Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0009666

Physical Location & Seq

Genomic Coordinates Forward (+)

61908463 .. 61912228

Gene Structure 3766 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG399200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 633 bp

ATGTTTAGGCATTTTCTTGGAGAAGATCTTGAAAAACTTTGTCTGAAAGAATTGGAAAATCTTGAGAAACAGCTTGACAGAACTCTTTCACAAGCTAGACAAAGGAAGATGCAGATGATGTTAGATCAATTAGAAGCACTACACAGAAAGGAGAATGATCTTGAAGAGATACATAAGCAGCTAAAATCTGAGCTTGAAGAAAGGGAAAAACATAGCGACAATGATGATGATGAAGCATTAATTAAAGGTCGTCCAGGAGGAGAGCCTACTGTAGCTGCTGGAGCTTCTCATGAAAACATTTCTACTAAAACGCGCTCTGCAAATGCTAATCAGCAAGAGCCCACTTATGAATATGGGAGCGCGCCGGCGTCTCTTCACCTTGCTTCATCTTCGATGGGTACTGGTCCAGCATCTTTGTCGGAGTCGGATAAATCAAGGCCAGCTTCCGCCGTGCTTTCTTCTTTGCAGAGTTCCTCTGCGTCATCAGGTTTTCAATCGTGGTTGGTGACCTTTGGGGTGGCTTGGAAGCCAGAGGCTAGCTTGGCCGACGGGCGCCTGGTGTGGATTGGAAGCCAGAGGCTAGGGGCGGAGACTGGTGAATTCCGGTTTGGCTGGGCTGCAAGTCTGTCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003002 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005515 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0009553 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009891 GO:0009893 GO:0009908 GO:0010016 GO:0010022 GO:0010073 GO:0010093 GO:0010094 GO:0010154 GO:0010468 GO:0010556 GO:0010557 GO:0010582 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0035670 GO:0040007 GO:0045893 GO:0045935 GO:0046983 GO:0048229 GO:0048316 GO:0048367 GO:0048437 GO:0048438 GO:0048439 GO:0048440 GO:0048443 GO:0048444 GO:0048445 GO:0048448 GO:0048449 GO:0048455 GO:0048457 GO:0048459 GO:0048461 GO:0048462 GO:0048466 GO:0048467 GO:0048481 GO:0048507 GO:0048509 GO:0048518 GO:0048522 GO:0048532 GO:0048589 GO:0048608 GO:0048646 GO:0048731 GO:0048827 GO:0048832 GO:0048833 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061458 GO:0065007 GO:0080060 GO:0080090 GO:0080112 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0090701 GO:0097159 GO:0099402 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1905392 GO:1905393 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

K-box SRF-TF

Protein Analysis

210

Amino Acids

23.1

Weight (kDa)

5.33

Isoelectric Point (pI)

46.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
K-box	PF01486	3 - 65	3.5e-17	K-box region

