Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0006234

Physical Location & Seq

Genomic Coordinates Forward (+)

12635847 .. 12639334

Gene Structure 3488 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG084200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGTCTGAACGAGAAGCAGGAGCAGGAGGTTCTGATGGGGTTTTATGGGAAAACCAGTCATGGGTTCATTTGTCCAATTCTACTGACAATTTTTTGTTGAACTCCAATTCCGAGAATTCAGCTGGTGGTGGCGATGAGGGGGAGGATAAATTAGGGGAGAAGGAGAAAGAAATGATGGAGAGAGAAGATCGGGTGCAACCAGAAGTAGAGCCGGTGGCTGCTCCGGGTAAGAAGACTCTGGTTAAGAAGCGAGTTGGTCGAGGTGGTGCCAGCGGTGTCAAGAAGCATAACGGGAAGGCCACCAAGGGAAAGGGGATAGGGAGTAGTGATGAGGTGGTGGAAGAAGGAAAAGGAGGGGACGGTGATTCTGAGGATGATCATGAGCTGCATATATACACTGAGAGAGAAAGGAGGAAAAAGATGAGGAACATGTTTGCCAACCTTCATGCTTTGCTTCCTCAACTTCCTTCTAAGGCTGACAAATCCACAATCGTTGATGAGGCAGTTAGCTACATAAAAAGGCTTGAGATCACTCTACAATCCCTACAACAACAAAAGAGGGAGAGGATGCGAAGTCTCCCAAGTAGCAGTATGGTCAATCACAATCACTCATCAGTACTTATGAACTCACAAAATGTAGCCTATGACTCAAAAGAGGCCTTCCTAGCTTCCCATGCTTCTTCCAGTAACTTGGCCGCTGCTTCTACTACTACTGCAAATGGATTCAACATCAATCCTGATTTCAATCCGTTGAACCATTCACTCTCAACCAACTCACTTTCCACCGAACCTATAGTGTTTGAAACCTGGACCTCATCCAATGTCGTGTTGAACATGTGCAGAGATGAAGCACAAATTAGTGTGTGCAGCCCAAAGAAGCCAGGTGTCTTTACCCAGATTTGCTTCATTTTGGAGAAGTACAAGATTGTAGTGGTAACAGCTCATATTATCTCAGACTCTCATCGCAGCATGTACATGATTCAAGCACAGCCAAGCAGAGCTCCTGATAATCAGTTTCTGGAGATGTTTCCAACAGTGGAAATATTCAAGCAAGCTGTGAGTGAGATAAATGTGTGGATCGTCTCCACTTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0010154 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

364

Amino Acids

40.16

Weight (kDa)

5.92

Isoelectric Point (pI)

