Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0011516

Physical Location & Seq

Genomic Coordinates Forward (+)

5367584 .. 5370038

Gene Structure 2455 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG065000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGCAGGGAGAGCGAGACCAGCAGCAGCACAACAACCAAGACCAGAAGGTGAACCAGCAGCAGCAACAAGGACAACAGCAACCGCAGCAACAGCAGCAGCCTCAGAAGTGTCCAAGGTGCGAGTCCCTCAACACCAAGTTCTGCTACTACAACAACTACAGCCTGTCCCAGCCCCGCTACTTCTGCAAGGCGTGCAGGAGGTACTGGACCCAGGGTGGGACCCTCCGGAACGTCCCCGTCGGTGGGGGCTGCCGGAAAGGCAAGCGTGCCAAGACCATGTCCTCGTCATCATCAGCCACCTCCTCTCGCTCGGTGCTTCAGCCGCAGCCGCAGCCACAAGACCACCACCAGTTGCAGCAGAGGCCATTGATGATGTCAACAGGGCCAGCTGCCCTGAACTCTCTGGCTGGCTCCCAGTACTATCCTGGTGGTACTGGGTATTTGACATCTATGCCCTTTGCTCAAAACCTCAACCATCTTGGGGGTTCTGGTCAATTGGGATCAGGTGGTGGTGCTTCAAATTTGGGACTGCTTCATGGCTTCAATGCCATCTCTTCCTATGGCCAGCGTCAGATGCAAGCCCAGCTTTTTAAGGGCAACATGGAGCCTCCACCTCTGTACCCATCTGAGGATCATCGAGGCCTGTTGCTTCAACCAGCCAGGCCAAGTGGTTCTATGACTGATTGGCCTGAGAGCTTCCTCAACAAATCTCATGCTTCTGTTTCTGCTTCTGCTGCTGCAGCCTCAGCTGGTCAAAGCGCTCTGTGGAGCACCACCATGGGGCACAACACCAGCACCACCAGCGGTGCAGGCCCTTCTCTGAACTCAGCTCAGTGGCCTGATGATATTGCCGGATCTTTTGCCGCCGGCCCTCCTCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001067 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:0009889 GO:0009891 GO:0009893 GO:0010154 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0022414 GO:0022603 GO:0022622 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044212 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0048364 GO:0048518 GO:0048522 GO:0048608 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051173 GO:0051239 GO:0051252 GO:0051254 GO:0060255 GO:0060688 GO:0061458 GO:0065007 GO:0080090 GO:0097159 GO:0099402 GO:0140110 GO:1900618 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1905428 GO:2000026 GO:2000032 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-Dof

Protein Analysis

293

Amino Acids

31.55

Weight (kDa)

9.48

Isoelectric Point (pI)

62.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_Dof	PF02701	33 - 89	2.4e-33	Dof domain, zinc finger

