Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0014802

Physical Location & Seq

Genomic Coordinates Reverse (-)

44897568 .. 44899709

Gene Structure 2142 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG315300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1230 bp

ATGGCGGACGAGGGTTTCGAAGCGTTCCACGTCCCCCGACAAAGCAGAAGAGACCAGCTCCGAGTCGTGAACCTCCTAACCAACCCACCACAGCCACAACTCTCACTATTCACACCCTCCACCATTCCAACCCCCCAACTACCACTTTCCCCACATTTCTCCGATCACGACCACCGTGTTTCATTTGAAGGTGGTGAGTTCAGAAGCTCTGTTCCCCTAGGCCCTTTCACGGGCTACGCTTCCATACTGAAGCGGTCCAGGTTTCTCAAGCCTGCCCAGCAGCTCCTTCAAGACTTCTGCGGGTTGGATCGATCCGATTCGAATCTTCCTCTCCGTAACTGCTTCATTGGAAGAGGAAGAGATCAGATTAGTGGAGTGAGTGATCGGGTCGAGCTTCAGTTCAAGAATTCTAGGCTCACCATTATGCTCGAGGAGGTCTACAAGAGATATAAGTTATACTGCCAGCAGATGGAGTCGGTTGTTGCATCATTTGAAACCATTGATGGGCTTGGAAATGCAGCTCCATACATATCTTTTGCCATCAAAGCCATTTTGAAGCACTTTGGTTGCTTGAAGAATGCCATTTTGGACAAACTTCAATCCAAAGGCAAGAGCAGTGTCGGTGATTTTAGCCATGTTAAAGATGAGATTAGGGGGCTTTCGGGGGTTTCTAGAAGAGGCTTTCATAGCCAAAACCCAAGTCATGAGAACCTGACCAACAACTTTCATCTATCGGAAATTCGATCCCAAAGAGGACTTCCGGAAAATGCAGTGGCTGTGATGAGGACATGGCTTTTTGAACACTTCCTTCACCCTTATCCTAGTGATTCTGAAAAGCAAATGCTAGCTCAACAGACAGGCTTATCAAGAACTCAGGTTTCCAATTGGTTTATCAATTCAAGAGTAAGACTCTGGAAGCCAATGGTGGAAGAAATACACAGCCTTGAAACACAACAAGCTCCAATTGTTTCGGTTTCAGACACAACGAGCAGAAACACAAGAATGGCGCCGTCCCCTCGCTCTTCGTCTTTAGAGAACCCTCTCCATTTGGGGAATCTGCCCCAAACTAAACGCTGTAGAACCAACAAACATTCTGACATGTCTAAGCAGAGTGAAACACAAAGGAATGCAGGAGATTATGGGAGTTTATCAAGCAATTATTTTCGTATGAATACCGGAAGCCATGAAGGTGAAGTTTCTTTAGCATTAAGCCTTCAAGCCAAAAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001763 GO:0003002 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009890 GO:0009892 GO:0009908 GO:0010016 GO:0010051 GO:0010073 GO:0010074 GO:0010076 GO:0010077 GO:0010087 GO:0010089 GO:0010154 GO:0010223 GO:0010228 GO:0010346 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0019827 GO:0022414 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044444 GO:0044464 GO:0045892 GO:0045934 GO:0048367 GO:0048438 GO:0048439 GO:0048457 GO:0048507 GO:0048519 GO:0048523 GO:0048608 GO:0048646 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0061458 GO:0065007 GO:0080006 GO:0080090 GO:0090567 GO:0090698 GO:0097159 GO:0098727 GO:0140110 GO:1901363 GO:1902679 GO:1903506 GO:1903507 GO:1905393 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04550 ko05202 map04550 map05202

Pfam Domains

Protein Families

Homeobox_KN POX

Protein Analysis

409

Amino Acids

46.19

Weight (kDa)

9.47

Isoelectric Point (pI)

50.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
POX	PF07526	82 - 195	2.8e-29	Associated with HOX
Homeobox_KN	PF05920	264 - 303	3e-20	Homeobox KN domain
Homeodomain	PF00046	271 - 303	3.4e-08	Homeodomain

