Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0005906

Physical Location & Seq

Genomic Coordinates Forward (+)

4803770 .. 4806413

Gene Structure 2644 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG070900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1266 bp

ATGGCCGATATGATGGGTTTTGTTCATTTATTAAGTTCTCACTCTTTTTTAGTACGACCATGTGTTCAATTACTGTTTCTCATTGATTTTTTTTGTGCGTTTTCAGGGGTTTACATTACAAGGGTCGACTATTTGCAGCAAAAAGTGACGGTCATTGGGAATGTGGAGGCTGAAACTTTGATCAAGACACTGACCAAGAAAACAACGAAGCACGTTGAGTTGTTGTGGCCTGACCCGAAAGACAATTCCAAAGACAAGAAACACAGTAAACCCAAAGGCAATGAGAAACAGAGTGAAATCTCCGAGGAAGCAAAAGAAAACCACGGCGGCGGCGGCGGAGATAAGAAAAAGGGTAAAGAACCGGTGAAGGATGAAGTTGTTGAAGTGCAAGAGTCAGGTGGGGGTAAGAAGAACTTTGAAGTTGGTAGTTCTAGCAATAGTAAAGGTGCTGAGGAAGGTAATGTTGTTAAACCACATGAGGGTGGCGGCGGTGGTGGGGAAGGAAAATTAAAGGAGGCACAGACTGGCAGCTTGCCCAGCCAGTCACAGCCGGCGGCGGCTGAAAAGCAAAGTGGGGGTGTTGAGAGTGAAGCTGTGGGGGAGAAAAGTGGAGGTGGTGCTGGCAATGGCAGTGGTGGTGGGGGTGGGGGTAAAAAGAAAAAGGGCAAGGGGCAGAACGGGAATCACAATGTCAATGCTGCTGAAGGTGAACTGATTGTCAATGCACCAAGCACCGGTTCACCATCGGTTCAGCCCGGTCCTCAGCCTCAGCCTCAGCCCGGGCCTCAGCCTCATGGCCCGCCACCTCAGCAGCAGGTGTATGAGCACCCGTACTACCCAAGGCAGCAGCAGCAGTATGAGCATCCTTACCCAAGGCAGCAGCACTATGAGCACCCTTACCCAATGCAGCAGCAGCAGTATGAGCATCCTTACCCAAGGCAGCAGCACTATGAGCACCCTTACCCAATGCAGCAGCAACAGCACTTTACTCCTGTGCATGCGATGAACTACAATGCAGCACACCCCAGCATTAGCTACGGTGCGGCTCGCTATGCTCCACAGCCTGTTTATTCTCAGTCGCACACTTATGCACATCGGAGTTTGGGAAATGAGGTTGATCCACCAGCCTATGATTTGGACAACCTTCCGCCAGCGCCGCCGTCCCATCCTCCACAGGCCTATCCACCACATCCTTACAACTCATCTGATTCCGATACCTATGCATTCTTCAGTGATGAAAATCCAAATGGGTGCGGTATCATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006810 GO:0006811 GO:0006812 GO:0006873 GO:0006875 GO:0008150 GO:0009987 GO:0019725 GO:0030001 GO:0030003 GO:0042592 GO:0043167 GO:0043169 GO:0044424 GO:0044464 GO:0046872 GO:0046914 GO:0046916 GO:0048878 GO:0050801 GO:0051179 GO:0051234 GO:0055065 GO:0055076 GO:0055080 GO:0055082 GO:0065007 GO:0065008 GO:0098771

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HMA

Protein Analysis

421

Amino Acids

45.7

Weight (kDa)

6.34

Isoelectric Point (pI)

