Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0003670

Physical Location & Seq

Genomic Coordinates Forward (+)

75094677 .. 75098406

Gene Structure 3730 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG571300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1287 bp

ATGGATTCAGAAGACACCATAACCCAACAAGAGCCATCAACACCAGCTCGCAAGCACAAGAAGAAGAGGATGAAAGTCGCACCAGAAGACACGCGAAGCAACCCACAGAAGCCCCAAACAGTCATCAAAGTCATTCCAGGAAACCCAGAGAGAATGGCACCTTTGGTGGGCTATTTCCCATCTGGGTTTGATCCCACCAAAAGCTCAGATCTAAACTCAACCAAAGTTGGGGTCTTCAGGCACAAAGAGAGAAGTGGTACTCGGCTTCAGCTTGTGGTAACCCCAGAAAAGGATGCTGAAGTTGATTTCGTTGGAACTAGCTATGCTGGTGAGGATCAGGCTGGGGAGCACTGCGCTTATGGACTTGGTATTCTTGATAAGGCCACCCACACATTGAAGATTGTGCCTATTGCTAATAACAAGGTATTTAGATTAGAACCAAAAGTTCAAGGTGCTGACTCCTCTAATAAGGAGCTTGCAAGTTCAGTGATTGGAAAACTTTCTGCACATGAGAAGACAGAAAAACTTACAGAACTTCATAATCGTTATGGAACAAAGAAGTCAATACGGCTGAACAAAAGAATGCAAACCTTGAAGCACGGAGATGATCCTGTTGCTCAAAATGATTTGAATGCAATCAAAAATGGTATGACGAACAGGGAGGATCTTGAAGAAGCTTCCGAATGCCATAATGATCGCAATACCCCACCATTTAATGCTTCTGCCACCACTCCCCAGGAGGCTTATCCACTGGACAAGATCATCTCCACAGCAGAGTGGAAATTCCTCCAAGATATCCATAAGCTTGTGGAAGGGGGATCAGAACTTCCCCGGTTTGTTAGCAACCGAATCCATAAACTGCAGCAGATTGTGGATGAAGAGAAGAAGAACAAGCTTGCTTGTATTTTCTCATATATTATGCACCTTATAAAGTTCAAAGATCTGCATTCCATGGAGCTCAAGGGGCATTTCTTTCCAAAGGCCCACAGATTCCCAAGCATTATAAGGGACAAATTTTCAAGAATGTTTGATGCAGTGTCGAGAAAGCTATCAACCGAAAAAAGTAATCTTCTCATTAGTTATGTCCTGGTGCTCACTCTATTTGTGGATGAATTCCAAACAAGTTTGACAGACATAGCAAAGGATCTGAGAATGAGTACCTCAAAGTTGAGGACGCATTATGAGACCTTGGGTTGCAAGGTGTCTAAGAAGAACAACTTTATAACGGTTACCCTTCCTGTCCCCCTCCAATTTCCAACACTGAAGCGCAAGCGAAGCAATAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_I_A49

Protein Analysis

428

Amino Acids

48.49

Weight (kDa)

9.51

Isoelectric Point (pI)

42.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_I_A49	PF06870	73 - 419	1.8e-52	A49-like RNA polymerase I associated factor

