Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0007166

Physical Location & Seq

Genomic Coordinates Forward (+)

3136371 .. 3137765

Gene Structure 1395 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG045000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 762 bp

ATGAACTGTGCTGTTGTGATTTTTCACAGCTGCAGCACCAATTTCTTCCCTATCTTGCCTTCCTCTACACACACAAAATGGCATGACACCCTTGTGAGCACCACATATATGAATCTTGCCCCAAATACACTCCCACTTTGGAAAATGCTTGTTGATCATTATCTGAACGATATGGAATTTGTAGGCTCTGCCTTGGATGAGCTATGCCTAAGTCCCGATCAAGAAGGCAGCAGCCAAGGAGGTAGGATGGGTCGAAGGAGATACAACGACCAGGAAGATGATTCGATTTACAAATCCAAGAACCTGAAAGCCGAAAGGAAGAGAAGAGCGAAGCTTAGTGACAGGCTCCTCAAGCTACGATCATTGGTTCCCATCATCACAAATATGAATAAAGCAACTATCGTTGAGGACTCAATCACTTATATCTATGAGCTGCAGAAGAATGTGAACATGCTCCAGGACCAGCTCTTTGAGATGGAAGCATTGTCTTCACTGGAGGTGCCGGAGCCAAAGCCGAGGAAAGAAGAAATTGATGCTGCAGAAGAGATGAAGAAATATGGGATTCAGGCGGACGTTAGTGTGACTCAGATTGATGGGAACAAACTTTGGATAAAGGCGGTTCTTGCGAAGAAAAGAGGTGGATTCACCAAATTGATAGAGGCCATGACTGAGTTTGGCTTTGAACTCACTGATACCAGTGTCACTACCTCCAATGGAGCAATGCTTGTTTCATCCTGTGTCATTGTAAGTACTAAGTACTGA

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

253

Amino Acids

28.65

Weight (kDa)

6.14

Isoelectric Point (pI)

48.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	99 - 146	4.5e-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