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: OG0011516)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g26920 FvH4_3g08900
malus_domestica	MD00G1115200.v1.1 MD07G1265700.v1.1 MD10G1292200.v1.1
prunus_persica	Prupe.4G050200_v2.0.a1 Prupe.4G050200_v2.0.a1
pyrus_communis	pycom05g28850 pycom10g24420
rosa_chinensis	RchiOBHm_Chr5g0008851
rosa_laevigata	RLG00000031609
rosa_multiflora	Rmu_sc0007899.1_g000001
rosa_roxburghii	Rroxscaffold_1G00067150 Rroxscaffold_1G00067770
rosa_rugosa	Rorug04G0439800
rosa_samantha	Rh5AG067900 Rh5BG065000 Rh5CG076100 Rh5DG060800
rosa_wichuraiana	Rw5G006380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	225
AciI	CCGC	6 cut(s)	83, 175, 323, 329, 804, 864
AclWI	GGATC	3 cut(s)	508, 639, 862
AcoI	YGGCCR	1 cut(s)	562
AcsI	RAATTY	1 cut(s)	520
AcuI	CTGAAG	1 cut(s)	302
AfaI	GTAC	4 cut(s)	203, 419, 433, 620
AfeI	AGCGCT	1 cut(s)	760
AfiI	CCNNNNNNNGG	6 cut(s)	216, 242, 243, 481, 628, 780
AgsI	TTSAA	3 cut(s)	519, 544, 653
AjnI	CCWGG	3 cut(s)	210, 424, 659
AluBI	AGCT	5 cut(s)	389, 586, 696, 749, 830
AluI	AGCT	5 cut(s)	389, 586, 696, 749, 830
Alw21I	GWGCWC	1 cut(s)	773
Alw26I	GTCTC	1 cut(s)	9
AlwI	GGATC	3 cut(s)	508, 639, 862
Aor13HI	TCCGGA	1 cut(s)	225
Aor51HI	AGCGCT	1 cut(s)	760
AoxI	GGCC	9 cut(s)	362, 383, 562, 640, 662, 686, 811, 836, 868
ApoI	RAATTY	1 cut(s)	520
AspLEI	GCGC	1 cut(s)	761
AspS9I	GGNCC	5 cut(s)	207, 219, 383, 812, 869
AsuHPI	GGTGA	1 cut(s)	61
AvaII	GGWCC	2 cut(s)	207, 219
BaeGI	GKGCMC	1 cut(s)	786
BaeI	ACNNNNGTAYC	2 cut(s)	602, 635
BalI	TGGCCA	1 cut(s)	564
Bbv12I	GWGCWC	1 cut(s)	773
BbvCI	CCTCAGC	1 cut(s)	745
BccI	CCATC	3 cut(s)	483, 557, 631
BciT130I	CCWGG	3 cut(s)	212, 426, 661
BcoDI	GTCTC	1 cut(s)	9
BfmI	CTRYAG	2 cut(s)	157, 738
BfoI	RGCGCY	1 cut(s)	762
BglI	GCCNNNNNGGC	1 cut(s)	258
BmcAI	AGTACT	1 cut(s)	419
Bme1390I	CCNGG	3 cut(s)	212, 426, 661
Bme18I	GGWCC	2 cut(s)	207, 219
BmgT120I	GGNCC	5 cut(s)	207, 219, 383, 812, 869
BmiI	GGNNCC	5 cut(s)	209, 220, 221, 412, 606
BmrFI	CCNGG	3 cut(s)	212, 426, 661
BmrI	ACTGGG	2 cut(s)	409, 444
BmsI	GCATC	1 cut(s)	564
BmuI	ACTGGG	2 cut(s)	409, 444
Bpu10I	CCTNAGC	1 cut(s)	745
BsaI	GGTCTC	1 cut(s)	9
BsaJI	CCNNGG	4 cut(s)	113, 210, 211, 777
BsaWI	WCCGGW	1 cut(s)	225
Bsc4I	CCNNNNNNNGG	6 cut(s)	216, 242, 243, 481, 628, 780
Bse118I	RCCGGY	1 cut(s)	866