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003670)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13940
fragaria_vesca	FvH4_2g14600 FvH4_2g14600 FvH4_2g14600 FvH4_6g34180 FvH4_6g47280
malus_domestica	MD09G1187900.v1.1 MD17G1172300.v1.1
prunus_persica	Prupe.3G044800_v2.0.a1
pyrus_communis	pycom09g10420 pycom09g10430 pycom17g16990 pycom17g17000
rosa_chinensis	RchiOBHm_Chr2g0144531 RchiOBHm_Chr2g0166351
rosa_laevigata	RLG00000020086 RLG00000021613
rosa_multiflora	Rmu_sc0005789.1_g000005 Rmu_sc0007974.1_g000004 Rmu_sc0029020.1_g000001 Rmu_sc0029020.1_g000002
rosa_roxburghii	Rroxscaffold_2G00084950 Rroxscaffold_2G00101230
rosa_rugosa	Rorug02G0387600 Rorug02G0522400
rosa_samantha	Rh2AG439600 Rh2AG588500 Rh2BG449700 Rh2BG600500 Rh2CG426600 Rh2CG571300 Rh2DG459600 Rh2DG610700
rosa_wichuraiana	Rw2G035960 Rw2G049040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	3 cut(s)	929, 1004, 1223
AccB1I	GGYRCC	1 cut(s)	157
AccII	CGCG	1 cut(s)	94
AclWI	GGATC	6 cut(s)	185, 342, 602, 672, 826, 1152
AcsI	RAATTY	3 cut(s)	782, 1013, 1112
AcuI	CTGAAG	4 cut(s)	220, 251, 318, 1283
AfaI	GTAC	2 cut(s)	259, 1159
AfiI	CCNNNNNNNGG	3 cut(s)	167, 228, 289
AgsI	TTSAA	7 cut(s)	397, 449, 595, 631, 671, 937, 1020
AjnI	CCWGG	3 cut(s)	136, 735, 1086
Alw21I	GWGCWC	3 cut(s)	351, 960, 1095
Alw26I	GTCTC	1 cut(s)	1178
AlwI	GGATC	6 cut(s)	185, 342, 602, 672, 826, 1152
AoxI	GGCC	2 cut(s)	381, 981
ApeKI	GCWGC	1 cut(s)	862
ApoI	RAATTY	3 cut(s)	782, 1013, 1112
ArsI	GACNNNNNNTTYG	2 cut(s)	216, 248
Asp700I	GAANNNNTTC	1 cut(s)	499
AspLEI	GCGC	2 cut(s)	356, 1269
AspS9I	GGNCC	1 cut(s)	982
AsuC2I	CCSGG	1 cut(s)	832
AsuHPI	GGTGA	1 cut(s)	341
BanI	GGYRCC	1 cut(s)	157
BanII	GRGCYC	1 cut(s)	960
BbsI	GAAGAC	4 cut(s)	18, 93, 226, 521
Bbv12I	GWGCWC	3 cut(s)	351, 960, 1095
BbvI	GCAGC	1 cut(s)	874
BccI	CCATC	2 cut(s)	43, 187
BceAI	ACGGC	1 cut(s)	584
BciT130I	CCWGG	3 cut(s)	138, 737, 1088
BcnI	CCSGG	1 cut(s)	832
BcoDI	GTCTC	1 cut(s)	1178
BfaI	CTAG	1 cut(s)	318
BfmI	CTRYAG	1 cut(s)	860
BglII	AGATCT	2 cut(s)	208, 940
BisI	GCNGC	1 cut(s)	863
BlsI	GCNGC	1 cut(s)	864
Bme1390I	CCNGG	4 cut(s)	138, 737, 832, 1088
BmgT120I	GGNCC	1 cut(s)	982
BmiI	GGNNCC	1 cut(s)	159
BmrFI	CCNGG	4 cut(s)	138, 737, 832, 1088
