Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0005003

Physical Location & Seq

Genomic Coordinates Forward (+)

5194432 .. 5195785

Gene Structure 1354 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG063200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 573 bp

ATGGATCATCAGCAGTACCCTAGTAGTAGTTCATCTAGAACTGACAGAAAAACCATTGAGAAAAACAGGAGGAATCAGATGAAAGCCCTATACTCCGAGCTCAACTCTCTTCTACCCCATCAACCCTCAAGGGAAGTGACTTCTTTGCCAGATCAAATAGATGAAGCTGTGAACTACATCAAGAAGTTGCAGACCAACTTGGAGAAAATGAGGGAGAAGAAAGACAGCCAAATGGGAGTAGAGCGGATCACCATTAACAATAATGGAGGTTCTCGTAGGGGACTAAATGGTGGCGGGTTAAGATTACCTCAGATCGAGATTCGTGAAATGGGTTCTGTTCTAGATGTTGTTCTGATAACTGGATTGGATTTTCAATTCATGTTTGAGGGGTCGATTCGTATGCTTCTTGAAGAGGGAGCTGACATTGTAAATGCCAGTTTCTCAGTTGTTGAAGATACCATTTTCCACACCATACATTCTAAGATCGGCGAGTCTGCACCAGGCCCGGTAGCTGCAAGGATATCCGAGAGACTAAGAAAGTTTGTGAACGAAGCTAGTACTACTGCATTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000976 GO:0000977 GO:0001012 GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006355 GO:0006357 GO:0006950 GO:0006952 GO:0008150 GO:0009605 GO:0009607 GO:0009620 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0032991 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044798 GO:0050789 GO:0050794 GO:0050832 GO:0050896 GO:0051171 GO:0051252 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0080090 GO:0090575 GO:0097159 GO:0098542 GO:0140110 GO:1901363 GO:1903506 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

190

Amino Acids

21.35

Weight (kDa)

6.93

Isoelectric Point (pI)

45.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	13 - 64	2.6e-09	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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Publication-ready