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0014802)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g23561 FvH4_7g23561 FvH4_7g23561 FvH4_7g23561
malus_domestica	MD07G1205600.v1.1
prunus_persica	Prupe.2G241700_v2.0.a1
pyrus_communis	pycom07g19240
rosa_chinensis	RchiOBHm_Chr1g0368731
rosa_laevigata	RLG00000027193
rosa_roxburghii	Rroxscaffold_4G00288320
rosa_rugosa	Rorug01G0344500 Rorug01G0344600 Rorug01G0344700
rosa_samantha	Rh1AG351600 Rh1BG315300 Rh1CG329900 Rh1DG346800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	1006
AccB7I	CCANNNNNTGG	1 cut(s)	469
AccI	GTMKAC	1 cut(s)	438
AccIII	TCCGGA	1 cut(s)	760
AciI	CCGC	3 cut(s)	5, 253, 300
AclWI	GGATC	3 cut(s)	306, 315, 738
AcsI	RAATTY	2 cut(s)	406, 738
AcuI	CTGAAG	2 cut(s)	269, 380
AcyI	GRCGYC	1 cut(s)	1007
AfiI	CCNNNNNNNGG	4 cut(s)	229, 230, 469, 504
AflIII	ACRYGT	1 cut(s)	1098
AjiI	CACGTC	1 cut(s)	31
AjnI	CCWGG	1 cut(s)	257
AjuI	GAANNNNNNNTTGG	4 cut(s)	569, 601, 741, 773
AluBI	AGCT	7 cut(s)	58, 207, 283, 394, 521, 848, 959
AluI	AGCT	7 cut(s)	58, 207, 283, 394, 521, 848, 959
Alw26I	GTCTC	1 cut(s)	45
AlwI	GGATC	3 cut(s)	306, 315, 738
AlwNI	CAGNNNCTG	1 cut(s)	776
Ama87I	CYCGRG	1 cut(s)	428
Aor13HI	TCCGGA	1 cut(s)	760
AoxI	GGCC	1 cut(s)	220
ApeKI	GCWGC	2 cut(s)	280, 518
ApoI	RAATTY	2 cut(s)	406, 738
ArsI	GACNNNNNNTTYG	3 cut(s)	31, 685, 717
AspA2I	CCTAGG	1 cut(s)	217
AspLEI	GCGC	1 cut(s)	1009
AspS9I	GGNCC	2 cut(s)	221, 255
AsuHPI	GGTGA	5 cut(s)	206, 409, 635, 803, 1202
AsuII	TTCGAA	2 cut(s)	18, 320
AsuNHI	GCTAGC	1 cut(s)	844
AvaI	CYCGRG	1 cut(s)	428
AvaII	GGWCC	1 cut(s)	255
AvrII	CCTAGG	1 cut(s)	217
BanI	GGYRCC	1 cut(s)	1006
BbvI	GCAGC	2 cut(s)	292, 530
BccI	CCATC	3 cut(s)	463, 497, 548
BceAI	ACGGC	1 cut(s)	994
BciT130I	CCWGG	1 cut(s)	259
BcoDI	GTCTC	1 cut(s)	45
BfaI	CTAG	5 cut(s)	218, 411, 672, 822, 845
BfmI	CTRYAG	1 cut(s)	1075
BfoI	RGCGCY	1 cut(s)	1010
BisI	GCNGC	2 cut(s)	281, 519
BlnI	CCTAGG	1 cut(s)	217
BlsI	GCNGC	2 cut(s)	282, 520
Bme1390I	CCNGG	1 cut(s)	259
Bme18I	GGWCC	1 cut(s)	255
BmeT110I	CYCGRG	1 cut(s)	428
BmgBI	CACGTC	1 cut(s)	31
BmgT120I	GGNCC	2 cut(s)	221, 255
BmiI	GGNNCC	1 cut(s)	1008
BmrFI	CCNGG	1 cut(s)	259
BmsI	GCATC	1 cut(s)	494
BmtI	GCTAGC	1 cut(s)	848
BplI	GAGNNNNNCTC	4 cut(s)	42, 74, 894, 926
Bpu14I	TTCGAA	2 cut(s)	18, 320
BpuEI	CTTGAG	1 cut(s)	251
Bsa29I	ATCGAT	1 cut(s)	310
BsaBI	GATNNNNATC	1 cut(s)	321
BsaHI	GRCGYC	1 cut(s)	1007
BsaI	GGTCTC	1 cut(s)	45
BsaJI	CCNNGG	1 cut(s)	217
BsaWI	WCCGGW	2 cut(s)	760, 1175
Bsc4I	CCNNNNNNNGG	4 cut(s)	229, 230, 469, 504
Bse8I	GATNNNNATC	1 cut(s)	321
BseAI	TCCGGA	1 cut(s)	760
BseBI	CCWGG	1 cut(s)	259
BseCI	ATCGAT	1 cut(s)	310
BseDI	CCNNGG	1 cut(s)	217
BseJI	GATNNNNATC	1 cut(s)	321
BseLI	CCNNNNNNNGG	4 cut(s)	229, 230, 469, 504
BseMII	CTCAG	1 cut(s)	887
BseRI	GAGGAG	1 cut(s)	446
BseXI	GCAGC	2 cut(s)	292, 530
