Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0010225

Physical Location & Seq

Genomic Coordinates Reverse (-)

26259457 .. 26262590

Gene Structure 3134 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG269400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1035 bp

ATGTATAATAGTGCCTCGCCTATCAAATCGTGGCAAACAGAGTTGCCGTTAATGGATTCAAATACCCATTTCAATCTGGAGCACCAACAGCCCCACCACCAACCCAATTCTGGGTTGCTCCGATTTCGCTCTGCTCCGAGCTCACTGTTCGCTGACAACAACAACAACAACAACAACGCCGATTTGGGGGTCAATAAGGGAACTTTAATCGAGGGTGGTTCCGACTCCGACAGATTGTTCTCGAGATTCGTGAGCTACAGTCACAGTAACGACTCGGAATCGTGGCCGTCCAGTTTCCAGGAGTTCGAGGACAAATCTACGGTGACGGAGGCGGCTGTGACGGCGAGTCGTATGAGCTCACAGCATCAGCAGCAGCAGGGGTTTCCTGGTCTTCCACCTCATTATCCGAGACAGAACTCGTTTGGGAGTGGTAATGGCTCTTATGGGTTGGTGGGTTCGGCCGCAGTGGATCATCACCCGCAAGCCAAGACTGTTACTTCCAATCTTGTTCGGCAGAGTAGTTCTCCTGCTGGGCTTTTCTCCAACAACACCTCTGTTCAAAATGGATTCCCATTTGGAGCATGGAATGATCCATCAAATTTTGCTGATAATTTAGGTGGCATGAGAAGAGACCAAGATAATGACCAGAAGTTATTCTCTGCTACTCAGAATGGTGATCTTGGGAACCGGATTCATATATTATCCCACCACTTGAGTTTACCAAAAAATTCAGCAGAAGTTGCCATGGAAAAGTTCCTCCAACTCCAAGATTCTGTACCTTGCAAAGTTAGAGCAAAGCGAGGTTGTGCCACTCATCCTCGAAGCATTGCAGAAAGGGTGAGAAGAACACGGATTAGTGAACGAATGAGGAAGCTACAAGAGCTTGTGCCGAACATGGACAAGCAAACAAATACAGCAGACATGTTGGACTTGGCTGTTGATTATATTAAAGAACTTCAGAAACAGTTCAAGGTATTAAACAAGCTAGTTAAATCAAGAAGATTGCATTTAGGACAACCACGATTTTCAATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000976 GO:0000981 GO:0001046 GO:0001047 GO:0001067 GO:0001228 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009628 GO:0009648 GO:0009791 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010228 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0048573 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061458 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

344

Amino Acids

38.4

Weight (kDa)

9.32

Isoelectric Point (pI)