46.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	130 - 176	1.1e-10	Helix-loop-helix DNA-binding 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: OG0006234)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G49770
fragaria_vesca	FvH4_2g05810
malus_domestica	MD05G1083300.v1.1 MD15G1079900.v1.1
prunus_persica	Prupe.1G432900_v2.0.a1 Prupe.8G127700_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0257881 RchiOBHm_Chr6g0308241
rosa_laevigata	RLG00000010655 RLG00000014735
rosa_multiflora	Rmu_co8385913.1_g000001 Rmu_sc0000077.1_g000033
rosa_roxburghii	Rroxscaffold_7G00209030
rosa_rugosa	Rorug05G0567100 Rorug06G0365300 Rorug06G0365300 Rorug06G0365400
rosa_samantha	Rh6AG084200 Rh6AG474300 Rh6BG078800 Rh6BG485000 Rh6CG073500 Rh6CG490000 Rh6DG070400 Rh6DG476400
rosa_wichuraiana	Rw6G007590 Rw6G041370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	266
AciI	CCGC	2 cut(s)	273, 696
AclWI	GGATC	1 cut(s)	1085
AcoI	YGGCCR	1 cut(s)	693
AcsI	RAATTY	1 cut(s)	115
AfaI	GTAC	3 cut(s)	618, 920, 974
AfiI	CCNNNNNNNGG	1 cut(s)	61
AflIII	ACRYGT	2 cut(s)	429, 834
AgsI	TTSAA	8 cut(s)	100, 727, 745, 754, 803, 832, 983, 1048
AjnI	CCWGG	2 cut(s)	806, 880
AloI	GAACNNNNNNTCC	2 cut(s)	92, 124
AluBI	AGCT	7 cut(s)	122, 385, 510, 668, 941, 1001, 1055
AluI	AGCT	7 cut(s)	122, 385, 510, 668, 941, 1001, 1055
Alw21I	GWGCWC	1 cut(s)	1003
Alw26I	GTCTC	2 cut(s)	581, 1087
AlwI	GGATC	1 cut(s)	1085
AlwNI	CAGNNNCTG	1 cut(s)	1018
AoxI	GGCC	3 cut(s)	297, 657, 693
ApeKI	GCWGC	5 cut(s)	218, 385, 698, 867, 966
ApoI	RAATTY	1 cut(s)	115
AspS9I	GGNCC	1 cut(s)	810
AsuC2I	CCSGG	1 cut(s)	225
AsuHPI	GGTGA	1 cut(s)	374
AvaII	GGWCC	1 cut(s)	810
BanI	GGYRCC	1 cut(s)	266
BanII	GRGCYC	1 cut(s)	1003
BbsI	GAAGAC	1 cut(s)	239
Bbv12I	GWGCWC	1 cut(s)	1003
BbvI	GCAGC	5 cut(s)	205, 372, 685, 879, 978
BccI	CCATC	2 cut(s)	29, 169
BciT130I	CCWGG	2 cut(s)	808, 882
BclI	TGATCA	1 cut(s)	376
BcnI	CCSGG	1 cut(s)	225
BcoDI	GTCTC	2 cut(s)	581, 1087
BfaI	CTAG	1 cut(s)	665
BfmI	CTRYAG	1 cut(s)	792
BisI	GCNGC	6 cut(s)	219, 386, 696, 699, 868, 967
BlsI	GCNGC	6 cut(s)	220, 387, 697, 700, 869, 968
BmcAI	AGTACT	1 cut(s)	618
Bme1390I	CCNGG	3 cut(s)	225, 808, 882
Bme18I	GGWCC	1 cut(s)	810
BmgT120I	GGNCC	1 cut(s)	810
BmiI	GGNNCC	1 cut(s)	268
BmrFI	CCNGG	3 cut(s)	225, 808, 882