48.13

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0005906)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g09921 FvH4_6g06500
malus_domestica	MD04G1201300.v1.1 MD12G1213700.v1.1
prunus_persica	Prupe.6G321400_v2.0.a1 Prupe.6G321400_v2.0.a1
pyrus_communis	pycom04g17730 pycom12g19960
rosa_chinensis	RchiOBHm_Chr3g0455651
rosa_laevigata	RLG00000000137 RLG00000000144 RLG00000000152 RLG00000000192 RLG00000000428 RLG00000000490 RLG00000025343
rosa_multiflora	Rmu_sc0002883.1_g000006
rosa_roxburghii	Rroxscaffold_6G00423630 Rroxscaffold_6G00424130
rosa_rugosa	Rorug03G0009000
rosa_samantha	Rh3AG068500 Rh3BG071000 Rh3CG069300 Rh3DG070900 Rh5BG485600 Rh6CG178600 Rh6DG170400
rosa_wichuraiana	Rw3G005490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	805
Acc36I	ACCTGC	1 cut(s)	805
AccI	GTMKAC	1 cut(s)	126
AclWI	GGATC	1 cut(s)	1112
AcoI	YGGCCR	1 cut(s)	3
AcuI	CTGAAG	2 cut(s)	723, 1213
AfaI	GTAC	2 cut(s)	54, 833
AfiI	CCNNNNNNNGG	3 cut(s)	479, 734, 779
AgeI	ACCGGT	2 cut(s)	361, 734
AgsI	TTSAA	3 cut(s)	68, 383, 419
AjuI	GAANNNNNNNTTGG	2 cut(s)	721, 753
AluBI	AGCT	3 cut(s)	531, 593, 1035
AluI	AGCT	3 cut(s)	531, 593, 1035
Alw21I	GWGCWC	3 cut(s)	828, 894, 957
AlwI	GGATC	1 cut(s)	1112
Ama87I	CYCGRG	1 cut(s)	779
AoxI	GGCC	5 cut(s)	3, 227, 782, 796, 1176
AsiGI	ACCGGT	2 cut(s)	361, 734
AspLEI	GCGC	1 cut(s)	1156
AspS9I	GGNCC	3 cut(s)	758, 782, 797
AsuC2I	CCSGG	3 cut(s)	756, 780, 781
AsuHPI	GGTGA	3 cut(s)	376, 719, 732
AvaI	CYCGRG	1 cut(s)	779
AvaII	GGWCC	1 cut(s)	758
Bbv12I	GWGCWC	3 cut(s)	828, 894, 957
BbvCI	CCTCAGC	6 cut(s)	450, 762, 768, 774, 786, 807
BccI	CCATC	3 cut(s)	7, 751, 1173
BceAI	ACGGC	2 cut(s)	340, 1144
BcgI	CGANNNNNNTGC	2 cut(s)	1202, 1236
BclI	TGATCA	1 cut(s)	180
BcnI	CCSGG	3 cut(s)	756, 780, 781
BfaI	CTAG	1 cut(s)	432
BfoI	RGCGCY	1 cut(s)	1157
BfuAI	ACCTGC	1 cut(s)	805
Bme1390I	CCNGG	3 cut(s)	756, 780, 781
Bme18I	GGWCC	1 cut(s)	758
BmeT110I	CYCGRG	1 cut(s)	779
BmgT120I	GGNCC	3 cut(s)	758, 782, 797
BmrFI	CCNGG	3 cut(s)	756, 780, 781
BmsI	GCATC	2 cut(s)	871, 934
Bpu10I	CCTNAGC	6 cut(s)	450, 762, 768, 774, 786, 807
BpuMI	CCSGG	3 cut(s)	756, 780, 781
BsaBI	GATNNNNATC	1 cut(s)	1239
BsaJI	CCNNGG	6 cut(s)	303, 322, 779, 839, 872, 935
BsaWI	WCCGGW	2 cut(s)	361, 734