Bse1I	ACTGG	4 cut(s)	209, 349, 415, 439
BseAI	TCCGGA	1 cut(s)	225
BseBI	CCWGG	3 cut(s)	212, 426, 661
BseDI	CCNNGG	4 cut(s)	113, 210, 211, 777
BseLI	CCNNNNNNNGG	6 cut(s)	216, 242, 243, 481, 628, 780
BseMII	CTCAG	6 cut(s)	116, 618, 681, 759, 840, 845
BseNI	ACTGG	4 cut(s)	209, 349, 415, 439
BseRI	GAGGAG	2 cut(s)	292, 864
BseSI	GKGCMC	1 cut(s)	786
BseYI	CCCAGC	2 cut(s)	168, 582
BsgI	GTGCAG	2 cut(s)	214, 828
BshFI	GGCC	9 cut(s)	364, 385, 564, 642, 664, 688, 813, 838, 870
BsiHKAI	GWGCWC	1 cut(s)	773
BsiSI	CCGG	4 cut(s)	226, 253, 852, 867
BslFI	GGGAC	5 cut(s)	109, 151, 218, 232, 540
BslI	CCNNNNNNNGG	6 cut(s)	216, 242, 243, 481, 628, 780
BsmAI	GTCTC	1 cut(s)	9
BsmFI	GGGAC	5 cut(s)	109, 151, 218, 232, 540
BsnI	GGCC	9 cut(s)	364, 385, 564, 642, 664, 688, 813, 838, 870
Bso31I	GGTCTC	1 cut(s)	9
Bsp1286I	GDGCHC	2 cut(s)	773, 786
Bsp13I	TCCGGA	1 cut(s)	225
Bsp143I	GATC	3 cut(s)	500, 631, 854
Bsp19I	CCATGG	1 cut(s)	777
BspACI	CCGC	6 cut(s)	83, 175, 323, 329, 804, 864
BspANI	GGCC	9 cut(s)	364, 385, 564, 642, 664, 688, 813, 838, 870
BspCNI	CTCAG	6 cut(s)	115, 619, 682, 758, 839, 844
BspEI	TCCGGA	1 cut(s)	225
BspLI	GGNNCC	5 cut(s)	209, 220, 221, 412, 606
BspMAI	CTGCAG	1 cut(s)	742
BspPI	GGATC	3 cut(s)	508, 639, 862
BspTNI	GGTCTC	1 cut(s)	9
BsrFI	RCCGGY	1 cut(s)	866
BsrI	ACTGG	4 cut(s)	209, 349, 415, 439
BssAI	RCCGGY	1 cut(s)	866
BssECI	CCNNGG	4 cut(s)	113, 210, 211, 777
BssMI	GATC	3 cut(s)	500, 631, 854
BssT1I	CCWWGG	2 cut(s)	113, 777
Bst2UI	CCWGG	3 cut(s)	212, 426, 661
Bst6I	CTCTTC	1 cut(s)	559
BstAPI	GCANNNNNTGC	1 cut(s)	192
BstC8I	GCNNGC	9 cut(s)	193, 263, 267, 387, 409, 566, 579, 811, 868
BstDEI	CTNAG	7 cut(s)	102, 627, 690, 745, 826, 831, 876
BstDSI	CCRYGG	1 cut(s)	777
BstH2I	RGCGCY	1 cut(s)	762
BstHHI	GCGC	1 cut(s)	761
BstKTI	GATC	3 cut(s)	503, 634, 857
BstMAI	GTCTC	1 cut(s)	9
BstMBI	GATC	3 cut(s)	500, 631, 854
BstNI	CCWGG	3 cut(s)	212, 426, 661
BstSCI	CCNGG	3 cut(s)	210, 424, 659
BstSFI	CTRYAG	2 cut(s)	157, 738
BstSLI	GKGCMC	1 cut(s)	786
BstX2I	RGATCY	1 cut(s)	854
BstYI	RGATCY	1 cut(s)	854
BsuRI	GGCC	9 cut(s)	364, 385, 564, 642, 664, 688, 813, 838, 870
BtgI	CCRYGG	1 cut(s)	777
BtsIMutI	CAGTG	1 cut(s)	839
Cac8I	GCNNGC	9 cut(s)	193, 263, 267, 387, 409, 566, 579, 811, 868
CfoI	GCGC	1 cut(s)	761
Cfr10I	RCCGGY	1 cut(s)	866