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Orthologous Genes (Group: OG0005003)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20970
fragaria_vesca	FvH4_3g09050
malus_domestica	MD05G1338200.v1.1
prunus_persica	Prupe.4G048500_v2.0.a1 Prupe.4G048500_v2.0.a1
pyrus_communis	pycom05g28960 pycom10g24530
rosa_chinensis	RchiOBHm_Chr5g0008581 RchiOBHm_Chr5g0008601
rosa_laevigata	RLG00000031585 RLG00000031587
rosa_multiflora	Rmu_co8408735.1_g000001 Rmu_sc0001665.1_g000022
rosa_roxburghii	Rroxscaffold_1G00067940 Rroxscaffold_1G00067960
rosa_rugosa	Rorug04G0437000 Rorug04G0437100 Rorug04G0437200 Rorug04G0437200 Rorug04G0437400.1
rosa_samantha	Rh5AG065700 Rh5AG065900 Rh5BG063200 Rh5BG063300 Rh5CG073400 Rh5CG073500 Rh5DG062900 Rh5DG063000
rosa_wichuraiana	Rw5G006310 Rw5G006320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	244
AciI	CCGC	2 cut(s)	244, 294
AclWI	GGATC	2 cut(s)	12, 254
AfaI	GTAC	2 cut(s)	17, 559
AgsI	TTSAA	3 cut(s)	374, 410, 452
AjnI	CCWGG	1 cut(s)	499
AluBI	AGCT	5 cut(s)	100, 167, 419, 512, 554
AluI	AGCT	5 cut(s)	100, 167, 419, 512, 554
Alw21I	GWGCWC	1 cut(s)	102
Alw26I	GTCTC	1 cut(s)	523
AlwI	GGATC	2 cut(s)	12, 254
AoxI	GGCC	1 cut(s)	502
ApeKI	GCWGC	1 cut(s)	512
AspS9I	GGNCC	1 cut(s)	503
AsuC2I	CCSGG	1 cut(s)	506
AsuHPI	GGTGA	1 cut(s)	241
BanII	GRGCYC	1 cut(s)	102
Bbv12I	GWGCWC	1 cut(s)	102
BbvI	GCAGC	1 cut(s)	499
BccI	CCATC	1 cut(s)	126
BcgI	CGANNNNNNTGC	2 cut(s)	382, 416
BciT130I	CCWGG	1 cut(s)	501
BcnI	CCSGG	1 cut(s)	506
BcoDI	GTCTC	1 cut(s)	523
BfaI	CTAG	4 cut(s)	21, 36, 341, 555
BisI	GCNGC	1 cut(s)	513
BlsI	GCNGC	1 cut(s)	514
BmcAI	AGTACT	1 cut(s)	559
Bme1390I	CCNGG	2 cut(s)	501, 506
BmgT120I	GGNCC	1 cut(s)	503
BmrFI	CCNGG	2 cut(s)	501, 506
BplI	GAGNNNNNCTC	2 cut(s)	89, 121
BpuEI	CTTGAG	1 cut(s)	112
BpuMI	CCSGG	1 cut(s)	506
Bse1I	ACTGG	2 cut(s)	364, 435
BseBI	CCWGG	1 cut(s)	501
BseMII	CTCAG	2 cut(s)	323, 456
BseNI	ACTGG	2 cut(s)	364, 435
BseXI	GCAGC	1 cut(s)	499
BsgI	GTGCAG	1 cut(s)	480
BshFI	GGCC	1 cut(s)	504
BsiHKAI	GWGCWC	1 cut(s)	102
BsiSI	CCGG	1 cut(s)	506
BslFI	GGGAC	1 cut(s)	294
BsmAI	GTCTC	1 cut(s)	523
BsmFI	GGGAC	1 cut(s)	294
BsnI	GGCC	1 cut(s)	504
Bsp1286I	GDGCHC	1 cut(s)	102
Bsp143I	GATC	5 cut(s)	4, 151, 246, 312, 483
BspACI	CCGC	2 cut(s)	244, 294
BspANI	GGCC	1 cut(s)	504
BspCNI	CTCAG	2 cut(s)	322, 455
BspPI	GGATC	2 cut(s)	12, 254
BsrBI	CCGCTC	1 cut(s)	244
BsrI	ACTGG	2 cut(s)	364, 435
BssMI	GATC	5 cut(s)	4, 151, 246, 312, 483
Bst2UI	CCWGG	1 cut(s)	501
Bst6I	CTCTTC	2 cut(s)	114, 405
BstDEI	CTNAG	4 cut(s)	309, 442, 480, 533
BstKTI	GATC	5 cut(s)	7, 154, 249, 315, 486
BstMAI	GTCTC	1 cut(s)	523
BstMBI	GATC	5 cut(s)	4, 151, 246, 312, 483
BstNI	CCWGG	1 cut(s)	501
BstSCI	CCNGG	2 cut(s)	499, 504
BstV1I	GCAGC	1 cut(s)	499
BsuRI	GGCC	1 cut(s)	504
Cfr13I	GGNCC	1 cut(s)	503
Csp6I	GTAC	2 cut(s)	16, 558
CviAII	CATG	1 cut(s)	379
CviJI	RGCY	8 cut(s)	86, 100, 167, 228, 419, 504, 512, 554
CviKI_1	RGCY	8 cut(s)	86, 100, 167, 228, 419, 504, 512, 554
CviQI	GTAC	2 cut(s)	16, 558
DdeI	CTNAG	4 cut(s)	309, 442, 480, 533