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: OG0009666)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g11290 FvH4_3g11290 FvH4_3g11290 FvH4_3g11290 FvH4_7g28690 FvH4_7g28690 FvH4_7g28690
malus_domestica	MD01G1192400.v1.1
prunus_persica	Prupe.2G287000_v2.0.a1 Prupe.2G287000_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0376191
rosa_laevigata	RLG00000026622
rosa_multiflora	Rmu_ssc0000116.1_g000053
rosa_roxburghii	Rroxscaffold_4G00282320
rosa_rugosa	Rorug01G0394300
rosa_samantha	Rh1AG405900 Rh1BG369600 Rh1CG382300 Rh1CG382500 Rh1DG399200 Rh1DG399400
rosa_wichuraiana	Rw1G036010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	552
AccII	CGCG	2 cut(s)	313, 362
AciI	CCGC	2 cut(s)	447, 587
AcoI	YGGCCR	1 cut(s)	543
AcsI	RAATTY	1 cut(s)	599
AcyI	GRCGYC	2 cut(s)	368, 553
AfaI	GTAC	1 cut(s)	400
AgsI	TTSAA	4 cut(s)	32, 164, 197, 494
AjnI	CCWGG	2 cut(s)	253, 555
AjuI	GAANNNNNNNTTGG	2 cut(s)	591, 623
AluBI	AGCT	8 cut(s)	73, 95, 181, 193, 275, 284, 443, 540
AluI	AGCT	8 cut(s)	73, 95, 181, 193, 275, 284, 443, 540
Alw26I	GTCTC	2 cut(s)	375, 584
AoxI	GGCC	2 cut(s)	437, 543
ApeKI	GCWGC	3 cut(s)	178, 275, 617
ApoI	RAATTY	1 cut(s)	599
AseI	ATTAAT	1 cut(s)	239
Asp700I	GAANNNNTTC	1 cut(s)	85
AspLEI	GCGC	4 cut(s)	315, 362, 364, 555
AspS9I	GGNCC	1 cut(s)	404
AsuHPI	GGTGA	3 cut(s)	368, 517, 608
AsuNHI	GCTAGC	1 cut(s)	536
AvaII	GGWCC	1 cut(s)	404
BanI	GGYRCC	1 cut(s)	552
BanII	GRGCYC	1 cut(s)	342
BbvI	GCAGC	3 cut(s)	190, 262, 604
BccI	CCATC	1 cut(s)	388
BceAI	ACGGC	1 cut(s)	434
BcgI	CGANNNNNNTGC	2 cut(s)	399, 433
BciT130I	CCWGG	2 cut(s)	255, 557
BcoDI	GTCTC	2 cut(s)	375, 584
BfaI	CTAG	3 cut(s)	96, 537, 581
BfmI	CTRYAG	1 cut(s)	270
BfoI	RGCGCY	1 cut(s)	556
BglII	AGATCT	1 cut(s)	25
BisI	GCNGC	3 cut(s)	179, 276, 618
BlsI	GCNGC	3 cut(s)	180, 277, 619
Bme1390I	CCNGG	2 cut(s)	255, 557
Bme18I	GGWCC	1 cut(s)	404
BmgT120I	GGNCC	1 cut(s)	404
BmiI	GGNNCC	1 cut(s)	554
BmrFI	CCNGG	2 cut(s)	255, 557
BmsI	GCATC	2 cut(s)	99, 419
BmtI	GCTAGC	1 cut(s)	540
BpmI	CTGGAG	1 cut(s)	300
BpuEI	CTTGAG	1 cut(s)	83
BsaHI	GRCGYC	2 cut(s)	368, 553
BsaWI	WCCGGW	1 cut(s)	603
Bse118I	RCCGGY	1 cut(s)	364
Bse1I	ACTGG	2 cut(s)	406, 598
BseBI	CCWGG	2 cut(s)	255, 557
BseMII	CTCAG	1 cut(s)	180
BseNI	ACTGG	2 cut(s)	406, 598
BsePI	GCGCGC	1 cut(s)	360
BseRI	GAGGAG	1 cut(s)	273
BseXI	GCAGC	3 cut(s)	190, 262, 604
BseYI	CCCAGC	1 cut(s)	612
Bsh1236I	CGCG	2 cut(s)	313, 362
BshFI	GGCC	2 cut(s)	439, 545
BshNI	GGYRCC	1 cut(s)	552
BsiSI	CCGG	2 cut(s)	365, 604
BsmAI	GTCTC	2 cut(s)	375, 584
BsmBI	CGTCTC	1 cut(s)	375
BsnI	GGCC	2 cut(s)	439, 545
Bsp1286I	GDGCHC	1 cut(s)	342
Bsp143I	GATC	3 cut(s)	25, 124, 157
BspACI	CCGC	2 cut(s)	447, 587
BspANI	GGCC	2 cut(s)	439, 545
BspCNI	CTCAG	1 cut(s)	181
BspFNI	CGCG	2 cut(s)	313, 362
BspHI	TCATGA	1 cut(s)	289