BmsI	GCATC	2 cut(s)	283, 1021
BpiI	GAAGAC	4 cut(s)	18, 93, 226, 521
BpuEI	CTTGAG	1 cut(s)	944
BpuMI	CCSGG	1 cut(s)	832
BsaI	GGTCTC	1 cut(s)	1178
BsaJI	CCNNGG	4 cut(s)	735, 830, 951, 1188
Bsc4I	CCNNNNNNNGG	3 cut(s)	167, 228, 289
Bse1I	ACTGG	1 cut(s)	756
BseBI	CCWGG	3 cut(s)	138, 737, 1088
BseDI	CCNNGG	4 cut(s)	735, 830, 951, 1188
BseGI	GGATG	4 cut(s)	75, 298, 880, 1114
BseLI	CCNNNNNNNGG	3 cut(s)	167, 228, 289
BseMII	CTCAG	2 cut(s)	219, 1139
BseNI	ACTGG	1 cut(s)	756
BseRI	GAGGAG	1 cut(s)	451
BseXI	GCAGC	1 cut(s)	874
BseYI	CCCAGC	1 cut(s)	341
BsgI	GTGCAG	1 cut(s)	489
Bsh1236I	CGCG	1 cut(s)	94
BshFI	GGCC	2 cut(s)	383, 983
BshNI	GGYRCC	1 cut(s)	157
BsiHKAI	GWGCWC	3 cut(s)	351, 960, 1095
BsiSI	CCGG	1 cut(s)	832
BslFI	GGGAC	2 cut(s)	1022, 1226
BslI	CCNNNNNNNGG	3 cut(s)	167, 228, 289
BsmAI	GTCTC	1 cut(s)	1178
BsmFI	GGGAC	2 cut(s)	1022, 1226
BsmI	GAATGC	4 cut(s)	588, 637, 689, 946
BsnI	GGCC	2 cut(s)	383, 983
Bso31I	GGTCTC	1 cut(s)	1178
Bsp1286I	GDGCHC	3 cut(s)	351, 960, 1095
Bsp19I	CCATGG	1 cut(s)	951
BspANI	GGCC	2 cut(s)	383, 983
BspCNI	CTCAG	2 cut(s)	218, 1140
BspFNI	CGCG	1 cut(s)	94
BspLI	GGNNCC	1 cut(s)	159
BspMAI	CTGCAG	1 cut(s)	864
BspPI	GGATC	6 cut(s)	185, 342, 602, 672, 826, 1152
BspT107I	GGYRCC	1 cut(s)	157
BspTNI	GGTCTC	1 cut(s)	1178
BsrI	ACTGG	1 cut(s)	756
BssECI	CCNNGG	4 cut(s)	735, 830, 951, 1188
BssT1I	CCWWGG	2 cut(s)	951, 1188
Bst2UI	CCWGG	3 cut(s)	138, 737, 1088
Bst4CI	ACNGT	2 cut(s)	121, 1228
Bst6I	CTCTTC	2 cut(s)	59, 873
BstC8I	GCNNGC	5 cut(s)	49, 53, 477, 897, 1271
BstDEI	CTNAG	3 cut(s)	205, 1148, 1206
BstDSI	CCRYGG	1 cut(s)	951
BstEII	GGTNACC	2 cut(s)	277, 1228
BstF5I	GGATG	4 cut(s)	75, 298, 880, 1114
BstFNI	CGCG	1 cut(s)	94
BstHHI	GCGC	2 cut(s)	356, 1269
BstMAI	GTCTC	1 cut(s)	1178
BstMWI	GCNNNNNNNGC	2 cut(s)	964, 1275
BstNI	CCWGG	3 cut(s)	138, 737, 1088
BstPI	GGTNACC	2 cut(s)	277, 1228
BstSCI	CCNGG	4 cut(s)	136, 735, 830, 1086
BstSFI	CTRYAG	1 cut(s)	860
BstUI	CGCG	1 cut(s)	94
BstV1I	GCAGC	1 cut(s)	874
BstV2I	GAAGAC	4 cut(s)	18, 93, 226, 521
BstX2I	RGATCY	4 cut(s)	208, 664, 940, 1144
BstYI	RGATCY	4 cut(s)	208, 664, 940, 1144
BsuRI	GGCC	2 cut(s)	383, 983
BtgI	CCRYGG	1 cut(s)	951
BtsCI	GGATG	4 cut(s)	75, 298, 880, 1114