50.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	275 - 320	6.8e-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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010225)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42280 AT2G42280 AT2G42280
fragaria_vesca	FvH4_6g22880 FvH4_6g22880
malus_domestica	MD12G1062600.v1.1 MD14G1063300.v1.1
prunus_persica	Prupe.7G071500_v2.0.a1
pyrus_communis	pycom12g05530 pycom14g05110
rosa_chinensis	RchiOBHm_Chr3g0480621
rosa_laevigata	RLG00000023464
rosa_multiflora	Rmu_sc0002752.1_g000005
rosa_roxburghii	Rroxscaffold_6G00401200
rosa_rugosa	Rorug03G0184300 Rorug03G0184400
rosa_samantha	Rh3AG236500 Rh3BG269400 Rh3CG266100 Rh3DG261900
rosa_wichuraiana	Rw3G021190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	332, 462, 479
AclWI	GGATC	2 cut(s)	477, 584
AcoI	YGGCCR	2 cut(s)	284, 459
AcsI	RAATTY	2 cut(s)	598, 727
AcuI	CTGAAG	1 cut(s)	941
AfaI	GTAC	1 cut(s)	777
AfiI	CCNNNNNNNGG	3 cut(s)	110, 111, 186
AflIII	ACRYGT	1 cut(s)	921
AgsI	TTSAA	5 cut(s)	60, 73, 560, 970, 1029
AhdI	GACNNNNNGTC	1 cut(s)	345
AjnI	CCWGG	2 cut(s)	297, 385
AluBI	AGCT	6 cut(s)	141, 255, 357, 874, 883, 985
AluI	AGCT	6 cut(s)	141, 255, 357, 874, 883, 985
Alw21I	GWGCWC	3 cut(s)	84, 143, 359
Alw26I	GTCTC	2 cut(s)	403, 624
AlwI	GGATC	2 cut(s)	477, 584
Ama87I	CYCGRG	1 cut(s)	241
AoxI	GGCC	2 cut(s)	284, 459
ApeKI	GCWGC	2 cut(s)	370, 373
ApoI	RAATTY	2 cut(s)	598, 727
Asp700I	GAANNNNTTC	2 cut(s)	653, 965
AsuHPI	GGTGA	4 cut(s)	334, 467, 686, 850
AvaI	CYCGRG	1 cut(s)	241
BanII	GRGCYC	2 cut(s)	143, 359
BbsI	GAAGAC	1 cut(s)	383
Bbv12I	GWGCWC	3 cut(s)	84, 143, 359
BbvI	GCAGC	2 cut(s)	382, 385
BccI	CCATC	1 cut(s)	601
BceAI	ACGGC	3 cut(s)	31, 271, 357
BciT130I	CCWGG	2 cut(s)	299, 387
BcoDI	GTCTC	2 cut(s)	403, 624
BfaI	CTAG	1 cut(s)	986
BfmI	CTRYAG	1 cut(s)	256
BisI	GCNGC	4 cut(s)	333, 371, 374, 462
BlsI	GCNGC	4 cut(s)	334, 372, 375, 463
Bme1390I	CCNGG	2 cut(s)	299, 387
BmeRI	GACNNNNNGTC	1 cut(s)	345
BmeT110I	CYCGRG	1 cut(s)	241
BmiI	GGNNCC	2 cut(s)	220, 686
BmrFI	CCNGG	2 cut(s)	299, 387
BmsI	GCATC	1 cut(s)	373
BpiI	GAAGAC	1 cut(s)	383
BplI	GAGNNNNNCTC	2 cut(s)	508, 540
BpmI	CTGGAG	1 cut(s)	98
BpuEI	CTTGAG	1 cut(s)	733
BsaI	GGTCTC	1 cut(s)	624
BsaJI	CCNNGG	1 cut(s)	744
BsaWI	WCCGGW	1 cut(s)	687
Bsc4I	CCNNNNNNNGG	3 cut(s)	110, 111, 186
Bse1I	ACTGG	1 cut(s)	291
Bse3DI	GCAATG	1 cut(s)	825
BseBI	CCWGG	2 cut(s)	299, 387
BseDI	CCNNGG	1 cut(s)	744
BseGI	GGATG	1 cut(s)	814
BseLI	CCNNNNNNNGG	3 cut(s)	110, 111, 186
BseMI	GCAATG	1 cut(s)	825
BseMII	CTCAG	1 cut(s)	680
BseNI	ACTGG	1 cut(s)	291
BseX3I	CGGCCG	1 cut(s)	459
BseXI	GCAGC	2 cut(s)	382, 385
BseYI	CCCAGC	1 cut(s)	530
Bsh1285I	CGRYCG	1 cut(s)	462
BshFI	GGCC	2 cut(s)	286, 461
BsiEI	CGRYCG	1 cut(s)	462
BsiHKAI	GWGCWC	3 cut(s)	84, 143, 359
BsiHKCI	CYCGRG	1 cut(s)	241
BsiSI	CCGG	1 cut(s)	688
BslI	CCNNNNNNNGG	3 cut(s)	110, 111, 186
BsmAI	GTCTC	2 cut(s)	403, 624