DpnI	GATC	5 cut(s)	6, 153, 248, 314, 485
DpnII	GATC	5 cut(s)	4, 151, 246, 312, 483
Eam1104I	CTCTTC	2 cut(s)	114, 405
EarI	CTCTTC	2 cut(s)	114, 405
Ecl136II	GAGCTC	1 cut(s)	100
Eco24I	GRGCYC	1 cut(s)	102
Eco32I	GATATC	1 cut(s)	522
Eco53kI	GAGCTC	1 cut(s)	100
EcoICRI	GAGCTC	1 cut(s)	100
EcoRII	CCWGG	1 cut(s)	499
EcoRV	GATATC	1 cut(s)	522
EcoT38I	GRGCYC	1 cut(s)	102
FaeI	CATG	1 cut(s)	382
FaiI	YATR	4 cut(s)	91, 380, 401, 473
FaqI	GGGAC	1 cut(s)	294
FatI	CATG	1 cut(s)	378
FauI	CCCGC	1 cut(s)	287
Fnu4HI	GCNGC	1 cut(s)	513
FriOI	GRGCYC	1 cut(s)	102
Fsp4HI	GCNGC	1 cut(s)	513
FspBI	CTAG	4 cut(s)	21, 36, 341, 555
GluI	GCNGC	1 cut(s)	513
HaeIII	GGCC	1 cut(s)	504
HapII	CCGG	1 cut(s)	506
Hin1II	CATG	1 cut(s)	382
HinfI	GANTC	4 cut(s)	73, 319, 394, 491
HpaII	CCGG	1 cut(s)	506
HphI	GGTGA	1 cut(s)	241
Hpy166II	GTNNAC	2 cut(s)	172, 547
Hpy188I	TCNGA	5 cut(s)	78, 97, 312, 354, 526
Hpy188III	TCNNGA	6 cut(s)	36, 181, 316, 323, 341, 407
Hpy8I	GTNNAC	2 cut(s)	172, 547
HpyCH4V	TGCA	4 cut(s)	190, 497, 515, 566
HpyF3I	CTNAG	4 cut(s)	309, 442, 480, 533
Hsp92II	CATG	1 cut(s)	382
Kzo9I	GATC	5 cut(s)	4, 151, 246, 312, 483
LmnI	GCTCC	1 cut(s)	416
LpnPI	CCDG	7 cut(s)	52, 162, 345, 448, 486, 513, 519
Lsp1109I	GCAGC	1 cut(s)	499
MaeI	CTAG	4 cut(s)	21, 36, 341, 555
MaeIII	GTNAC	1 cut(s)	136
MalI	GATC	5 cut(s)	6, 153, 248, 314, 485
MbiI	CCGCTC	1 cut(s)	244
MboI	GATC	5 cut(s)	4, 151, 246, 312, 483
MboII	GAAGA	4 cut(s)	101, 229, 422, 464
MhlI	GDGCHC	1 cut(s)	102
MluCI	AATT	1 cut(s)	374
MlyI	GAGTC	1 cut(s)	500
MnlI	CCTC	7 cut(s)	63, 136, 204, 260, 318, 379, 406
MseI	TTAA	2 cut(s)	255, 299
MspI	CCGG	1 cut(s)	506
MspR9I	CCNGG	2 cut(s)	501, 506
MvaI	CCWGG	1 cut(s)	501
NciI	CCSGG	1 cut(s)	506
NdeII	GATC	5 cut(s)	4, 151, 246, 312, 483
NlaIII	CATG	1 cut(s)	382
NmuCI	GTSAC	1 cut(s)	136
PfeI	GAWTC	3 cut(s)	73, 319, 394
PkrI	GCNGC	1 cut(s)	514
PleI	GAGTC	1 cut(s)	499
PpsI	GAGTC	1 cut(s)	499
Psp124BI	GAGCTC	1 cut(s)	102
Psp6I	CCWGG	1 cut(s)	499
PspGI	CCWGG	1 cut(s)	499
PspPI	GGNCC	1 cut(s)	503
RsaI	GTAC	2 cut(s)	17, 559
RsaNI	GTAC	2 cut(s)	16, 558
SacI	GAGCTC	1 cut(s)	102
SaqAI	TTAA	2 cut(s)	255, 299
SatI	GCNGC	1 cut(s)	513
Sau3AI	GATC	5 cut(s)	4, 151, 246, 312, 483
Sau96I	GGNCC	1 cut(s)	503
ScaI	AGTACT	1 cut(s)	559
SchI	GAGTC	1 cut(s)	500
ScrFI	CCNGG	2 cut(s)	501, 506
SduI	GDGCHC	1 cut(s)	102
SetI	ASST	7 cut(s)	102, 169, 271, 310, 421, 514, 556
SmlI	CTYRAG	1 cut(s)	127
SmoI	CTYRAG	1 cut(s)	127
Sse9I	AATT	1 cut(s)	374
SsiI	CCGC	2 cut(s)	244, 294
SspMI	CTAG	4 cut(s)	21, 36, 341, 555
SstI	GAGCTC	1 cut(s)	102
StyD4I	CCNGG	2 cut(s)	499, 504
TaqI	TCGA	2 cut(s)	315, 392
TasI	AATT	1 cut(s)	374
TatI	WGTACW	1 cut(s)	557
TfiI	GAWTC	3 cut(s)	73, 319, 394
Tru1I	TTAA	2 cut(s)	255, 299
Tru9I	TTAA	2 cut(s)	255, 299
TseFI	GTSAC	1 cut(s)	136
TseI	GCWGC	1 cut(s)	512
Tsp45I	GTSAC	1 cut(s)	136
TspDTI	ATGAA	4 cut(s)	21, 95, 177, 367
XbaI	TCTAGA	2 cut(s)	35, 340
XspI	CTAG	4 cut(s)	21, 36, 341, 555
ZrmI	AGTACT	1 cut(s)	559

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