BtsI	GCAGTG	2 cut(s)	349, 1041
BtsIMutI	CAGTG	5 cut(s)	349, 492, 749, 1041, 1259
Cac8I	GCNNGC	5 cut(s)	49, 53, 477, 897, 1271
CfoI	GCGC	2 cut(s)	356, 1269
Cfr13I	GGNCC	1 cut(s)	982
CseI	GACGC	1 cut(s)	1183
Csp6I	GTAC	2 cut(s)	258, 1158
CviAII	CATG	2 cut(s)	509, 952
CviQI	GTAC	2 cut(s)	258, 1158
DdeI	CTNAG	3 cut(s)	205, 1148, 1206
Eam1104I	CTCTTC	2 cut(s)	59, 873
EarI	CTCTTC	2 cut(s)	59, 873
Ecl136II	GAGCTC	1 cut(s)	958
Eco130I	CCWWGG	2 cut(s)	951, 1188
Eco24I	GRGCYC	1 cut(s)	960
Eco31I	GGTCTC	1 cut(s)	1178
Eco32I	GATATC	1 cut(s)	796
Eco53kI	GAGCTC	1 cut(s)	958
Eco57I	CTGAAG	4 cut(s)	220, 251, 318, 1283
Eco91I	GGTNACC	2 cut(s)	277, 1228
EcoICRI	GAGCTC	1 cut(s)	958
EcoO65I	GGTNACC	2 cut(s)	277, 1228
EcoRI	GAATTC	1 cut(s)	1112
EcoRII	CCWGG	3 cut(s)	136, 735, 1086
EcoRV	GATATC	1 cut(s)	796
EcoT14I	CCWWGG	2 cut(s)	951, 1188
EcoT38I	GRGCYC	1 cut(s)	960
ErhI	CCWWGG	2 cut(s)	951, 1188
FaeI	CATG	2 cut(s)	512, 955
FalI	AAGNNNNNCTT	2 cut(s)	1202, 1234
FaqI	GGGAC	2 cut(s)	1022, 1226
FatI	CATG	2 cut(s)	508, 951
Fnu4HI	GCNGC	1 cut(s)	863
FokI	GGATG	4 cut(s)	82, 305, 887, 1121
FriOI	GRGCYC	1 cut(s)	960
Fsp4HI	GCNGC	1 cut(s)	863
FspBI	CTAG	1 cut(s)	318
GlaI	GCGC	2 cut(s)	355, 1268
GluI	GCNGC	1 cut(s)	863
GsaI	CCCAGC	1 cut(s)	345
HaeIII	GGCC	2 cut(s)	383, 983
HapII	CCGG	1 cut(s)	832
HgaI	GACGC	1 cut(s)	1183
HhaI	GCGC	2 cut(s)	356, 1269
Hin1II	CATG	2 cut(s)	512, 955
Hin6I	GCGC	2 cut(s)	354, 1267
HinP1I	GCGC	2 cut(s)	354, 1267
HindIII	AAGCTT	3 cut(s)	675, 803, 893
HinfI	GANTC	4 cut(s)	5, 458, 849, 990
HpaII	CCGG	1 cut(s)	832
HphI	GGTGA	1 cut(s)	341
Hpy188I	TCNGA	5 cut(s)	10, 208, 682, 823, 1149
Hpy188III	TCNNGA	4 cut(s)	374, 668, 1020, 1041
HpyAV	CCTTC	2 cut(s)	806, 1244
HpyCH4III	ACNGT	2 cut(s)	121, 1228
HpyCH4V	TGCA	9 cut(s)	479, 506, 586, 635, 862, 922, 946, 1034, 1197
HpyF10VI	GCNNNNNNNGC	2 cut(s)	964, 1275
HpyF3I	CTNAG	3 cut(s)	205, 1148, 1206
Hsp92II	CATG	2 cut(s)	512, 955
HspAI	GCGC	2 cut(s)	354, 1267
LmnI	GCTCC	3 cut(s)	346, 472, 955
Lsp1109I	GCAGC	1 cut(s)	874
LweI	GCATC	2 cut(s)	283, 1021
MaeI	CTAG	1 cut(s)	318
MaeIII	GTNAC	2 cut(s)	277, 1228
MflI	RGATCY	4 cut(s)	208, 664, 940, 1144
MhlI	GDGCHC	3 cut(s)	351, 960, 1095