Style Settings

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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)
AccB1I	GGYRCC	1 cut(s)	499
AciI	CCGC	2 cut(s)	569, 617
AcsI	RAATTY	1 cut(s)	176
AfaI	GTAC	2 cut(s)	751, 758
AgsI	TTSAA	1 cut(s)	683
AjnI	CCWGG	2 cut(s)	270, 456
AleI	CACNNNNGTG	1 cut(s)	92
AluBI	AGCT	6 cut(s)	30, 202, 334, 355, 433, 466
AluI	AGCT	6 cut(s)	30, 202, 334, 355, 433, 466
Alw21I	GWGCWC	1 cut(s)	101
AoxI	GGCC	1 cut(s)	660
ApeKI	GCWGC	6 cut(s)	30, 33, 228, 231, 433, 536
ApoI	RAATTY	1 cut(s)	176
ArsI	GACNNNNNNTTYG	2 cut(s)	452, 484
AspS9I	GGNCC	1 cut(s)	460
AsuHPI	GGTGA	1 cut(s)	637
AvaII	GGWCC	1 cut(s)	460
BaeI	ACNNNNGTAYC	2 cut(s)	684, 717
BanI	GGYRCC	1 cut(s)	499
BbsI	GAAGAC	1 cut(s)	480
Bbv12I	GWGCWC	1 cut(s)	101
BbvI	GCAGC	6 cut(s)	17, 45, 240, 243, 420, 523
BccI	CCATC	4 cut(s)	241, 380, 469, 587
BciT130I	CCWGG	2 cut(s)	272, 458
BclI	TGATCA	1 cut(s)	154
BfmI	CTRYAG	3 cut(s)	31, 434, 537
BisI	GCNGC	6 cut(s)	31, 34, 229, 232, 434, 537
BlsI	GCNGC	6 cut(s)	32, 35, 230, 233, 435, 538
BmcAI	AGTACT	2 cut(s)	751, 758
Bme1390I	CCNGG	2 cut(s)	272, 458
Bme18I	GGWCC	1 cut(s)	460
BmgT120I	GGNCC	1 cut(s)	460
BmiI	GGNNCC	4 cut(s)	347, 369, 501, 507
BmrFI	CCNGG	2 cut(s)	272, 458
BmsI	GCATC	1 cut(s)	523
BpiI	GAAGAC	1 cut(s)	480
BpmI	CTGGAG	2 cut(s)	440, 515
BpuEI	CTTGAG	1 cut(s)	335
BsaBI	GATNNNNATC	1 cut(s)	159
BsaJI	CCNNGG	3 cut(s)	192, 235, 515
Bse1I	ACTGG	2 cut(s)	498, 696
Bse3DI	GCAATG	1 cut(s)	726
Bse8I	GATNNNNATC	1 cut(s)	159
BseBI	CCWGG	2 cut(s)	272, 458
BseDI	CCNNGG	3 cut(s)	192, 235, 515
BseGI	GGATG	3 cut(s)	202, 252, 731
BseJI	GATNNNNATC	1 cut(s)	159
BseMI	GCAATG	1 cut(s)	726
BseMII	CTCAG	2 cut(s)	599, 660
BseNI	ACTGG	2 cut(s)	498, 696
BseRI	GAGGAG	1 cut(s)	338
BseXI	GCAGC	6 cut(s)	17, 45, 240, 243, 420, 523
BshFI	GGCC	1 cut(s)	662
BshNI	GGYRCC	1 cut(s)	499
BsiHKAI	GWGCWC	1 cut(s)	101
BsiSI	CCGG	1 cut(s)	503
BslFI	GGGAC	1 cut(s)	198
BsmFI	GGGAC	1 cut(s)	198
BsnI	GGCC	1 cut(s)	662
Bsp1286I	GDGCHC	1 cut(s)	101
Bsp143I	GATC	3 cut(s)	154, 217, 359
BspACI	CCGC	2 cut(s)	569, 617
BspANI	GGCC	1 cut(s)	662
BspCNI	CTCAG	2 cut(s)	598, 661
BspLI	GGNNCC	4 cut(s)	347, 369, 501, 507
BspMAI	CTGCAG	3 cut(s)	35, 438, 541
BspQI	GCTCTTC	1 cut(s)	319
BspT107I	GGYRCC	1 cut(s)	499
BsrDI	GCAATG	1 cut(s)	726
BsrI	ACTGG	2 cut(s)	498, 696
