Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001669

Physical Location & Seq

Genomic Coordinates Forward (+)

5237391 .. 5242895

Gene Structure 5505 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG061500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGGCACGCCAAAGAAGAGGCAACATTCTGAGAACAAGAAAAGCTGCTCGTGCCGCGGCTGCTTCTTCAAGGTTGGCAGTAGGGAAGGATCCATCTAGTGCTGTTTCTGAAAAGCCGAATGAACAATACATCTACTCATTCTGCACGCCGGATAACAAGAAACTGAGATTGTTGTTCAAAAAACAGCTGAAGAATAGTGACGTTGGATCTTTGGGCCGGATTGTCCTTCCGAAGAAAGAGGCTGAAAAATACCTTCCAAGCCTCTCCGACAAGGAAGGCATAGAGCTGAGAATCAGGGATGCTCTTTCAACCCAAGAGTGGGGTTTGAAATACAAGTACTGGTCAAATAACAAAAGCCGAATGTATGTGCTTGAAAACGCAGGAGACTTCGTTAGGCAAACTGGAGTGGAGGTGGGAGATAGCATTCATCTTTACGAAGATGAATGCAAGAATCTTGTGACTCTTTCTTGTCATGCGAGGAAGCAGTACGTCTCCATCCACCGGCAGGCTCAAAAGAGAAGAGGTTCGTCTGGATTTCGTAATAGCGGTCTTCTGCGACAGAGTGAGGCCGATCCGAGAGAGAGAGAGGAAGAGCAGGAGACGGGAAGAGCCATCAAACTCTCAGATAGAATTTTAGCTTTTTCGCGGAGCCTCGATCGACATCCATCTTCACTATTTCGTAGGATATTCGTCTTTTATACTGGTGGATTACAGTTGTCAGTATTGTGGACTGGAGTATTTGCCTGTTTTTGCTTCTTTGATTAG

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:0006355 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009891 GO:0009893 GO:0010154 GO:0010262 GO:0010344 GO:0010431 GO:0010468 GO:0010556 GO:0010557 GO:0010600 GO:0010601 GO:0010604 GO:0010628 GO:0010817 GO:0019219 GO:0019222 GO:0021700 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032350 GO:0032352 GO:0032501 GO:0032502 GO:0032504 GO:0044085 GO:0045893 GO:0045935 GO:0046885 GO:0046886 GO:0048316 GO:0048518 GO:0048522 GO:0048608 GO:0048609 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0071695 GO:0071840 GO:0080090 GO:0090354 GO:0090355 GO:0097159 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

254

Amino Acids

29.11

Weight (kDa)

9.84

Isoelectric Point (pI)