Bsc4I	CCNNNNNNNGG	3 cut(s)	479, 734, 779
Bse118I	RCCGGY	3 cut(s)	361, 550, 734
Bse1I	ACTGG	2 cut(s)	529, 541
Bse3DI	GCAATG	2 cut(s)	286, 631
Bse8I	GATNNNNATC	1 cut(s)	1239
BseDI	CCNNGG	6 cut(s)	303, 322, 779, 839, 872, 935
BseGI	GGATG	5 cut(s)	376, 862, 925, 1165, 1189
BseJI	GATNNNNATC	1 cut(s)	1239
BseLI	CCNNNNNNNGG	3 cut(s)	479, 734, 779
BseMI	GCAATG	2 cut(s)	286, 631
BseMII	CTCAG	7 cut(s)	441, 776, 782, 788, 800, 821, 1088
BseNI	ACTGG	2 cut(s)	529, 541
BseYI	CCCAGC	2 cut(s)	536, 1025
BshFI	GGCC	5 cut(s)	5, 229, 784, 798, 1178
BshTI	ACCGGT	2 cut(s)	361, 734
BsiHKAI	GWGCWC	3 cut(s)	828, 894, 957
BsiHKCI	CYCGRG	1 cut(s)	779
BsiSI	CCGG	5 cut(s)	362, 551, 735, 756, 780
BslFI	GGGAC	1 cut(s)	1147
BslI	CCNNNNNNNGG	3 cut(s)	479, 734, 779
BsmFI	GGGAC	1 cut(s)	1147
BsmI	GAATGC	1 cut(s)	1223
BsnI	GGCC	5 cut(s)	5, 229, 784, 798, 1178
BsoBI	CYCGRG	1 cut(s)	779
Bsp1286I	GDGCHC	3 cut(s)	828, 894, 957
Bsp143I	GATC	2 cut(s)	180, 1117
BspANI	GGCC	5 cut(s)	5, 229, 784, 798, 1178
BspCNI	CTCAG	7 cut(s)	442, 775, 781, 787, 799, 820, 1087
BspMI	ACCTGC	1 cut(s)	805
BspPI	GGATC	1 cut(s)	1112
BsrDI	GCAATG	2 cut(s)	286, 631
BsrFI	RCCGGY	3 cut(s)	361, 550, 734
BsrI	ACTGG	2 cut(s)	529, 541
BssAI	RCCGGY	3 cut(s)	361, 550, 734
BssECI	CCNNGG	6 cut(s)	303, 322, 779, 839, 872, 935
BssMI	GATC	2 cut(s)	180, 1117
BssT1I	CCWWGG	3 cut(s)	839, 872, 935
Bst4CI	ACNGT	4 cut(s)	75, 151, 266, 1040
BstC8I	GCNNGC	7 cut(s)	533, 552, 622, 800, 999, 1048, 1152
BstDEI	CTNAG	7 cut(s)	450, 762, 768, 774, 786, 807, 1074
BstDSI	CCRYGG	1 cut(s)	322
BstF5I	GGATG	5 cut(s)	376, 862, 925, 1165, 1189
BstH2I	RGCGCY	1 cut(s)	1157
BstHHI	GCGC	1 cut(s)	1156
BstKTI	GATC	2 cut(s)	183, 1120
BstMBI	GATC	2 cut(s)	180, 1117
BstNSI	RCATGY	1 cut(s)	1001
BstSCI	CCNGG	3 cut(s)	754, 778, 779
BsuRI	GGCC	5 cut(s)	5, 229, 784, 798, 1178
BtgI	CCRYGG	1 cut(s)	322
BtgZI	GCGATG	1 cut(s)	1016
BtsCI	GGATG	5 cut(s)	376, 862, 925, 1165, 1189
BtsI	GCAGTG	1 cut(s)	637
BtsIMutI	CAGTG	3 cut(s)	188, 637, 1237
BveI	ACCTGC	1 cut(s)	805
Cac8I	GCNNGC	7 cut(s)	533, 552, 622, 800, 999, 1048, 1152
CfoI	GCGC	1 cut(s)	1156
Cfr10I	RCCGGY	3 cut(s)	361, 550, 734
Cfr13I	GGNCC	3 cut(s)	758, 782, 797
Cfr9I	CCCGGG	1 cut(s)	779
Csp6I	GTAC	2 cut(s)	53, 832