BssECI	CCNNGG	3 cut(s)	192, 235, 515
BssMI	GATC	3 cut(s)	154, 217, 359
BssT1I	CCWWGG	2 cut(s)	192, 235
Bst2UI	CCWGG	2 cut(s)	272, 458
Bst4CI	ACNGT	1 cut(s)	8
Bst6I	CTCTTC	3 cut(s)	314, 319, 537
BstDEI	CTNAG	5 cut(s)	209, 335, 585, 669, 753
BstF5I	GGATG	3 cut(s)	202, 252, 731
BstKTI	GATC	3 cut(s)	157, 220, 362
BstMBI	GATC	3 cut(s)	154, 217, 359
BstMWI	GCNNNNNNNGC	2 cut(s)	352, 623
BstNI	CCWGG	2 cut(s)	272, 458
BstNSI	RCATGY	1 cut(s)	454
BstSCI	CCNGG	2 cut(s)	270, 456
BstSFI	CTRYAG	3 cut(s)	31, 434, 537
BstV1I	GCAGC	6 cut(s)	17, 45, 240, 243, 420, 523
BstV2I	GAAGAC	1 cut(s)	480
BsuRI	GGCC	1 cut(s)	662
BtsCI	GGATG	3 cut(s)	202, 252, 731
BtsIMutI	CAGTG	3 cut(s)	491, 687, 703
Cfr13I	GGNCC	1 cut(s)	460
Csp6I	GTAC	2 cut(s)	750, 757
CviAII	CATG	3 cut(s)	83, 451, 664
CviQI	GTAC	2 cut(s)	750, 757
DdeI	CTNAG	5 cut(s)	209, 335, 585, 669, 753
DpnI	GATC	3 cut(s)	156, 219, 361
DpnII	GATC	3 cut(s)	154, 217, 359
Eam1104I	CTCTTC	3 cut(s)	314, 319, 537
EarI	CTCTTC	3 cut(s)	314, 319, 537
EciI	GGCGGA	1 cut(s)	584
Eco130I	CCWWGG	2 cut(s)	192, 235
Eco47I	GGWCC	1 cut(s)	460
EcoRII	CCWGG	2 cut(s)	270, 456
EcoT14I	CCWWGG	2 cut(s)	192, 235
ErhI	CCWWGG	2 cut(s)	192, 235
FaeI	CATG	3 cut(s)	86, 454, 667
FaqI	GGGAC	1 cut(s)	198
FatI	CATG	3 cut(s)	82, 450, 663
FbaI	TGATCA	1 cut(s)	154
Fnu4HI	GCNGC	6 cut(s)	31, 34, 229, 232, 434, 537
FokI	GGATG	3 cut(s)	209, 259, 718
Fsp4HI	GCNGC	6 cut(s)	31, 34, 229, 232, 434, 537
GluI	GCNGC	6 cut(s)	31, 34, 229, 232, 434, 537
GsuI	CTGGAG	2 cut(s)	440, 515
HaeIII	GGCC	1 cut(s)	662
HapII	CCGG	1 cut(s)	503
Hin1II	CATG	3 cut(s)	86, 454, 667
HindIII	AAGCTT	1 cut(s)	332
HinfI	GANTC	6 cut(s)	112, 281, 410, 562, 583, 642
HpaII	CCGG	1 cut(s)	503
HphI	GGTGA	1 cut(s)	637
Hpy166II	GTNNAC	1 cut(s)	448
Hpy188I	TCNGA	2 cut(s)	165, 588
Hpy188III	TCNNGA	2 cut(s)	215, 221
Hpy8I	GTNNAC	1 cut(s)	448
HpyAV	CCTTC	3 cut(s)	69, 218, 249
HpyCH4III	ACNGT	1 cut(s)	8
HpyCH4IV	ACGT	1 cut(s)	573
HpyCH4V	TGCA	3 cut(s)	33, 436, 539
HpyF10VI	GCNNNNNNNGC	2 cut(s)	352, 623
HpyF3I	CTNAG	5 cut(s)	209, 335, 585, 669, 753
HpySE526I	ACGT	1 cut(s)	573
Hsp92II	CATG	3 cut(s)	86, 454, 667
Ksp22I	TGATCA	1 cut(s)	154
Kzo9I	GATC	3 cut(s)	154, 217, 359
LguI	GCTCTTC	1 cut(s)	319
LmnI	GCTCC	4 cut(s)	351, 459, 505, 716
Lsp1109I	GCAGC	6 cut(s)	17, 45, 240, 243, 420, 523
LweI	GCATC	1 cut(s)	523