BmsI	GCATC	1 cut(s)	558
BpiI	GAAGAC	1 cut(s)	239
BpmI	CTGGAG	1 cut(s)	1040
BpuEI	CTTGAG	1 cut(s)	545
BpuMI	CCSGG	1 cut(s)	225
BsaBI	GATNNNNATC	1 cut(s)	744
BsaJI	CCNNGG	1 cut(s)	303
Bsc4I	CCNNNNNNNGG	1 cut(s)	61
Bse118I	RCCGGY	1 cut(s)	211
Bse1I	ACTGG	2 cut(s)	55, 684
Bse8I	GATNNNNATC	1 cut(s)	744
BseBI	CCWGG	2 cut(s)	808, 882
BseDI	CCNNGG	1 cut(s)	303
BseGI	GGATG	3 cut(s)	379, 573, 815
BseJI	GATNNNNATC	1 cut(s)	744
BseLI	CCNNNNNNNGG	1 cut(s)	61
BseMII	CTCAG	3 cut(s)	360, 390, 966
BseNI	ACTGG	2 cut(s)	55, 684
BseXI	GCAGC	5 cut(s)	205, 372, 685, 879, 978
BsgI	GTGCAG	2 cut(s)	859, 886
BshFI	GGCC	3 cut(s)	299, 659, 695
BshNI	GGYRCC	1 cut(s)	266
BsiHKAI	GWGCWC	1 cut(s)	1003
BsiSI	CCGG	2 cut(s)	212, 224
BslFI	GGGAC	1 cut(s)	371
BslI	CCNNNNNNNGG	1 cut(s)	61
BsmAI	GTCTC	2 cut(s)	581, 1087
BsmBI	CGTCTC	1 cut(s)	1087
BsmFI	GGGAC	1 cut(s)	371
BsnI	GGCC	3 cut(s)	299, 659, 695
Bsp1286I	GDGCHC	1 cut(s)	1003
Bsp1407I	TGTACA	1 cut(s)	972
Bsp143I	GATC	4 cut(s)	187, 376, 528, 1077
BspACI	CCGC	2 cut(s)	273, 696
BspANI	GGCC	3 cut(s)	299, 659, 695
BspCNI	CTCAG	3 cut(s)	361, 391, 965
BspHI	TCATGA	1 cut(s)	379
BspLI	GGNNCC	1 cut(s)	268
BspPI	GGATC	1 cut(s)	1085
BspT107I	GGYRCC	1 cut(s)	266
BsrFI	RCCGGY	1 cut(s)	211
BsrGI	TGTACA	1 cut(s)	972
BsrI	ACTGG	2 cut(s)	55, 684
BssAI	RCCGGY	1 cut(s)	211
BssECI	CCNNGG	1 cut(s)	303
BssMI	GATC	4 cut(s)	187, 376, 528, 1077
BssT1I	CCWWGG	1 cut(s)	303
Bst2UI	CCWGG	2 cut(s)	808, 882
Bst4CI	ACNGT	2 cut(s)	362, 1036
BstAUI	TGTACA	1 cut(s)	972
BstC8I	GCNNGC	2 cut(s)	271, 1053
BstDEI	CTNAG	4 cut(s)	369, 399, 471, 952
BstF5I	GGATG	3 cut(s)	379, 573, 815
BstKTI	GATC	4 cut(s)	190, 379, 531, 1080
BstMAI	GTCTC	2 cut(s)	581, 1087
BstMBI	GATC	4 cut(s)	187, 376, 528, 1077
BstMWI	GCNNNNNNNGC	2 cut(s)	665, 674
BstNI	CCWGG	2 cut(s)	808, 882
BstNSI	RCATGY	3 cut(s)	433, 838, 973
BstSCI	CCNGG	3 cut(s)	223, 806, 880
BstSFI	CTRYAG	1 cut(s)	792
BstV1I	GCAGC	5 cut(s)	205, 372, 685, 879, 978
BstV2I	GAAGAC	1 cut(s)	239
BstXI	CCANNNNNNTGG	1 cut(s)	691
BsuRI	GGCC	3 cut(s)	299, 659, 695
BtgZI	GCGATG	2 cut(s)	147, 947
BtsCI	GGATG	3 cut(s)	379, 573, 815
BtsIMutI	CAGTG	2 cut(s)	396, 1041
Cac8I	GCNNGC	2 cut(s)	271, 1053
CaiI	CAGNNNCTG	1 cut(s)	1018
CciI	TCATGA	1 cut(s)	379
Cfr10I	RCCGGY	1 cut(s)	211
