1 cut(s)	373
GsuI	CTGGAG	4 cut(s)	419, 1119, 1140, 1203
HaeIII	GGCC	1 cut(s)	259
HapII	CCGG	2 cut(s)	735, 880
HhaI	GCGC	1 cut(s)	374
Hin1II	CATG	7 cut(s)	134, 177, 244, 334, 590, 705, 857
Hin6I	GCGC	1 cut(s)	372
HinP1I	GCGC	1 cut(s)	372
HindIII	AAGCTT	1 cut(s)	210
HinfI	GANTC	5 cut(s)	86, 536, 791, 944, 1139
HpaII	CCGG	2 cut(s)	735, 880
HphI	GGTGA	1 cut(s)	3
Hpy166II	GTNNAC	1 cut(s)	429
Hpy188I	TCNGA	3 cut(s)	60, 541, 579
Hpy8I	GTNNAC	1 cut(s)	429
HpyAV	CCTTC	3 cut(s)	68, 772, 802
HpyCH4III	ACNGT	3 cut(s)	50, 803, 1169
HpyF10VI	GCNNNNNNNGC	3 cut(s)	310, 380, 1121
HpyF3I	CTNAG	2 cut(s)	139, 305
Hsp92II	CATG	7 cut(s)	134, 177, 244, 334, 590, 705, 857
HspAI	GCGC	1 cut(s)	372
Ksp22I	TGATCA	1 cut(s)	489
Kzo9I	GATC	8 cut(s)	55, 180, 355, 489, 529, 876, 886, 1051
LguI	GCTCTTC	1 cut(s)	120
LmnI	GCTCC	3 cut(s)	872, 1121, 1182
LweI	GCATC	8 cut(s)	17, 87, 220, 291, 745, 1052, 1081, 1133
MaeI	CTAG	1 cut(s)	1143
MaeIII	GTNAC	4 cut(s)	582, 661, 1079, 1129
MalI	GATC	8 cut(s)	57, 182, 357, 491, 531, 878, 888, 1053
MboI	GATC	8 cut(s)	55, 180, 355, 489, 529, 876, 886, 1051
MboII	GAAGA	8 cut(s)	119, 137, 290, 494, 587, 703, 881, 1100
MflI	RGATCY	2 cut(s)	529, 1051
MhlI	GDGCHC	2 cut(s)	431, 934
MlyI	GAGTC	3 cut(s)	545, 800, 1133
MnlI	CCTC	8 cut(s)	46, 148, 373, 415, 612, 835, 838, 1163
Mph1103I	ATGCAT	1 cut(s)	1102
MroXI	GAANNNNTTC	2 cut(s)	501, 594
MseI	TTAA	4 cut(s)	21, 285, 482, 1070
MspI	CCGG	2 cut(s)	735, 880
MspR9I	CCNGG	2 cut(s)	92, 1182
Mva1269I	GAATGC	1 cut(s)	409
MvaI	CCWGG	2 cut(s)	92, 1182
MwoI	GCNNNNNNNGC	3 cut(s)	310, 380, 1121
NdeI	CATATG	1 cut(s)	376
NdeII	GATC	8 cut(s)	55, 180, 355, 489, 529, 876, 886, 1051
NlaIII	CATG	7 cut(s)	134, 177, 244, 334, 590, 705, 857
NmuCI	GTSAC	1 cut(s)	661
NsbI	TGCGCA	1 cut(s)	373
NsiI	ATGCAT	1 cut(s)	1102
NspI	RCATGY	1 cut(s)	134
PciSI	GCTCTTC	1 cut(s)	120
PctI	GAATGC	1 cut(s)	409
PdmI	GAANNNNTTC	2 cut(s)	501, 594
PfeI	GAWTC	2 cut(s)	86, 944
PleI	GAGTC	3 cut(s)	544, 799, 1133
PpsI	GAGTC	3 cut(s)	544, 799, 1133
PshBI	ATTAAT	1 cut(s)	285
Psp6I	CCWGG	2 cut(s)	90, 1180
PspGI	CCWGG	2 cut(s)	90, 1180
PspPI	GGNCC	1 cut(s)	257
PsuI	RGATCY	2 cut(s)	529, 1051
RsaI	GTAC	3 cut(s)	742, 1022, 1166
RsaNI	GTAC	3 cut(s)	741, 1021, 1165
SapI	GCTCTTC	1 cut(s)	120
SaqAI	TTAA	4 cut(s)	21, 285, 482, 1070
Sau3AI	GATC	8 cut(s)	55, 180, 355, 489, 529, 876, 886, 1051
Sau96I	GGNCC	1 cut(s)	257
ScaI	AGTACT	1 cut(s)	1022
SchI	GAGTC	3 cut(s)	545, 800, 1133
ScrFI	CCNGG	2 cut(s)	92, 1182
SduI	GDGCHC	2 cut(s)	431, 934
SfaNI	GCATC	8 cut(s)	17, 87, 220, 291, 745, 1052, 1081, 1133
SmlI	CTYRAG	1 cut(s)	533
SmoI	CTYRAG	1 cut(s)	533
SsiI	CCGC	1 cut(s)	313
SspMI	CTAG	1 cut(s)	1143
StyD4I	CCNGG	2 cut(s)	90, 1180
TaaI	ACNGT	3 cut(s)	50, 803, 1169
TaqI	TCGA	2 cut(s)	1040, 1048
TatI	WGTACW	1 cut(s)	1020
TfiI	GAWTC	2 cut(s)	86, 944
Tru1I	TTAA	4 cut(s)	21, 285, 482, 1070
Tru9I	TTAA	4 cut(s)	21, 285, 482, 1070
TscAI	CASTG	3 cut(s)	499, 808, 835
TseFI	GTSAC	1 cut(s)	661
Tsp45I	GTSAC	1 cut(s)	661
TspDTI	ATGAA	7 cut(s)	291, 347, 489, 512, 603, 714, 842
TspGWI	ACGGA	1 cut(s)	59
TspRI	CASTG	3 cut(s)	499, 808, 835
VneI	GTGCAC	1 cut(s)	427
VspI	ATTAAT	1 cut(s)	285
XapI	RAATTY	7 cut(s)	150, 158, 336, 497, 600, 783, 849
XceI	RCATGY	1 cut(s)	134
XmnI	GAANNNNTTC	2 cut(s)	501, 594
XspI	CTAG	1 cut(s)	1143
ZrmI	AGTACT	1 cut(s)	1022
Zsp2I	ATGCAT	1 cut(s)	1102

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