MaeII	ACGT	1 cut(s)	573
MaeIII	GTNAC	3 cut(s)	338, 580, 700
MalI	GATC	3 cut(s)	156, 219, 361
MboI	GATC	3 cut(s)	154, 217, 359
MhlI	GDGCHC	1 cut(s)	101
MluCI	AATT	4 cut(s)	40, 176, 528, 650
MlyI	GAGTC	2 cut(s)	404, 577
MnlI	CCTC	9 cut(s)	73, 233, 359, 400, 490, 510, 629, 652, 718
MslI	CAYNNNNRTG	3 cut(s)	92, 107, 383
MspA1I	CMGCKG	1 cut(s)	30
MspI	CCGG	1 cut(s)	503
MspR9I	CCNGG	2 cut(s)	272, 458
MvaI	CCWGG	2 cut(s)	272, 458
MwoI	GCNNNNNNNGC	2 cut(s)	352, 623
NdeII	GATC	3 cut(s)	154, 217, 359
NlaIII	CATG	3 cut(s)	86, 454, 667
NlaIV	GGNNCC	4 cut(s)	347, 369, 501, 507
NmeAIII	GCCGAG	1 cut(s)	540
NmuCI	GTSAC	3 cut(s)	338, 580, 700
NspI	RCATGY	1 cut(s)	454
OliI	CACNNNNGTG	1 cut(s)	92
PciSI	GCTCTTC	1 cut(s)	319
PfeI	GAWTC	4 cut(s)	112, 281, 562, 642
PfoI	TCCNGGA	1 cut(s)	456
PkrI	GCNGC	6 cut(s)	32, 35, 230, 233, 435, 538
PleI	GAGTC	2 cut(s)	404, 577
PpsI	GAGTC	2 cut(s)	404, 577
Psp6I	CCWGG	2 cut(s)	270, 456
PspGI	CCWGG	2 cut(s)	270, 456
PspN4I	GGNNCC	4 cut(s)	347, 369, 501, 507
PspPI	GGNCC	1 cut(s)	460
PstI	CTGCAG	3 cut(s)	35, 438, 541
PvuII	CAGCTG	1 cut(s)	30
RsaI	GTAC	2 cut(s)	751, 758
RsaNI	GTAC	2 cut(s)	750, 757
RseI	CAYNNNNRTG	3 cut(s)	92, 107, 383
SapI	GCTCTTC	1 cut(s)	319
SatI	GCNGC	6 cut(s)	31, 34, 229, 232, 434, 537
Sau3AI	GATC	3 cut(s)	154, 217, 359
Sau96I	GGNCC	1 cut(s)	460
ScaI	AGTACT	2 cut(s)	751, 758
SchI	GAGTC	2 cut(s)	404, 577
ScrFI	CCNGG	2 cut(s)	272, 458
SduI	GDGCHC	1 cut(s)	101
SfaNI	GCATC	1 cut(s)	523
SfcI	CTRYAG	3 cut(s)	31, 434, 537
SinI	GGWCC	1 cut(s)	460
SmiMI	CAYNNNNRTG	3 cut(s)	92, 107, 383
SmlI	CTYRAG	1 cut(s)	350
SmoI	CTYRAG	1 cut(s)	350
Sse9I	AATT	4 cut(s)	40, 176, 528, 650
SsiI	CCGC	2 cut(s)	569, 617
StyD4I	CCNGG	2 cut(s)	270, 456
StyI	CCWWGG	2 cut(s)	192, 235
TaaI	ACNGT	1 cut(s)	8
TaiI	ACGT	1 cut(s)	576
TaqI	TCGA	2 cut(s)	253, 284
TasI	AATT	4 cut(s)	40, 176, 528, 650
TatI	WGTACW	2 cut(s)	749, 756
TfiI	GAWTC	4 cut(s)	112, 281, 562, 642
TscAI	CASTG	3 cut(s)	498, 694, 703
TseFI	GTSAC	3 cut(s)	338, 580, 700
TseI	GCWGC	6 cut(s)	30, 33, 228, 231, 433, 536
Tsp45I	GTSAC	3 cut(s)	338, 580, 700
TspDTI	ATGAA	5 cut(s)	17, 125, 401, 563, 720
TspRI	CASTG	3 cut(s)	498, 694, 703
VpaK11BI	GGWCC	1 cut(s)	460
XapI	RAATTY	1 cut(s)	176
XceI	RCATGY	1 cut(s)	454
ZrmI	AGTACT	2 cut(s)	751, 758

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