BsnI	GGCC	2 cut(s)	286, 461
Bso31I	GGTCTC	1 cut(s)	624
BsoBI	CYCGRG	1 cut(s)	241
Bsp1286I	GDGCHC	3 cut(s)	84, 143, 359
Bsp143I	GATC	3 cut(s)	469, 589, 676
Bsp19I	CCATGG	1 cut(s)	744
BspACI	CCGC	3 cut(s)	332, 462, 479
BspANI	GGCC	2 cut(s)	286, 461
BspCNI	CTCAG	1 cut(s)	679
BspLI	GGNNCC	2 cut(s)	220, 686
BspPI	GGATC	2 cut(s)	477, 584
BspTNI	GGTCTC	1 cut(s)	624
BsrDI	GCAATG	1 cut(s)	825
BsrI	ACTGG	1 cut(s)	291
BssECI	CCNNGG	1 cut(s)	744
BssMI	GATC	3 cut(s)	469, 589, 676
BssT1I	CCWWGG	1 cut(s)	744
Bst2UI	CCWGG	2 cut(s)	299, 387
Bst4CI	ACNGT	6 cut(s)	147, 260, 266, 322, 493, 966
Bst6I	CTCTTC	1 cut(s)	622
BstAPI	GCANNNNNTGC	1 cut(s)	740
BstC8I	GCNNGC	1 cut(s)	483
BstDEI	CTNAG	1 cut(s)	666
BstDSI	CCRYGG	1 cut(s)	744
BstF5I	GGATG	1 cut(s)	814
BstKTI	GATC	3 cut(s)	472, 592, 679
BstMAI	GTCTC	2 cut(s)	403, 624
BstMBI	GATC	3 cut(s)	469, 589, 676
BstMCI	CGRYCG	1 cut(s)	462
BstMWI	GCNNNNNNNGC	5 cut(s)	88, 341, 370, 740, 880
BstNI	CCWGG	2 cut(s)	299, 387
BstNSI	RCATGY	1 cut(s)	925
BstSCI	CCNGG	2 cut(s)	297, 385
BstSFI	CTRYAG	1 cut(s)	256
BstV1I	GCAGC	2 cut(s)	382, 385
BstV2I	GAAGAC	1 cut(s)	383
BstZI	CGGCCG	1 cut(s)	459
BsuRI	GGCC	2 cut(s)	286, 461
BtgI	CCRYGG	1 cut(s)	744
BtsCI	GGATG	1 cut(s)	814
BtsI	GCAGTG	1 cut(s)	471
BtsIMutI	CAGTG	2 cut(s)	143, 471
Cac8I	GCNNGC	1 cut(s)	483
Csp6I	GTAC	1 cut(s)	776
CviAII	CATG	5 cut(s)	582, 622, 745, 895, 922
CviQI	GTAC	1 cut(s)	776
DdeI	CTNAG	1 cut(s)	666
DpnI	GATC	3 cut(s)	471, 591, 678
DpnII	GATC	3 cut(s)	469, 589, 676
DriI	GACNNNNNGTC	1 cut(s)	345
EaeI	YGGCCR	2 cut(s)	284, 459
EagI	CGGCCG	1 cut(s)	459
Eam1104I	CTCTTC	1 cut(s)	622
Eam1105I	GACNNNNNGTC	1 cut(s)	345
EarI	CTCTTC	1 cut(s)	622
Ecl136II	GAGCTC	2 cut(s)	141, 357
EclXI	CGGCCG	1 cut(s)	459
Eco130I	CCWWGG	1 cut(s)	744
Eco24I	GRGCYC	2 cut(s)	143, 359
Eco31I	GGTCTC	1 cut(s)	624
Eco52I	CGGCCG	1 cut(s)	459
Eco53kI	GAGCTC	2 cut(s)	141, 357
Eco57I	CTGAAG	1 cut(s)	941
Eco88I	CYCGRG	1 cut(s)	241
EcoICRI	GAGCTC	2 cut(s)	141, 357
EcoRII	CCWGG	2 cut(s)	297, 385
EcoT14I	CCWWGG	1 cut(s)	744
EcoT38I	GRGCYC	2 cut(s)	143, 359
ErhI	CCWWGG	1 cut(s)	744
FaeI	CATG	5 cut(s)	585, 625, 748, 898, 925
FatI	CATG	5 cut(s)	581, 621, 744, 894, 921
FauI	CCCGC	1 cut(s)	486
Fnu4HI	GCNGC	4 cut(s)	333, 371, 374, 462
FokI	GGATG	1 cut(s)	801
FriOI	GRGCYC	2 cut(s)	143, 359
Fsp4HI	GCNGC	4 cut(s)	333, 371, 374, 462
FspBI	CTAG	1 cut(s)	986
GluI	GCNGC	4 cut(s)	333, 371, 374, 462
GsaI	CCCAGC	1 cut(s)	534
GsuI	CTGGAG	1 cut(s)	98
HaeIII	GGCC	2 cut(s)	286, 461
HapII	CCGG	1 cut(s)	688
Hin1II	CATG	5 cut(s)	585, 625, 748, 898, 925
HinfI	GANTC	9 cut(s)	56, 224, 246, 272, 278, 346, 567, 691, 770
HpaII	CCGG	1 cut(s)	688
HphI	GGTGA	4 cut(s)	334, 467, 686, 850
Hpy166II	GTNNAC	2 cut(s)	719, 860
Hpy188I	TCNGA	8 cut(s)	122, 138, 223, 229, 277, 408, 669, 960
Hpy188III	TCNNGA	5 cut(s)	77, 241, 243, 250, 996
Hpy8I	GTNNAC	2 cut(s)	719, 860
HpyCH4III	ACNGT	6 cut(s)	147, 260, 266, 322, 493, 966
