Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0007166

Physical Location & Seq

Genomic Coordinates Forward (+)

3034676 .. 3036073

Gene Structure 1398 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG041200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 648 bp

ATGCTTGTTGATCATTATCTGAACGATATGGAATTTGTAGGCTCTGCCTTGGATGAGCTATGCCTAAGTCCTGATCAAGAAGGCAGCAGCCAAGGAGGTAGGATGGGTCGAAGGAGATACAACGACGAGGAAGATGATTCGATTTACAAATCCAAGAACCTGAAAGCCGAAAGGAAGAGAAGAGCGAAGCTCAGTGACAGGCTCCTCAAGCTACGATCATTGGTTCCCATCATCACAAATATGAATAAAGCAACTATCGTTGAGGACTCAATCACTTATATCTATGAGCTGCAGAAGAATGTGAACATGCTCCAGGACCAGCTCTTTGAGATGGAAGCATTGTCTTCACTGGAGGTGCCGGAGCCAAAGCCGAGGAAAGAAGAAATTGATGCTGCAGAAGAGATGAAGAAATATGGGATTCAGGCGGAGGTTAGTGTGACTCAGATTGATGGGAACAAACTTTGGATAAAGGCGGTTCTTGCGAAGAAAAGAGGTGGATTCACCAAATTGATAGAGGCCATGACTGAGTTTGGCTTTGAACTCACTGATACCAGTGTCACTACCTCCAATGGAGCAATGCTTGTTTCATCCTGTGTCATTGTAAGTACTGAAATTTTCCCATACCTAGTACTCTTCTGTGGTACCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009791 GO:0009889 GO:0009908 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0048367 GO:0048437 GO:0048438 GO:0048443 GO:0048466 GO:0048608 GO:0048653 GO:0048658 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

215

Amino Acids

24.31

Weight (kDa)

5.08

Isoelectric Point (pI)