56.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	59 - 155	1.1e-13	B3 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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001669)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28300
fragaria_vesca	FvH4_3g08960 FvH4_3g21641 FvH4_5g20960
malus_domestica	MD00G1115600.v1.1 MD10G1292400.v1.1
prunus_persica	Prupe.4G049500_v2.0.a1 Prupe.4G049500_v2.0.a1 Prupe.4G049500_v2.0.a1
pyrus_communis	pycom05g28900 pycom10g24450
rosa_chinensis	RchiOBHm_Chr5g0008771 RchiOBHm_Chr5g0008831 RchiOBHm_Chr5g0037101
rosa_laevigata	RLG00000031603 RLG00000033751
rosa_multiflora	Rmu_sc0001473.1_g000032 Rmu_sc0018628.1_g000002
rosa_roxburghii	Rroxscaffold_1G00043860 Rroxscaffold_1G00067180 Rroxscaffold_1G00067220 Rroxscaffold_1G00067780 Rroxscaffold_1G00067820
rosa_rugosa	Rorug04G0439000 Rorug04G0439000 Rorug04G0439000 Rorug04G0439500 Rorug04G0439500 Rorug04G0439500 Rorug04G0439600 Rorug04G0439600 Rorug05G0160700
rosa_samantha	Rh5AG067400 Rh5AG067700 Rh5AG252600 Rh5BG064300 Rh5BG064700 Rh5BG254400 Rh5CG075200 Rh5CG075600 Rh5CG075700 Rh5CG286900 Rh5DG061100 Rh5DG061200 Rh5DG061500 Rh5DG262800
rosa_wichuraiana	Rw5G005090 Rw5G006360 Rw5G023300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	56, 646
AciI	CCGC	4 cut(s)	54, 56, 546, 646
AclWI	GGATC	4 cut(s)	83, 96, 214, 566
AcsI	RAATTY	1 cut(s)	630
AcuI	CTGAAG	1 cut(s)	209
AfaI	GTAC	2 cut(s)	338, 488
AfiI	CCNNNNNNNGG	4 cut(s)	318, 319, 501, 505
AgsI	TTSAA	5 cut(s)	69, 178, 309, 328, 374
AluBI	AGCT	4 cut(s)	44, 187, 286, 638
AluI	AGCT	4 cut(s)	44, 187, 286, 638
Alw26I	GTCTC	3 cut(s)	378, 496, 593
AlwI	GGATC	4 cut(s)	83, 96, 214, 566
AoxI	GGCC	2 cut(s)	214, 567
ApeKI	GCWGC	2 cut(s)	44, 59
ApoI	RAATTY	1 cut(s)	630
Asp700I	GAANNNNTTC	1 cut(s)	523
AspS9I	GGNCC	1 cut(s)	214
BamHI	GGATCC	1 cut(s)	88
BauI	CACGAG	1 cut(s)	48
BbsI	GAAGAC	1 cut(s)	542
BbvI	GCAGC	2 cut(s)	31, 46
BccI	CCATC	4 cut(s)	100, 503, 620, 673
BcoDI	GTCTC	3 cut(s)	378, 496, 593
BfaI	CTAG	1 cut(s)	96
BisI	GCNGC	4 cut(s)	45, 54, 57, 60
BlsI	GCNGC	4 cut(s)	46, 55, 58, 61
BmcAI	AGTACT	1 cut(s)	338
BmgT120I	GGNCC	1 cut(s)	214
BmiI	GGNNCC	2 cut(s)	90, 650
BmsI	GCATC	1 cut(s)	289
BpiI	GAAGAC	1 cut(s)	542
BpmI	CTGGAG	2 cut(s)	423, 753
BsaBI	GATNNNNATC	1 cut(s)	660
BsaJI	CCNNGG	1 cut(s)	54
BsaXI	ACNNNNNCTCC	4 cut(s)	375, 396, 405, 426
Bsc4I	CCNNNNNNNGG	4 cut(s)	318, 319, 501, 505
Bse118I	RCCGGY	1 cut(s)	501
Bse1I	ACTGG	4 cut(s)	344, 406, 706, 736
Bse8I	GATNNNNATC	1 cut(s)	660
BseDI	CCNNGG	1 cut(s)	54
BseGI	GGATG	3 cut(s)	304, 495, 661