BspLI	GGNNCC	1 cut(s)	554
BspOI	GCTAGC	1 cut(s)	540
BspT107I	GGYRCC	1 cut(s)	552
BsrFI	RCCGGY	1 cut(s)	364
BsrI	ACTGG	2 cut(s)	406, 598
BssAI	RCCGGY	1 cut(s)	364
BssHII	GCGCGC	1 cut(s)	360
BssMI	GATC	3 cut(s)	25, 124, 157
BssNI	GRCGYC	2 cut(s)	368, 553
Bst2UI	CCWGG	2 cut(s)	255, 557
Bst4CI	ACNGT	1 cut(s)	271
Bst6I	CTCTTC	2 cut(s)	159, 378
BstACI	GRCGYC	2 cut(s)	368, 553
BstC8I	GCNNGC	4 cut(s)	362, 366, 441, 538
BstDEI	CTNAG	2 cut(s)	189, 630
BstEII	GGTNACC	1 cut(s)	505
BstFNI	CGCG	2 cut(s)	313, 362
BstH2I	RGCGCY	1 cut(s)	556
BstHHI	GCGC	4 cut(s)	315, 362, 364, 555
BstKTI	GATC	3 cut(s)	28, 127, 160
BstMAI	GTCTC	2 cut(s)	375, 584
BstMBI	GATC	3 cut(s)	25, 124, 157
BstMWI	GCNNNNNNNGC	2 cut(s)	281, 542
BstNI	CCWGG	2 cut(s)	255, 557
BstPI	GGTNACC	1 cut(s)	505
BstSCI	CCNGG	2 cut(s)	253, 555
BstSFI	CTRYAG	1 cut(s)	270
BstUI	CGCG	2 cut(s)	313, 362
BstV1I	GCAGC	3 cut(s)	190, 262, 604
BstX2I	RGATCY	1 cut(s)	25
BstYI	RGATCY	1 cut(s)	25
BsuRI	GGCC	2 cut(s)	439, 545
Cac8I	GCNNGC	4 cut(s)	362, 366, 441, 538
CciI	TCATGA	1 cut(s)	289
CfoI	GCGC	4 cut(s)	315, 362, 364, 555
Cfr10I	RCCGGY	1 cut(s)	364
Cfr13I	GGNCC	1 cut(s)	404
CseI	GACGC	2 cut(s)	357, 468
Csp6I	GTAC	1 cut(s)	399
CviAII	CATG	1 cut(s)	290
CviQI	GTAC	1 cut(s)	399
DdeI	CTNAG	2 cut(s)	189, 630
DinI	GGCGCC	1 cut(s)	554
DpnI	GATC	3 cut(s)	27, 126, 159
DpnII	GATC	3 cut(s)	25, 124, 157
EaeI	YGGCCR	1 cut(s)	543
Eam1104I	CTCTTC	2 cut(s)	159, 378
EarI	CTCTTC	2 cut(s)	159, 378
EciI	GGCGGA	2 cut(s)	436, 602
Eco24I	GRGCYC	1 cut(s)	342
Eco47I	GGWCC	1 cut(s)	404
Eco91I	GGTNACC	1 cut(s)	505
EcoO65I	GGTNACC	1 cut(s)	505
EcoRI	GAATTC	1 cut(s)	599
EcoRII	CCWGG	2 cut(s)	253, 555
EcoT38I	GRGCYC	1 cut(s)	342
EgeI	GGCGCC	1 cut(s)	554
EheI	GGCGCC	1 cut(s)	554
Esp3I	CGTCTC	1 cut(s)	375
FaeI	CATG	1 cut(s)	293
FaiI	YATR	5 cut(s)	174, 213, 291, 348, 354
FalI	AAGNNNNNCTT	3 cut(s)	427, 459, 613
FatI	CATG	1 cut(s)	289
Fnu4HI	GCNGC	3 cut(s)	179, 276, 618
FriOI	GRGCYC	1 cut(s)	342
Fsp4HI	GCNGC	3 cut(s)	179, 276, 618
FspBI	CTAG	3 cut(s)	96, 537, 581
GlaI	GCGC	4 cut(s)	314, 361, 363, 554
GluI	GCNGC	3 cut(s)	179, 276, 618
GsaI	CCCAGC	1 cut(s)	616
GsuI	CTGGAG	1 cut(s)	300
HaeII	RGCGCY	1 cut(s)	556
HaeIII	GGCC	2 cut(s)	439, 545
HapII	CCGG	2 cut(s)	365, 604
HgaI	GACGC	2 cut(s)	357, 468
HhaI	GCGC	4 cut(s)	315, 362, 364, 555
Hin1I	GRCGYC	2 cut(s)	368, 553
Hin1II	CATG	1 cut(s)	293
Hin6I	GCGC	4 cut(s)	313, 360, 362, 553
HinP1I	GCGC	4 cut(s)	313, 360, 362, 553
HinfI	GANTC	1 cut(s)	422
HpaII	CCGG	2 cut(s)	365, 604
HphI	GGTGA	3 cut(s)	368, 517, 608
Hpy188I	TCNGA	4 cut(s)	45, 190, 421, 427
Hpy188III	TCNNGA	4 cut(s)	29, 62, 161, 290
Hpy99I	CGWCG	1 cut(s)	551
HpyCH4III	ACNGT	1 cut(s)	271
HpyCH4V	TGCA	4 cut(s)	112, 320, 466, 620
HpyF10VI	GCNNNNNNNGC	2 cut(s)	281, 542