Cfr13I	GGNCC	1 cut(s)	810
Csp6I	GTAC	3 cut(s)	617, 919, 973
CspCI	CAANNNNNGTGG	2 cut(s)	475, 510
CviAII	CATG	8 cut(s)	60, 380, 430, 446, 674, 835, 970, 976
CviQI	GTAC	3 cut(s)	617, 919, 973
DdeI	CTNAG	4 cut(s)	369, 399, 471, 952
DpnI	GATC	4 cut(s)	189, 378, 530, 1079
DpnII	GATC	4 cut(s)	187, 376, 528, 1077
EaeI	YGGCCR	1 cut(s)	693
Ecl136II	GAGCTC	1 cut(s)	1001
Eco130I	CCWWGG	1 cut(s)	303
Eco147I	AGGCCT	1 cut(s)	659
Eco24I	GRGCYC	1 cut(s)	1003
Eco47I	GGWCC	1 cut(s)	810
Eco53kI	GAGCTC	1 cut(s)	1001
EcoICRI	GAGCTC	1 cut(s)	1001
EcoRI	GAATTC	1 cut(s)	115
EcoRII	CCWGG	2 cut(s)	806, 880
EcoT14I	CCWWGG	1 cut(s)	303
EcoT38I	GRGCYC	1 cut(s)	1003
ErhI	CCWWGG	1 cut(s)	303
Esp3I	CGTCTC	1 cut(s)	1087
FaeI	CATG	8 cut(s)	63, 383, 433, 449, 677, 838, 973, 979
FaqI	GGGAC	1 cut(s)	371
FatI	CATG	8 cut(s)	59, 379, 429, 445, 673, 834, 969, 975
FbaI	TGATCA	1 cut(s)	376
Fnu4HI	GCNGC	6 cut(s)	219, 386, 696, 699, 868, 967
FokI	GGATG	3 cut(s)	386, 580, 802
FriOI	GRGCYC	1 cut(s)	1003
Fsp4HI	GCNGC	6 cut(s)	219, 386, 696, 699, 868, 967
FspBI	CTAG	1 cut(s)	665
GluI	GCNGC	6 cut(s)	219, 386, 696, 699, 868, 967
GsuI	CTGGAG	1 cut(s)	1040
HaeIII	GGCC	3 cut(s)	299, 659, 695
HapII	CCGG	2 cut(s)	212, 224
Hin1II	CATG	8 cut(s)	63, 383, 433, 449, 677, 838, 973, 979
HinfI	GANTC	6 cut(s)	235, 365, 647, 723, 956, 979
HpaII	CCGG	2 cut(s)	212, 224
HphI	GGTGA	1 cut(s)	374
Hpy188I	TCNGA	5 cut(s)	7, 34, 112, 370, 955
Hpy188III	TCNNGA	5 cut(s)	280, 380, 737, 1004, 1019
HpyAV	CCTTC	6 cut(s)	154, 289, 338, 452, 477, 670
HpyCH4III	ACNGT	2 cut(s)	362, 1036
HpyCH4V	TGCA	5 cut(s)	196, 388, 716, 840, 867
HpyF10VI	GCNNNNNNNGC	2 cut(s)	665, 674
HpyF3I	CTNAG	4 cut(s)	369, 399, 471, 952
Hsp92II	CATG	8 cut(s)	63, 383, 433, 449, 677, 838, 973, 979
Ksp22I	TGATCA	1 cut(s)	376
Kzo9I	GATC	4 cut(s)	187, 376, 528, 1077
LmnI	GCTCC	3 cut(s)	20, 226, 1006
Lsp1109I	GCAGC	5 cut(s)	205, 372, 685, 879, 978
LweI	GCATC	1 cut(s)	558
MaeI	CTAG	1 cut(s)	665
MaeIII	GTNAC	2 cut(s)	686, 934
MalI	GATC	4 cut(s)	189, 378, 530, 1079
MboI	GATC	4 cut(s)	187, 376, 528, 1077
MboII	GAAGA	4 cut(s)	197, 244, 353, 672
MhlI	GDGCHC	1 cut(s)	1003
MluCI	AATT	6 cut(s)	76, 88, 106, 115, 149, 855
MlyI	GAGTC	3 cut(s)	229, 641, 950
MmeI	TCCRAC	1 cut(s)	1055
MseI	TTAA	2 cut(s)	243, 1093
MslI	CAYNNNNRTG	1 cut(s)	974