MluCI	AATT	4 cut(s)	782, 1013, 1112, 1250
MlyI	GAGTC	1 cut(s)	452
MmeI	TCCRAC	2 cut(s)	292, 1280
MnlI	CCTC	9 cut(s)	60, 325, 472, 655, 733, 797, 1164, 1171, 1256
MroXI	GAANNNNTTC	1 cut(s)	499
MseI	TTAA	1 cut(s)	714
MslI	CAYNNNNRTG	1 cut(s)	603
MspI	CCGG	1 cut(s)	832
MspR9I	CCNGG	4 cut(s)	138, 737, 832, 1088
Mva1269I	GAATGC	4 cut(s)	588, 637, 689, 946
MvaI	CCWGG	3 cut(s)	138, 737, 1088
MvnI	CGCG	1 cut(s)	94
MwoI	GCNNNNNNNGC	2 cut(s)	964, 1275
NciI	CCSGG	1 cut(s)	832
NcoI	CCATGG	1 cut(s)	951
NlaIII	CATG	2 cut(s)	512, 955
NlaIV	GGNNCC	1 cut(s)	159
NmeAIII	GCCGAG	1 cut(s)	241
PctI	GAATGC	4 cut(s)	588, 637, 689, 946
PdmI	GAANNNNTTC	1 cut(s)	499
PfeI	GAWTC	3 cut(s)	5, 849, 990
PfoI	TCCNGGA	1 cut(s)	136
PkrI	GCNGC	1 cut(s)	864
PleI	GAGTC	1 cut(s)	452
PpsI	GAGTC	1 cut(s)	452
PsiI	TTATAA	3 cut(s)	929, 1004, 1223
Psp124BI	GAGCTC	1 cut(s)	960
Psp6I	CCWGG	3 cut(s)	136, 735, 1086
PspEI	GGTNACC	2 cut(s)	277, 1228
PspFI	CCCAGC	1 cut(s)	341
PspGI	CCWGG	3 cut(s)	136, 735, 1086
PspN4I	GGNNCC	1 cut(s)	159
PspPI	GGNCC	1 cut(s)	982
PstI	CTGCAG	1 cut(s)	864
PsuI	RGATCY	4 cut(s)	208, 664, 940, 1144
RsaI	GTAC	2 cut(s)	259, 1159
RsaNI	GTAC	2 cut(s)	258, 1158
RseI	CAYNNNNRTG	1 cut(s)	603
SacI	GAGCTC	1 cut(s)	960
SaqAI	TTAA	1 cut(s)	714
SatI	GCNGC	1 cut(s)	863
Sau96I	GGNCC	1 cut(s)	982
SchI	GAGTC	1 cut(s)	452
ScrFI	CCNGG	4 cut(s)	138, 737, 832, 1088
SduI	GDGCHC	3 cut(s)	351, 960, 1095
SfaNI	GCATC	2 cut(s)	283, 1021
SfcI	CTRYAG	1 cut(s)	860
SmiMI	CAYNNNNRTG	1 cut(s)	603
SmlI	CTYRAG	1 cut(s)	959
SmoI	CTYRAG	1 cut(s)	959
Sse9I	AATT	4 cut(s)	782, 1013, 1112, 1250
SspMI	CTAG	1 cut(s)	318
SstI	GAGCTC	1 cut(s)	960
StyD4I	CCNGG	4 cut(s)	136, 735, 830, 1086
StyI	CCWWGG	2 cut(s)	951, 1188
TaaI	ACNGT	2 cut(s)	121, 1228
TaqI	TCGA	1 cut(s)	1040
TasI	AATT	4 cut(s)	782, 1013, 1112, 1250
TfiI	GAWTC	3 cut(s)	5, 849, 990
Tru1I	TTAA	1 cut(s)	714
Tru9I	TTAA	1 cut(s)	714
TscAI	CASTG	5 cut(s)	356, 492, 756, 1041, 1266
TseI	GCWGC	1 cut(s)	862
TspDTI	ATGAA	4 cut(s)	86, 527, 891, 1125
TspGWI	ACGGA	1 cut(s)	615
TspRI	CASTG	5 cut(s)	356, 492, 756, 1041, 1266
XapI	RAATTY	3 cut(s)	782, 1013, 1112
XmnI	GAANNNNTTC	1 cut(s)	499
XspI	CTAG	1 cut(s)	318

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