BseJI	GATNNNNATC	1 cut(s)	660
BseLI	CCNNNNNNNGG	4 cut(s)	318, 319, 501, 505
BseMII	CTCAG	4 cut(s)	20, 155, 278, 636
BseNI	ACTGG	4 cut(s)	344, 406, 706, 736
BseXI	GCAGC	2 cut(s)	31, 46
BsgI	GTGCAG	1 cut(s)	127
Bsh1236I	CGCG	2 cut(s)	56, 646
Bsh1285I	CGRYCG	1 cut(s)	658
BshFI	GGCC	2 cut(s)	216, 569
BsiEI	CGRYCG	1 cut(s)	658
BsiSI	CCGG	3 cut(s)	149, 217, 502
BslI	CCNNNNNNNGG	4 cut(s)	318, 319, 501, 505
BsmAI	GTCTC	3 cut(s)	378, 496, 593
BsmBI	CGTCTC	2 cut(s)	496, 593
BsmI	GAATGC	2 cut(s)	423, 449
BsnI	GGCC	2 cut(s)	216, 569
Bsp143I	GATC	4 cut(s)	88, 206, 571, 655
BspACI	CCGC	4 cut(s)	54, 56, 546, 646
BspANI	GGCC	2 cut(s)	216, 569
BspCNI	CTCAG	4 cut(s)	21, 156, 279, 635
BspFNI	CGCG	2 cut(s)	56, 646
BspLI	GGNNCC	2 cut(s)	90, 650
BspPI	GGATC	4 cut(s)	83, 96, 214, 566
BspQI	GCTCTTC	2 cut(s)	585, 601
BsrFI	RCCGGY	1 cut(s)	501
BsrI	ACTGG	4 cut(s)	344, 406, 706, 736
BssAI	RCCGGY	1 cut(s)	501
BssECI	CCNNGG	1 cut(s)	54
BssMI	GATC	4 cut(s)	88, 206, 571, 655
BssSI	CACGAG	1 cut(s)	48
Bst2BI	CACGAG	1 cut(s)	48
Bst4CI	ACNGT	1 cut(s)	714
Bst6I	CTCTTC	4 cut(s)	10, 514, 585, 601
BstC8I	GCNNGC	3 cut(s)	7, 146, 507
BstDEI	CTNAG	4 cut(s)	29, 164, 287, 622
BstDSI	CCRYGG	1 cut(s)	54
BstF5I	GGATG	3 cut(s)	304, 495, 661
BstFNI	CGCG	2 cut(s)	56, 646
BstKTI	GATC	4 cut(s)	91, 209, 574, 658
BstMAI	GTCTC	3 cut(s)	378, 496, 593
BstMBI	GATC	4 cut(s)	88, 206, 571, 655
BstMCI	CGRYCG	1 cut(s)	658
BstMWI	GCNNNNNNNGC	3 cut(s)	50, 53, 59
BstUI	CGCG	2 cut(s)	56, 646
BstV1I	GCAGC	2 cut(s)	31, 46
BstV2I	GAAGAC	1 cut(s)	542
BstX2I	RGATCY	2 cut(s)	88, 206
BstYI	RGATCY	2 cut(s)	88, 206
BsuRI	GGCC	2 cut(s)	216, 569
BtgI	CCRYGG	1 cut(s)	54
BtsCI	GGATG	3 cut(s)	304, 495, 661
Cac8I	GCNNGC	3 cut(s)	7, 146, 507
Cfr10I	RCCGGY	1 cut(s)	501
Cfr13I	GGNCC	1 cut(s)	214
Cfr42I	CCGCGG	1 cut(s)	57
Csp6I	GTAC	2 cut(s)	337, 487
CviAII	CATG	1 cut(s)	473
CviQI	GTAC	2 cut(s)	337, 487
DdeI	CTNAG	4 cut(s)	29, 164, 287, 622
DpnI	GATC	4 cut(s)	90, 208, 573, 657
DpnII	GATC	4 cut(s)	88, 206, 571, 655
Eam1104I	CTCTTC	4 cut(s)	10, 514, 585, 601
EarI	CTCTTC	4 cut(s)	10, 514, 585, 601
Eco57I	CTGAAG	1 cut(s)	209
Esp3I	CGTCTC	2 cut(s)	496, 593
FaeI	CATG	1 cut(s)	476
FaiI	YATR	4 cut(s)	281, 366, 474, 699
FatI	CATG	1 cut(s)	472
Fnu4HI	GCNGC	4 cut(s)	45, 54, 57, 60
FokI	GGATG	3 cut(s)	311, 482, 648
Fsp4HI	GCNGC	4 cut(s)	45, 54, 57, 60
FspBI	CTAG	1 cut(s)	96
GluI	GCNGC	4 cut(s)	45, 54, 57, 60
GsuI	CTGGAG	2 cut(s)	423, 753
HaeIII	GGCC	2 cut(s)	216, 569
HapII	CCGG	3 cut(s)	149, 217, 502
Hin1II	CATG	1 cut(s)	476
HinfI	GANTC	3 cut(s)	291, 451, 460