48.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	51 - 98	3.4e-08	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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Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007166)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G21330
fragaria_vesca	FvH4_3g03170
malus_domestica	MD10G1309600.v1.1
prunus_persica	Prupe.4G030600_v2.0.a1
pyrus_communis	pycom05g30620 pycom10g26100
rosa_chinensis	RchiOBHm_Chr5g0004791 RchiOBHm_Chr5g0025741
rosa_multiflora	Rmu_sc0008308.1_g000004 Rmu_sc0010871.1_g000026
rosa_roxburghii	Rroxscaffold_1G00053450 Rroxscaffold_1G00054300
rosa_rugosa	Rorug05G0088200
rosa_samantha	Rh5AG041500 Rh5AG180100 Rh5BG041200 Rh5BG178700 Rh5BG178800 Rh5CG045000 Rh5CG196500 Rh5CG196600 Rh5DG041600 Rh5DG178500
rosa_wichuraiana	Rw5G004030 Rw5G016340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	641
AccB1I	GGYRCC	2 cut(s)	355, 641
AciI	CCGC	2 cut(s)	425, 473
AcsI	RAATTY	2 cut(s)	32, 612
AfaI	GTAC	3 cut(s)	607, 630, 643
AgsI	TTSAA	1 cut(s)	539
AjnI	CCWGG	1 cut(s)	312
AluBI	AGCT	5 cut(s)	58, 190, 211, 289, 322
AluI	AGCT	5 cut(s)	58, 190, 211, 289, 322
AoxI	GGCC	1 cut(s)	516
ApeKI	GCWGC	4 cut(s)	84, 87, 289, 392
ApoI	RAATTY	2 cut(s)	32, 612
ArsI	GACNNNNNNTTYG	2 cut(s)	308, 340
Asp718I	GGTACC	1 cut(s)	641
AspS9I	GGNCC	1 cut(s)	316
AsuHPI	GGTGA	1 cut(s)	493
AvaII	GGWCC	1 cut(s)	316
BaeI	ACNNNNGTAYC	2 cut(s)	540, 573
BanI	GGYRCC	2 cut(s)	355, 641
BbsI	GAAGAC	1 cut(s)	336
BbvI	GCAGC	4 cut(s)	96, 99, 276, 379
BccI	CCATC	4 cut(s)	97, 236, 325, 443
BciT130I	CCWGG	1 cut(s)	314
BclI	TGATCA	2 cut(s)	10, 73
BfaI	CTAG	1 cut(s)	626
BfmI	CTRYAG	2 cut(s)	290, 393
BisI	GCNGC	4 cut(s)	85, 88, 290, 393
BlsI	GCNGC	4 cut(s)	86, 89, 291, 394
BmcAI	AGTACT	2 cut(s)	607, 630
Bme1390I	CCNGG	1 cut(s)	314
Bme18I	GGWCC	1 cut(s)	316
BmgT120I	GGNCC	1 cut(s)	316
BmiI	GGNNCC	5 cut(s)	203, 225, 357, 363, 643
BmrFI	CCNGG	1 cut(s)	314
BmsI	GCATC	1 cut(s)	379
BpiI	GAAGAC	1 cut(s)	336
BplI	GAGNNNNNCTC	2 cut(s)	174, 206
BpmI	CTGGAG	2 cut(s)	296, 371
BpuEI	CTTGAG	1 cut(s)	191
BsaBI	GATNNNNATC	1 cut(s)	15
BsaJI	CCNNGG	3 cut(s)	48, 91, 371
Bse1I	ACTGG	2 cut(s)	354, 552
Bse3DI	GCAATG	1 cut(s)	582
Bse8I	GATNNNNATC	1 cut(s)	15
BseBI	CCWGG	1 cut(s)	314
BseDI	CCNNGG	3 cut(s)	48, 91, 371
BseGI	GGATG	3 cut(s)	58, 108, 587
BseJI	GATNNNNATC	1 cut(s)	15
BseMI	GCAATG	1 cut(s)	582
BseMII	CTCAG	3 cut(s)	205, 455, 516
BseNI	ACTGG	2 cut(s)	354, 552
BseRI	GAGGAG	1 cut(s)	194
BseXI	GCAGC	4 cut(s)	96, 99, 276, 379
BshFI	GGCC	1 cut(s)	518
BshNI	GGYRCC	2 cut(s)	355, 641
BsiSI	CCGG	1 cut(s)	359
BsnI	GGCC	1 cut(s)	518
Bsp143I	GATC	3 cut(s)	10, 73, 215
BspACI	CCGC	2 cut(s)	425, 473
BspANI	GGCC	1 cut(s)	518
BspCNI	CTCAG	3 cut(s)	204, 454, 517
BspLI	GGNNCC	5 cut(s)	203, 225, 357, 363, 643
BspMAI	CTGCAG	2 cut(s)	294, 397
BspQI	GCTCTTC	1 cut(s)	175
BspT107I	GGYRCC	2 cut(s)	355, 641
BsrDI	GCAATG	1 cut(s)	582
BsrI	ACTGG	2 cut(s)	354, 552
BssECI	CCNNGG	3 cut(s)	48, 91, 371
BssMI	GATC	3 cut(s)	10, 73, 215
BssT1I	CCWWGG	2 cut(s)	48, 91
Bst2UI	CCWGG	1 cut(s)	314
Bst6I	CTCTTC	4 cut(s)	170, 175, 393, 638
BstDEI	CTNAG	4 cut(s)	65, 191, 441, 525
BstF5I	GGATG	3 cut(s)	58, 108, 587
BstKTI	GATC	3 cut(s)	13, 76, 218
BstMBI	GATC	3 cut(s)	10, 73, 215
BstMWI	GCNNNNNNNGC	2 cut(s)	208, 479
BstNI	CCWGG	1 cut(s)	314
BstNSI	RCATGY	1 cut(s)	310
BstSCI	CCNGG	1 cut(s)	312
BstSFI	CTRYAG	2 cut(s)	290, 393
BstV1I	GCAGC	4 cut(s)	96, 99, 276, 379
BstV2I	GAAGAC	1 cut(s)	336
BsuRI	GGCC	1 cut(s)	518
BtsCI	GGATG	3 cut(s)	58, 108, 587
BtsIMutI	CAGTG	4 cut(s)	199, 347, 543, 559