Cfr13I	GGNCC	5 cut(s)	207, 219, 383, 812, 869
CseI	GACGC	1 cut(s)	557
Csp6I	GTAC	4 cut(s)	202, 418, 432, 619
CviAII	CATG	5 cut(s)	277, 536, 601, 713, 778
CviQI	GTAC	4 cut(s)	202, 418, 432, 619
DdeI	CTNAG	7 cut(s)	102, 627, 690, 745, 826, 831, 876
DpnI	GATC	3 cut(s)	502, 633, 856
DpnII	GATC	3 cut(s)	500, 631, 854
EaeI	YGGCCR	1 cut(s)	562
Eam1104I	CTCTTC	1 cut(s)	559
EarI	CTCTTC	1 cut(s)	559
Eco130I	CCWWGG	2 cut(s)	113, 777
Eco147I	AGGCCT	1 cut(s)	642
Eco31I	GGTCTC	1 cut(s)	9
Eco47I	GGWCC	2 cut(s)	207, 219
Eco47III	AGCGCT	1 cut(s)	760
Eco57I	CTGAAG	1 cut(s)	302
EcoO109I	RGGNCCY	2 cut(s)	219, 812
EcoRII	CCWGG	3 cut(s)	210, 424, 659
EcoT14I	CCWWGG	2 cut(s)	113, 777
ErhI	CCWWGG	2 cut(s)	113, 777
FaeI	CATG	5 cut(s)	280, 539, 604, 716, 781
FaiI	YATR	8 cut(s)	278, 452, 537, 561, 602, 677, 714, 779
FalI	AAGNNNNNCTT	2 cut(s)	570, 602
FaqI	GGGAC	5 cut(s)	109, 151, 218, 232, 540
FatI	CATG	5 cut(s)	276, 535, 600, 712, 777
FauI	CCCGC	1 cut(s)	182
GlaI	GCGC	1 cut(s)	760
GsaI	CCCAGC	2 cut(s)	172, 586
HaeII	RGCGCY	1 cut(s)	762
HaeIII	GGCC	9 cut(s)	364, 385, 564, 642, 664, 688, 813, 838, 870
HapII	CCGG	4 cut(s)	226, 253, 852, 867
HgaI	GACGC	1 cut(s)	557
HhaI	GCGC	1 cut(s)	761
Hin1II	CATG	5 cut(s)	280, 539, 604, 716, 781
Hin6I	GCGC	1 cut(s)	759
HinP1I	GCGC	1 cut(s)	759
HincII	GTYRAC	1 cut(s)	378
HindII	GTYRAC	1 cut(s)	378
HinfI	GANTC	1 cut(s)	122
HpaII	CCGG	4 cut(s)	226, 253, 852, 867
HphI	GGTGA	1 cut(s)	61
Hpy166II	GTNNAC	2 cut(s)	52, 378
Hpy188I	TCNGA	4 cut(s)	105, 573, 628, 822
Hpy188III	TCNNGA	1 cut(s)	226
Hpy8I	GTNNAC	2 cut(s)	52, 378
Hpy99I	CGWCG	1 cut(s)	242
HpyAV	CCTTC	2 cut(s)	40, 825
HpyCH4IV	ACGT	1 cut(s)	231
HpyCH4V	TGCA	7 cut(s)	4, 186, 195, 355, 577, 740, 809
HpyF3I	CTNAG	7 cut(s)	102, 627, 690, 745, 826, 831, 876
HpySE526I	ACGT	1 cut(s)	231
Hsp92II	CATG	5 cut(s)	280, 539, 604, 716, 781
HspAI	GCGC	1 cut(s)	759
KflI	GGGWCCC	1 cut(s)	219
Kpn2I	TCCGGA	1 cut(s)	225
KroI	GCCGGC	1 cut(s)	866
KroNI	GCCGGC	1 cut(s)	868
Kzo9I	GATC	3 cut(s)	500, 631, 854
LmnI	GCTCC	3 cut(s)	416, 604, 768
LweI	GCATC	1 cut(s)	564
MaeII	ACGT	1 cut(s)	231
MalI	GATC	3 cut(s)	502, 633, 856
MboI	GATC	3 cut(s)	500, 631, 854
MboII	GAAGA	1 cut(s)	546
MfeI	CAATTG	1 cut(s)	494
MflI	RGATCY	1 cut(s)	854
MhlI	GDGCHC	2 cut(s)	773, 786
MlsI	TGGCCA	1 cut(s)	564