CspAI	ACCGGT	2 cut(s)	361, 734
CspCI	CAANNNNNGTGG	2 cut(s)	613, 648
CviAII	CATG	5 cut(s)	60, 476, 794, 998, 1261
CviQI	GTAC	2 cut(s)	53, 832
DdeI	CTNAG	7 cut(s)	450, 762, 768, 774, 786, 807, 1074
DpnI	GATC	2 cut(s)	182, 1119
DpnII	GATC	2 cut(s)	180, 1117
EaeI	YGGCCR	1 cut(s)	3
EciI	GGCGGA	2 cut(s)	351, 1137
Eco130I	CCWWGG	3 cut(s)	839, 872, 935
Eco147I	AGGCCT	1 cut(s)	1178
Eco47I	GGWCC	1 cut(s)	758
Eco57I	CTGAAG	2 cut(s)	723, 1213
Eco88I	CYCGRG	1 cut(s)	779
EcoT14I	CCWWGG	3 cut(s)	839, 872, 935
EcoT22I	ATGCAT	1 cut(s)	1225
ErhI	CCWWGG	3 cut(s)	839, 872, 935
FaeI	CATG	5 cut(s)	63, 479, 797, 1001, 1264
FalI	AAGNNNNNCTT	2 cut(s)	398, 430
FaqI	GGGAC	1 cut(s)	1147
FatI	CATG	5 cut(s)	59, 475, 793, 997, 1260
FauI	CCCGC	1 cut(s)	807
FbaI	TGATCA	1 cut(s)	180
FblI	GTMKAC	1 cut(s)	126
FokI	GGATG	5 cut(s)	383, 849, 912, 1152, 1176
FspBI	CTAG	1 cut(s)	432
GlaI	GCGC	1 cut(s)	1155
GsaI	CCCAGC	2 cut(s)	540, 1029
HaeII	RGCGCY	1 cut(s)	1157
HaeIII	GGCC	5 cut(s)	5, 229, 784, 798, 1178
HapII	CCGG	5 cut(s)	362, 551, 735, 756, 780
HhaI	GCGC	1 cut(s)	1156
Hin1II	CATG	5 cut(s)	63, 479, 797, 1001, 1264
Hin6I	GCGC	1 cut(s)	1154
HinP1I	GCGC	1 cut(s)	1154
HincII	GTYRAC	1 cut(s)	127
HindII	GTYRAC	1 cut(s)	127
HinfI	GANTC	3 cut(s)	392, 682, 1208
HpaII	CCGG	5 cut(s)	362, 551, 735, 756, 780
HphI	GGTGA	3 cut(s)	376, 719, 732
Hpy166II	GTNNAC	5 cut(s)	112, 127, 269, 710, 740
Hpy188I	TCNGA	4 cut(s)	304, 1098, 1207, 1213
Hpy188III	TCNNGA	1 cut(s)	184
Hpy8I	GTNNAC	5 cut(s)	112, 127, 269, 710, 740
HpyAV	CCTTC	5 cut(s)	361, 449, 494, 698, 1154
HpyCH4III	ACNGT	4 cut(s)	75, 151, 266, 1040
HpyCH4IV	ACGT	1 cut(s)	213
HpyCH4V	TGCA	9 cut(s)	136, 388, 725, 907, 970, 997, 1016, 1091, 1223
HpyF3I	CTNAG	7 cut(s)	450, 762, 768, 774, 786, 807, 1074
HpySE526I	ACGT	1 cut(s)	213
Hsp92II	CATG	5 cut(s)	63, 479, 797, 1001, 1264
HspAI	GCGC	1 cut(s)	1154
KroI	GCCGGC	1 cut(s)	550
KroNI	GCCGGC	1 cut(s)	552
Ksp22I	TGATCA	1 cut(s)	180
Kzo9I	GATC	2 cut(s)	180, 1117
LmnI	GCTCC	1 cut(s)	1060
LweI	GCATC	2 cut(s)	871, 934
MaeI	CTAG	1 cut(s)	432
MaeII	ACGT	1 cut(s)	213
MaeIII	GTNAC	2 cut(s)	145, 543
MalI	GATC	2 cut(s)	182, 1119
MboI	GATC	2 cut(s)	180, 1117
MboII	GAAGA	2 cut(s)	421, 1219
MhlI	GDGCHC	3 cut(s)	828, 894, 957