HpyF3I	CTNAG	2 cut(s)	189, 630
Hsp92I	GRCGYC	2 cut(s)	368, 553
Hsp92II	CATG	1 cut(s)	293
HspAI	GCGC	4 cut(s)	313, 360, 362, 553
KasI	GGCGCC	1 cut(s)	552
KroI	GCCGGC	1 cut(s)	364
KroNI	GCCGGC	1 cut(s)	366
Kzo9I	GATC	3 cut(s)	25, 124, 157
LmnI	GCTCC	2 cut(s)	281, 357
Lsp1109I	GCAGC	3 cut(s)	190, 262, 604
LweI	GCATC	2 cut(s)	99, 419
MaeI	CTAG	3 cut(s)	96, 537, 581
MaeIII	GTNAC	1 cut(s)	505
MalI	GATC	3 cut(s)	27, 126, 159
MboI	GATC	3 cut(s)	25, 124, 157
MboII	GAAGA	7 cut(s)	35, 118, 176, 209, 365, 381, 450
MflI	RGATCY	1 cut(s)	25
MhlI	GDGCHC	1 cut(s)	342
MluCI	AATT	4 cut(s)	50, 128, 240, 599
Mly113I	GGCGCC	1 cut(s)	553
MlyI	GAGTC	1 cut(s)	431
MmeI	TCCRAC	2 cut(s)	399, 405
MnlI	CCTC	4 cut(s)	251, 484, 526, 570
MreI	CGCCGGCG	1 cut(s)	364
MroNI	GCCGGC	1 cut(s)	364
MroXI	GAANNNNTTC	1 cut(s)	85
MseI	TTAA	2 cut(s)	239, 243
MspI	CCGG	2 cut(s)	365, 604
MspR9I	CCNGG	2 cut(s)	255, 557
MvaI	CCWGG	2 cut(s)	255, 557
MvnI	CGCG	2 cut(s)	313, 362
MwoI	GCNNNNNNNGC	2 cut(s)	281, 542
NaeI	GCCGGC	1 cut(s)	366
NarI	GGCGCC	1 cut(s)	553
NdeII	GATC	3 cut(s)	25, 124, 157
NgoMIV	GCCGGC	1 cut(s)	364
NheI	GCTAGC	1 cut(s)	536
NlaIII	CATG	1 cut(s)	293
NlaIV	GGNNCC	1 cut(s)	554
NmuCI	GTSAC	1 cut(s)	505
PacI	TTAATTAA	1 cut(s)	243
PagI	TCATGA	1 cut(s)	289
PauI	GCGCGC	1 cut(s)	360
PdiI	GCCGGC	1 cut(s)	366
PdmI	GAANNNNTTC	1 cut(s)	85
PfoI	TCCNGGA	1 cut(s)	253
PkrI	GCNGC	3 cut(s)	180, 277, 619
PleI	GAGTC	1 cut(s)	430
PluTI	GGCGCC	1 cut(s)	556
PpsI	GAGTC	1 cut(s)	430
PshBI	ATTAAT	1 cut(s)	239
Psp6I	CCWGG	2 cut(s)	253, 555
PspEI	GGTNACC	1 cut(s)	505
PspFI	CCCAGC	1 cut(s)	612
PspGI	CCWGG	2 cut(s)	253, 555
PspN4I	GGNNCC	1 cut(s)	554
PspPI	GGNCC	1 cut(s)	404
PsuI	RGATCY	1 cut(s)	25
PteI	GCGCGC	1 cut(s)	360
RsaI	GTAC	1 cut(s)	400
RsaNI	GTAC	1 cut(s)	399
SaqAI	TTAA	2 cut(s)	239, 243
SatI	GCNGC	3 cut(s)	179, 276, 618
Sau3AI	GATC	3 cut(s)	25, 124, 157
Sau96I	GGNCC	1 cut(s)	404
SchI	GAGTC	1 cut(s)	431
ScrFI	CCNGG	2 cut(s)	255, 557
SduI	GDGCHC	1 cut(s)	342
SfaNI	GCATC	2 cut(s)	99, 419
SfcI	CTRYAG	1 cut(s)	270
SfoI	GGCGCC	1 cut(s)	554
SgrAI	CRCCGGYG	1 cut(s)	364
SinI	GGWCC	1 cut(s)	404
SmlI	CTYRAG	1 cut(s)	62
SmoI	CTYRAG	1 cut(s)	62
Sse9I	AATT	4 cut(s)	50, 128, 240, 599
SsiI	CCGC	2 cut(s)	447, 587
SspDI	GGCGCC	1 cut(s)	552
SspMI	CTAG	3 cut(s)	96, 537, 581
StyD4I	CCNGG	2 cut(s)	253, 555
TaaI	ACNGT	1 cut(s)	271
TaqI	TCGA	1 cut(s)	392
TasI	AATT	4 cut(s)	50, 128, 240, 599
Tru1I	TTAA	2 cut(s)	239, 243
Tru9I	TTAA	2 cut(s)	239, 243
TseFI	GTSAC	1 cut(s)	505
TseI	GCWGC	3 cut(s)	178, 275, 617
Tsp45I	GTSAC	1 cut(s)	505
TspDTI	ATGAA	4 cut(s)	246, 306, 363, 375
VpaK11BI	GGWCC	1 cut(s)	404
VspI	ATTAAT	1 cut(s)	239
XapI	RAATTY	1 cut(s)	599
XmnI	GAANNNNTTC	1 cut(s)	85
XspI	CTAG	3 cut(s)	96, 537, 581

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