MluCI	AATT	2 cut(s)	494, 520
MluNI	TGGCCA	1 cut(s)	564
MlyI	GAGTC	1 cut(s)	131
Mox20I	TGGCCA	1 cut(s)	564
MroI	TCCGGA	1 cut(s)	225
MroNI	GCCGGC	1 cut(s)	866
MscI	TGGCCA	1 cut(s)	564
MseI	TTAA	1 cut(s)	591
MslI	CAYNNNNRTG	1 cut(s)	776
Msp20I	TGGCCA	1 cut(s)	564
MspA1I	CMGCKG	3 cut(s)	389, 749, 804
MspI	CCGG	4 cut(s)	226, 253, 852, 867
MspR9I	CCNGG	3 cut(s)	212, 426, 661
MunI	CAATTG	1 cut(s)	494
MvaI	CCWGG	3 cut(s)	212, 426, 661
NaeI	GCCGGC	1 cut(s)	868
NcoI	CCATGG	1 cut(s)	777
NdeII	GATC	3 cut(s)	500, 631, 854
NgoMIV	GCCGGC	1 cut(s)	866
NlaIII	CATG	5 cut(s)	280, 539, 604, 716, 781
NlaIV	GGNNCC	5 cut(s)	209, 220, 221, 412, 606
PasI	CCCWGGG	1 cut(s)	211
PceI	AGGCCT	1 cut(s)	642
PdiI	GCCGGC	1 cut(s)	868
PflFI	GACNNNGTC	1 cut(s)	277
PleI	GAGTC	1 cut(s)	130
PpsI	GAGTC	1 cut(s)	130
PpuMI	RGGWCCY	1 cut(s)	219
Psp5II	RGGWCCY	1 cut(s)	219
Psp6I	CCWGG	3 cut(s)	210, 424, 659
PspFI	CCCAGC	2 cut(s)	168, 582
PspGI	CCWGG	3 cut(s)	210, 424, 659
PspN4I	GGNNCC	5 cut(s)	209, 220, 221, 412, 606
PspPI	GGNCC	5 cut(s)	207, 219, 383, 812, 869
PspPPI	RGGWCCY	1 cut(s)	219
PstI	CTGCAG	1 cut(s)	742
PsuI	RGATCY	1 cut(s)	854
PsyI	GACNNNGTC	1 cut(s)	277
PvuII	CAGCTG	2 cut(s)	389, 749
RsaI	GTAC	4 cut(s)	203, 419, 433, 620
RsaNI	GTAC	4 cut(s)	202, 418, 432, 619
RseI	CAYNNNNRTG	1 cut(s)	776
SaqAI	TTAA	1 cut(s)	591
Sau3AI	GATC	3 cut(s)	500, 631, 854
Sau96I	GGNCC	5 cut(s)	207, 219, 383, 812, 869
ScaI	AGTACT	1 cut(s)	419
SchI	GAGTC	1 cut(s)	131
ScrFI	CCNGG	3 cut(s)	212, 426, 661
SduI	GDGCHC	2 cut(s)	773, 786
SfaNI	GCATC	1 cut(s)	564
SfcI	CTRYAG	2 cut(s)	157, 738
SinI	GGWCC	2 cut(s)	207, 219
SmiMI	CAYNNNNRTG	1 cut(s)	776
Sse9I	AATT	2 cut(s)	494, 520
SseBI	AGGCCT	1 cut(s)	642
SsiI	CCGC	6 cut(s)	83, 175, 323, 329, 804, 864
StuI	AGGCCT	1 cut(s)	642
StyD4I	CCNGG	3 cut(s)	210, 424, 659
StyI	CCWWGG	2 cut(s)	113, 777
TaiI	ACGT	1 cut(s)	234
TaqI	TCGA	1 cut(s)	637
TasI	AATT	2 cut(s)	494, 520
TatI	WGTACW	1 cut(s)	417
TauI	GCSGC	3 cut(s)	325, 331, 866
Tru1I	TTAA	1 cut(s)	591
Tru9I	TTAA	1 cut(s)	591
TscAI	CASTG	1 cut(s)	839
TspDTI	ATGAA	1 cut(s)	524
TspRI	CASTG	1 cut(s)	839
Tth111I	GACNNNGTC	1 cut(s)	277
VpaK11BI	GGWCC	2 cut(s)	207, 219
XapI	RAATTY	1 cut(s)	520
XcmI	CCANNNNNNNNNTGG	1 cut(s)	422
ZrmI	AGTACT	1 cut(s)	419

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