HpaII	CCGG	3 cut(s)	149, 217, 502
Hpy166II	GTNNAC	1 cut(s)	729
Hpy188I	TCNGA	6 cut(s)	30, 109, 231, 268, 576, 625
Hpy188III	TCNNGA	1 cut(s)	531
Hpy8I	GTNNAC	1 cut(s)	729
HpyAV	CCTTC	4 cut(s)	79, 236, 263, 269
HpyCH4III	ACNGT	1 cut(s)	714
HpyCH4IV	ACGT	2 cut(s)	201, 489
HpyCH4V	TGCA	2 cut(s)	144, 447
HpyF10VI	GCNNNNNNNGC	3 cut(s)	50, 53, 59
HpyF3I	CTNAG	4 cut(s)	29, 164, 287, 622
HpySE526I	ACGT	2 cut(s)	201, 489
Hsp92II	CATG	1 cut(s)	476
KspI	CCGCGG	1 cut(s)	57
Kzo9I	GATC	4 cut(s)	88, 206, 571, 655
LguI	GCTCTTC	2 cut(s)	585, 601
LmnI	GCTCC	1 cut(s)	648
Lsp1109I	GCAGC	2 cut(s)	31, 46
LweI	GCATC	1 cut(s)	289
MaeI	CTAG	1 cut(s)	96
MaeII	ACGT	2 cut(s)	201, 489
MaeIII	GTNAC	2 cut(s)	197, 457
MalI	GATC	4 cut(s)	90, 208, 573, 657
MboI	GATC	4 cut(s)	88, 206, 571, 655
MflI	RGATCY	2 cut(s)	88, 206
MluCI	AATT	1 cut(s)	630
MlyI	GAGTC	1 cut(s)	454
MmeI	TCCRAC	2 cut(s)	184, 291
MnlI	CCTC	9 cut(s)	11, 232, 272, 403, 471, 515, 559, 580, 662
MroXI	GAANNNNTTC	1 cut(s)	523
MspA1I	CMGCKG	2 cut(s)	56, 187
MspI	CCGG	3 cut(s)	149, 217, 502
Mva1269I	GAATGC	2 cut(s)	423, 449
MvnI	CGCG	2 cut(s)	56, 646
MwoI	GCNNNNNNNGC	3 cut(s)	50, 53, 59
NdeII	GATC	4 cut(s)	88, 206, 571, 655
NlaIII	CATG	1 cut(s)	476
NlaIV	GGNNCC	2 cut(s)	90, 650
NmuCI	GTSAC	2 cut(s)	197, 457
PciSI	GCTCTTC	2 cut(s)	585, 601
PctI	GAATGC	2 cut(s)	423, 449
PdmI	GAANNNNTTC	1 cut(s)	523
PfeI	GAWTC	2 cut(s)	291, 451
PkrI	GCNGC	4 cut(s)	46, 55, 58, 61
Ple19I	CGATCG	1 cut(s)	658
PleI	GAGTC	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	454
PspN4I	GGNNCC	2 cut(s)	90, 650
PspPI	GGNCC	1 cut(s)	214
PsuI	RGATCY	2 cut(s)	88, 206
PvuI	CGATCG	1 cut(s)	658
PvuII	CAGCTG	1 cut(s)	187
RsaI	GTAC	2 cut(s)	338, 488
RsaNI	GTAC	2 cut(s)	337, 487
SacII	CCGCGG	1 cut(s)	57
SapI	GCTCTTC	2 cut(s)	585, 601
SatI	GCNGC	4 cut(s)	45, 54, 57, 60
Sau3AI	GATC	4 cut(s)	88, 206, 571, 655
Sau96I	GGNCC	1 cut(s)	214
ScaI	AGTACT	1 cut(s)	338
SchI	GAGTC	1 cut(s)	454
SfaNI	GCATC	1 cut(s)	289
Sfr303I	CCGCGG	1 cut(s)	57
SgrBI	CCGCGG	1 cut(s)	57
Sse9I	AATT	1 cut(s)	630
SsiI	CCGC	4 cut(s)	54, 56, 546, 646
SspMI	CTAG	1 cut(s)	96
TaaI	ACNGT	1 cut(s)	714
TaiI	ACGT	2 cut(s)	204, 492
TaqI	TCGA	2 cut(s)	654, 658
TasI	AATT	1 cut(s)	630
TatI	WGTACW	1 cut(s)	336
TauI	GCSGC	2 cut(s)	56, 59
TfiI	GAWTC	2 cut(s)	291, 451
TseFI	GTSAC	2 cut(s)	197, 457
TseI	GCWGC	2 cut(s)	44, 59
Tsp45I	GTSAC	2 cut(s)	197, 457
TspDTI	ATGAA	3 cut(s)	135, 416, 456
XapI	RAATTY	1 cut(s)	630
XmnI	GAANNNNTTC	1 cut(s)	523
XspI	CTAG	1 cut(s)	96
ZrmI	AGTACT	1 cut(s)	338

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