Cfr13I	GGNCC	1 cut(s)	316
Csp6I	GTAC	3 cut(s)	606, 629, 642
CviAII	CATG	2 cut(s)	307, 520
CviQI	GTAC	3 cut(s)	606, 629, 642
DdeI	CTNAG	4 cut(s)	65, 191, 441, 525
DpnI	GATC	3 cut(s)	12, 75, 217
DpnII	GATC	3 cut(s)	10, 73, 215
Eam1104I	CTCTTC	4 cut(s)	170, 175, 393, 638
EarI	CTCTTC	4 cut(s)	170, 175, 393, 638
EciI	GGCGGA	1 cut(s)	440
Eco130I	CCWWGG	2 cut(s)	48, 91
Eco47I	GGWCC	1 cut(s)	316
EcoRII	CCWGG	1 cut(s)	312
EcoT14I	CCWWGG	2 cut(s)	48, 91
ErhI	CCWWGG	2 cut(s)	48, 91
FaeI	CATG	2 cut(s)	310, 523
FaiI	YATR	9 cut(s)	29, 61, 242, 279, 285, 308, 414, 521, 622
FatI	CATG	2 cut(s)	306, 519
FbaI	TGATCA	2 cut(s)	10, 73
Fnu4HI	GCNGC	4 cut(s)	85, 88, 290, 393
FokI	GGATG	3 cut(s)	65, 115, 574
Fsp4HI	GCNGC	4 cut(s)	85, 88, 290, 393
FspBI	CTAG	1 cut(s)	626
GluI	GCNGC	4 cut(s)	85, 88, 290, 393
GsuI	CTGGAG	2 cut(s)	296, 371
HaeIII	GGCC	1 cut(s)	518
HapII	CCGG	1 cut(s)	359
Hin1II	CATG	2 cut(s)	310, 523
HinfI	GANTC	5 cut(s)	137, 266, 418, 439, 498
HpaII	CCGG	1 cut(s)	359
HphI	GGTGA	1 cut(s)	493
Hpy166II	GTNNAC	1 cut(s)	304
Hpy188I	TCNGA	2 cut(s)	21, 444
Hpy188III	TCNNGA	2 cut(s)	71, 77
Hpy8I	GTNNAC	1 cut(s)	304
Hpy99I	CGWCG	1 cut(s)	128
HpyAV	CCTTC	2 cut(s)	74, 105
HpyCH4V	TGCA	2 cut(s)	292, 395
HpyF10VI	GCNNNNNNNGC	2 cut(s)	208, 479
HpyF3I	CTNAG	4 cut(s)	65, 191, 441, 525
Hsp92II	CATG	2 cut(s)	310, 523
KpnI	GGTACC	1 cut(s)	645
Ksp22I	TGATCA	2 cut(s)	10, 73
Kzo9I	GATC	3 cut(s)	10, 73, 215
LguI	GCTCTTC	1 cut(s)	175
LmnI	GCTCC	4 cut(s)	207, 315, 361, 572
Lsp1109I	GCAGC	4 cut(s)	96, 99, 276, 379
LweI	GCATC	1 cut(s)	379
MaeI	CTAG	1 cut(s)	626
MaeIII	GTNAC	3 cut(s)	194, 436, 556
MalI	GATC	3 cut(s)	12, 75, 217
MboI	GATC	3 cut(s)	10, 73, 215
MluCI	AATT	4 cut(s)	32, 384, 506, 612
MlyI	GAGTC	2 cut(s)	260, 433
MslI	CAYNNNNRTG	1 cut(s)	239
MspI	CCGG	1 cut(s)	359
MspR9I	CCNGG	1 cut(s)	314
MvaI	CCWGG	1 cut(s)	314
MwoI	GCNNNNNNNGC	2 cut(s)	208, 479
NdeII	GATC	3 cut(s)	10, 73, 215
NlaIII	CATG	2 cut(s)	310, 523
NlaIV	GGNNCC	5 cut(s)	203, 225, 357, 363, 643
NmeAIII	GCCGAG	1 cut(s)	396
NmuCI	GTSAC	3 cut(s)	194, 436, 556
NspI	RCATGY	1 cut(s)	310
PciSI	GCTCTTC	1 cut(s)	175
PfeI	GAWTC	3 cut(s)	137, 418, 498
PfoI	TCCNGGA	1 cut(s)	312
PkrI	GCNGC	4 cut(s)	86, 89, 291, 394
PleI	GAGTC	2 cut(s)	260, 433
PpsI	GAGTC	2 cut(s)	260, 433
Psp6I	CCWGG	1 cut(s)	312
PspGI	CCWGG	1 cut(s)	312
PspN4I	GGNNCC	5 cut(s)	203, 225, 357, 363, 643
PspPI	GGNCC	1 cut(s)	316
PstI	CTGCAG	2 cut(s)	294, 397
RsaI	GTAC	3 cut(s)	607, 630, 643
RsaNI	GTAC	3 cut(s)	606, 629, 642
RseI	CAYNNNNRTG	1 cut(s)	239
SapI	GCTCTTC	1 cut(s)	175
SatI	GCNGC	4 cut(s)	85, 88, 290, 393
Sau3AI	GATC	3 cut(s)	10, 73, 215
Sau96I	GGNCC	1 cut(s)	316
ScaI	AGTACT	2 cut(s)	607, 630
SchI	GAGTC	2 cut(s)	260, 433
ScrFI	CCNGG	1 cut(s)	314
SfaNI	GCATC	1 cut(s)	379
SfcI	CTRYAG	2 cut(s)	290, 393
SinI	GGWCC	1 cut(s)	316
SmiMI	CAYNNNNRTG	1 cut(s)	239
SmlI	CTYRAG	1 cut(s)	206
SmoI	CTYRAG	1 cut(s)	206
Sse9I	AATT	4 cut(s)	32, 384, 506, 612
SsiI	CCGC	2 cut(s)	425, 473
SspMI	CTAG	1 cut(s)	626
StyD4I	CCNGG	1 cut(s)	312
StyI	CCWWGG	2 cut(s)	48, 91
TaqI	TCGA	2 cut(s)	109, 140
TasI	AATT	4 cut(s)	32, 384, 506, 612
TatI	WGTACW	2 cut(s)	605, 628
TfiI	GAWTC	3 cut(s)	137, 418, 498
TscAI	CASTG	4 cut(s)	199, 354, 550, 559
TseFI	GTSAC	3 cut(s)	194, 436, 556
TseI	GCWGC	4 cut(s)	84, 87, 289, 392
Tsp45I	GTSAC	3 cut(s)	194, 436, 556
TspDTI	ATGAA	3 cut(s)	257, 419, 576
TspRI	CASTG	4 cut(s)	199, 354, 550, 559
VpaK11BI	GGWCC	1 cut(s)	316
XapI	RAATTY	2 cut(s)	32, 612
XceI	RCATGY	1 cut(s)	310
XspI	CTAG	1 cut(s)	626
ZrmI	AGTACT	2 cut(s)	607, 630

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