HpyCH4V	TGCA	3 cut(s)	783, 830, 1006
HpyF10VI	GCNNNNNNNGC	5 cut(s)	88, 341, 370, 740, 880
HpyF3I	CTNAG	1 cut(s)	666
Hsp92II	CATG	5 cut(s)	585, 625, 748, 898, 925
Kzo9I	GATC	3 cut(s)	469, 589, 676
LmnI	GCTCC	4 cut(s)	79, 123, 139, 578
Lsp1109I	GCAGC	2 cut(s)	382, 385
LweI	GCATC	1 cut(s)	373
MaeI	CTAG	1 cut(s)	986
MaeIII	GTNAC	5 cut(s)	260, 266, 322, 337, 493
MalI	GATC	3 cut(s)	471, 591, 678
MboI	GATC	3 cut(s)	469, 589, 676
MboII	GAAGA	4 cut(s)	383, 639, 855, 1011
MhlI	GDGCHC	3 cut(s)	84, 143, 359
MluCI	AATT	4 cut(s)	106, 598, 610, 727
MlyI	GAGTC	3 cut(s)	218, 266, 355
MmeI	TCCRAC	5 cut(s)	246, 252, 567, 784, 906
MroXI	GAANNNNTTC	2 cut(s)	653, 965
MseI	TTAA	5 cut(s)	50, 206, 948, 977, 990
MspI	CCGG	1 cut(s)	688
MspR9I	CCNGG	2 cut(s)	299, 387
MvaI	CCWGG	2 cut(s)	299, 387
MwoI	GCNNNNNNNGC	5 cut(s)	88, 341, 370, 740, 880
NcoI	CCATGG	1 cut(s)	744
NdeII	GATC	3 cut(s)	469, 589, 676
NlaIII	CATG	5 cut(s)	585, 625, 748, 898, 925
NlaIV	GGNNCC	2 cut(s)	220, 686
NmuCI	GTSAC	3 cut(s)	260, 322, 337
NspI	RCATGY	1 cut(s)	925
PaeR7I	CTCGAG	1 cut(s)	241
PciI	ACATGT	1 cut(s)	921
PdmI	GAANNNNTTC	2 cut(s)	653, 965
PfeI	GAWTC	6 cut(s)	56, 246, 278, 567, 691, 770
PfoI	TCCNGGA	1 cut(s)	297
PkrI	GCNGC	4 cut(s)	334, 372, 375, 463
PleI	GAGTC	3 cut(s)	218, 266, 354
PpsI	GAGTC	3 cut(s)	218, 266, 354
PscI	ACATGT	1 cut(s)	921
Psp124BI	GAGCTC	2 cut(s)	143, 359
Psp6I	CCWGG	2 cut(s)	297, 385
PspFI	CCCAGC	1 cut(s)	530
PspGI	CCWGG	2 cut(s)	297, 385
PspN4I	GGNNCC	2 cut(s)	220, 686
RsaI	GTAC	1 cut(s)	777
RsaNI	GTAC	1 cut(s)	776
SacI	GAGCTC	2 cut(s)	143, 359
SaqAI	TTAA	5 cut(s)	50, 206, 948, 977, 990
SatI	GCNGC	4 cut(s)	333, 371, 374, 462
Sau3AI	GATC	3 cut(s)	469, 589, 676
SchI	GAGTC	3 cut(s)	218, 266, 355
ScrFI	CCNGG	2 cut(s)	299, 387
SduI	GDGCHC	3 cut(s)	84, 143, 359
SfaNI	GCATC	1 cut(s)	373
SfcI	CTRYAG	1 cut(s)	256
Sfr274I	CTCGAG	1 cut(s)	241
SlaI	CTCGAG	1 cut(s)	241
SmlI	CTYRAG	2 cut(s)	241, 712
SmoI	CTYRAG	2 cut(s)	241, 712
Sse9I	AATT	4 cut(s)	106, 598, 610, 727
SsiI	CCGC	3 cut(s)	332, 462, 479
SspMI	CTAG	1 cut(s)	986
SstI	GAGCTC	2 cut(s)	143, 359
StyD4I	CCNGG	2 cut(s)	297, 385
StyI	CCWWGG	1 cut(s)	744
TaaI	ACNGT	6 cut(s)	147, 260, 266, 322, 493, 966
TaqI	TCGA	4 cut(s)	210, 242, 306, 820
TasI	AATT	4 cut(s)	106, 598, 610, 727
TauI	GCSGC	2 cut(s)	335, 464
TfiI	GAWTC	6 cut(s)	56, 246, 278, 567, 691, 770
Tru1I	TTAA	5 cut(s)	50, 206, 948, 977, 990
Tru9I	TTAA	5 cut(s)	50, 206, 948, 977, 990
TscAI	CASTG	2 cut(s)	150, 471
TseFI	GTSAC	3 cut(s)	260, 322, 337
TseI	GCWGC	2 cut(s)	370, 373
Tsp45I	GTSAC	3 cut(s)	260, 322, 337
TspDTI	ATGAA	1 cut(s)	683
TspGWI	ACGGA	2 cut(s)	341, 865
TspRI	CASTG	2 cut(s)	150, 471
XapI	RAATTY	2 cut(s)	598, 727
XceI	RCATGY	1 cut(s)	925
XcmI	CCANNNNNNNNNTGG	2 cut(s)	107, 579
XhoI	CTCGAG	1 cut(s)	241
XmnI	GAANNNNTTC	2 cut(s)	653, 965
XspI	CTAG	1 cut(s)	986

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