MspA1I	CMGCKG	3 cut(s)	122, 273, 698
MspI	CCGG	2 cut(s)	212, 224
MspR9I	CCNGG	3 cut(s)	225, 808, 882
MvaI	CCWGG	2 cut(s)	808, 882
MwoI	GCNNNNNNNGC	2 cut(s)	665, 674
NciI	CCSGG	1 cut(s)	225
NdeII	GATC	4 cut(s)	187, 376, 528, 1077
NlaIII	CATG	8 cut(s)	63, 383, 433, 449, 677, 838, 973, 979
NlaIV	GGNNCC	1 cut(s)	268
NspI	RCATGY	3 cut(s)	433, 838, 973
PagI	TCATGA	1 cut(s)	379
PceI	AGGCCT	1 cut(s)	659
PciI	ACATGT	2 cut(s)	429, 834
PfeI	GAWTC	3 cut(s)	365, 723, 979
PkrI	GCNGC	6 cut(s)	220, 387, 697, 700, 869, 968
PleI	GAGTC	3 cut(s)	229, 641, 950
PpsI	GAGTC	3 cut(s)	229, 641, 950
PscI	ACATGT	2 cut(s)	429, 834
Psp124BI	GAGCTC	1 cut(s)	1003
Psp6I	CCWGG	2 cut(s)	806, 880
PspGI	CCWGG	2 cut(s)	806, 880
PspN4I	GGNNCC	1 cut(s)	268
PspPI	GGNCC	1 cut(s)	810
PstNI	CAGNNNCTG	1 cut(s)	1018
PvuII	CAGCTG	1 cut(s)	122
RsaI	GTAC	3 cut(s)	618, 920, 974
RsaNI	GTAC	3 cut(s)	617, 919, 973
RseI	CAYNNNNRTG	1 cut(s)	974
SacI	GAGCTC	1 cut(s)	1003
SaqAI	TTAA	2 cut(s)	243, 1093
SatI	GCNGC	6 cut(s)	219, 386, 696, 699, 868, 967
Sau3AI	GATC	4 cut(s)	187, 376, 528, 1077
Sau96I	GGNCC	1 cut(s)	810
ScaI	AGTACT	1 cut(s)	618
SchI	GAGTC	3 cut(s)	229, 641, 950
ScrFI	CCNGG	3 cut(s)	225, 808, 882
SduI	GDGCHC	1 cut(s)	1003
SfaNI	GCATC	1 cut(s)	558
SfcI	CTRYAG	1 cut(s)	792
SinI	GGWCC	1 cut(s)	810
SmiMI	CAYNNNNRTG	1 cut(s)	974
SmlI	CTYRAG	1 cut(s)	524
SmoI	CTYRAG	1 cut(s)	524
Sse9I	AATT	6 cut(s)	76, 88, 106, 115, 149, 855
SseBI	AGGCCT	1 cut(s)	659
SsiI	CCGC	2 cut(s)	273, 696
SspI	AATATT	1 cut(s)	1044
SspMI	CTAG	1 cut(s)	665
SstI	GAGCTC	1 cut(s)	1003
StuI	AGGCCT	1 cut(s)	659
StyD4I	CCNGG	3 cut(s)	223, 806, 880
StyI	CCWWGG	1 cut(s)	303
TaaI	ACNGT	2 cut(s)	362, 1036
TaqI	TCGA	1 cut(s)	259
TasI	AATT	6 cut(s)	76, 88, 106, 115, 149, 855
TatI	WGTACW	3 cut(s)	616, 918, 972
TauI	GCSGC	1 cut(s)	698
TfiI	GAWTC	3 cut(s)	365, 723, 979
Tru1I	TTAA	2 cut(s)	243, 1093
Tru9I	TTAA	2 cut(s)	243, 1093
TscAI	CASTG	2 cut(s)	403, 1041
TseI	GCWGC	5 cut(s)	218, 385, 698, 867, 966
TspDTI	ATGAA	5 cut(s)	56, 434, 638, 861, 895
TspGWI	ACGGA	1 cut(s)	738
TspRI	CASTG	2 cut(s)	403, 1041
VpaK11BI	GGWCC	1 cut(s)	810
XapI	RAATTY	1 cut(s)	115
XceI	RCATGY	3 cut(s)	433, 838, 973
XspI	CTAG	1 cut(s)	665
ZrmI	AGTACT	1 cut(s)	618

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