MluCI	AATT	3 cut(s)	68, 244, 506
MlyI	GAGTC	1 cut(s)	401
Mph1103I	ATGCAT	1 cut(s)	1225
MroNI	GCCGGC	1 cut(s)	550
MseI	TTAA	3 cut(s)	32, 468, 509
MslI	CAYNNNNRTG	2 cut(s)	480, 1086
MspI	CCGG	5 cut(s)	362, 551, 735, 756, 780
MspR9I	CCNGG	3 cut(s)	756, 780, 781
Mva1269I	GAATGC	1 cut(s)	1223
NaeI	GCCGGC	1 cut(s)	552
NciI	CCSGG	3 cut(s)	756, 780, 781
NdeII	GATC	2 cut(s)	180, 1117
NgoMIV	GCCGGC	1 cut(s)	550
NlaIII	CATG	5 cut(s)	63, 479, 797, 1001, 1264
NmuCI	GTSAC	2 cut(s)	145, 543
NsiI	ATGCAT	1 cut(s)	1225
NspI	RCATGY	1 cut(s)	1001
PaeI	GCATGC	1 cut(s)	1001
PaqCI	CACCTGC	1 cut(s)	805
PceI	AGGCCT	1 cut(s)	1178
PctI	GAATGC	1 cut(s)	1223
PdiI	GCCGGC	1 cut(s)	552
PfeI	GAWTC	2 cut(s)	682, 1208
PinAI	ACCGGT	2 cut(s)	361, 734
PleI	GAGTC	1 cut(s)	400
PpsI	GAGTC	1 cut(s)	400
PspFI	CCCAGC	2 cut(s)	536, 1025
PspPI	GGNCC	3 cut(s)	758, 782, 797
RsaI	GTAC	2 cut(s)	54, 833
RsaNI	GTAC	2 cut(s)	53, 832
RseI	CAYNNNNRTG	2 cut(s)	480, 1086
SalI	GTCGAC	1 cut(s)	125
SaqAI	TTAA	3 cut(s)	32, 468, 509
Sau3AI	GATC	2 cut(s)	180, 1117
Sau96I	GGNCC	3 cut(s)	758, 782, 797
SchI	GAGTC	1 cut(s)	401
ScrFI	CCNGG	3 cut(s)	756, 780, 781
SduI	GDGCHC	3 cut(s)	828, 894, 957
SfaNI	GCATC	2 cut(s)	871, 934
SinI	GGWCC	1 cut(s)	758
SmaI	CCCGGG	1 cut(s)	781
SmiMI	CAYNNNNRTG	2 cut(s)	480, 1086
SphI	GCATGC	1 cut(s)	1001
SrfI	GCCCGGGC	1 cut(s)	781
Sse9I	AATT	3 cut(s)	68, 244, 506
SseBI	AGGCCT	1 cut(s)	1178
SspMI	CTAG	1 cut(s)	432
StuI	AGGCCT	1 cut(s)	1178
StyD4I	CCNGG	3 cut(s)	754, 778, 779
StyI	CCWWGG	3 cut(s)	839, 872, 935
TaaI	ACNGT	4 cut(s)	75, 151, 266, 1040
TaiI	ACGT	1 cut(s)	216
TaqI	TCGA	1 cut(s)	126
TasI	AATT	3 cut(s)	68, 244, 506
TauI	GCSGC	8 cut(s)	330, 333, 336, 489, 557, 560, 1046, 1159
TfiI	GAWTC	2 cut(s)	682, 1208
Tru1I	TTAA	3 cut(s)	32, 468, 509
Tru9I	TTAA	3 cut(s)	32, 468, 509
TscAI	CASTG	3 cut(s)	195, 637, 1237
TseFI	GTSAC	2 cut(s)	145, 543
Tsp45I	GTSAC	2 cut(s)	145, 543
TspDTI	ATGAA	4 cut(s)	14, 387, 1019, 1251
TspMI	CCCGGG	1 cut(s)	779
TspRI	CASTG	3 cut(s)	195, 637, 1237
VpaK11BI	GGWCC	1 cut(s)	758
XceI	RCATGY	1 cut(s)	1001
XmaI	CCCGGG	1 cut(s)	779
XmiI	GTMKAC	1 cut(s)	126
XspI	CTAG	1 cut(s)	432
Zsp2I	ATGCAT	1 cut(s)	1225

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