BseYI	CCCAGC	1 cut(s)	276
BshFI	GGCC	1 cut(s)	222
BshNI	GGYRCC	1 cut(s)	1006
BshVI	ATCGAT	1 cut(s)	310
BsiHKCI	CYCGRG	1 cut(s)	428
BsiSI	CCGG	2 cut(s)	761, 1176
BslFI	GGGAC	2 cut(s)	17, 997
BslI	CCNNNNNNNGG	4 cut(s)	229, 230, 469, 504
BsmAI	GTCTC	1 cut(s)	45
BsmFI	GGGAC	2 cut(s)	17, 997
BsmI	GAATGC	2 cut(s)	583, 1132
BsnI	GGCC	1 cut(s)	222
Bso31I	GGTCTC	1 cut(s)	45
BsoBI	CYCGRG	1 cut(s)	428
Bsp119I	TTCGAA	2 cut(s)	18, 320
Bsp13I	TCCGGA	1 cut(s)	760
Bsp143I	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
BspACI	CCGC	3 cut(s)	5, 253, 300
BspANI	GGCC	1 cut(s)	222
BspCNI	CTCAG	1 cut(s)	886
BspDI	ATCGAT	1 cut(s)	310
BspEI	TCCGGA	1 cut(s)	760
BspHI	TCATGA	1 cut(s)	703
BspLI	GGNNCC	1 cut(s)	1008
BspOI	GCTAGC	1 cut(s)	848
BspPI	GGATC	3 cut(s)	306, 315, 738
BspQI	GCTCTTC	1 cut(s)	1027
BspT104I	TTCGAA	2 cut(s)	18, 320
BspT107I	GGYRCC	1 cut(s)	1006
BspTNI	GGTCTC	1 cut(s)	45
BssECI	CCNNGG	1 cut(s)	217
BssMI	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
BssNI	GRCGYC	1 cut(s)	1007
BssT1I	CCWWGG	1 cut(s)	217
Bst2UI	CCWGG	1 cut(s)	259
Bst4CI	ACNGT	1 cut(s)	176
Bst6I	CTCTTC	5 cut(s)	43, 346, 352, 670, 1027
BstACI	GRCGYC	1 cut(s)	1007
BstBI	TTCGAA	2 cut(s)	18, 320
BstC8I	GCNNGC	3 cut(s)	273, 464, 846
BstDEI	CTNAG	2 cut(s)	873, 1104
BstH2I	RGCGCY	1 cut(s)	1010
BstHHI	GCGC	1 cut(s)	1009
BstKTI	GATC	6 cut(s)	166, 310, 314, 364, 385, 746
BstMAI	GTCTC	1 cut(s)	45
BstMBI	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
BstMWI	GCNNNNNNNGC	3 cut(s)	277, 545, 687
BstNI	CCWGG	1 cut(s)	259
BstNSI	RCATGY	1 cut(s)	1102
BstSCI	CCNGG	1 cut(s)	257
BstSFI	CTRYAG	1 cut(s)	1075
BstV1I	GCAGC	2 cut(s)	292, 530
Bsu15I	ATCGAT	1 cut(s)	310
BsuRI	GGCC	1 cut(s)	222
BsuTUI	ATCGAT	1 cut(s)	310
BtrI	CACGTC	1 cut(s)	31
BtsI	GCAGTG	2 cut(s)	622, 777
BtsIMutI	CAGTG	2 cut(s)	622, 777
Cac8I	GCNNGC	3 cut(s)	273, 464, 846
CaiI	CAGNNNCTG	1 cut(s)	776
CciI	TCATGA	1 cut(s)	703
CfoI	GCGC	1 cut(s)	1009
Cfr13I	GGNCC	2 cut(s)	221, 255
ClaI	ATCGAT	1 cut(s)	310
CviAII	CATG	5 cut(s)	635, 704, 789, 1099, 1184
DdeI	CTNAG	2 cut(s)	873, 1104
DinI	GGCGCC	1 cut(s)	1008
DpnI	GATC	6 cut(s)	165, 309, 313, 363, 384, 745
DpnII	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
Eam1104I	CTCTTC	5 cut(s)	43, 346, 352, 670, 1027
EarI	CTCTTC	5 cut(s)	43, 346, 352, 670, 1027
EciI	GGCGGA	1 cut(s)	20
Eco130I	CCWWGG	1 cut(s)	217
Eco31I	GGTCTC	1 cut(s)	45
Eco47I	GGWCC	1 cut(s)	255
Eco57I	CTGAAG	2 cut(s)	269, 380
Eco88I	CYCGRG	1 cut(s)	428
EcoO109I	RGGNCCY	1 cut(s)	221
EcoRI	GAATTC	1 cut(s)	406
EcoRII	CCWGG	1 cut(s)	257
EcoT14I	CCWWGG	1 cut(s)	217
EgeI	GGCGCC	1 cut(s)	1008
EheI	GGCGCC	1 cut(s)	1008
ErhI	CCWWGG	1 cut(s)	217
FaeI	CATG	5 cut(s)	638, 707, 792, 1102, 1187
FaqI	GGGAC	2 cut(s)	17, 997
FatI	CATG	5 cut(s)	634, 703, 788, 1098, 1183
FauI	CCCGC	1 cut(s)	293
FblI	GTMKAC	1 cut(s)	438
Fnu4HI	GCNGC	2 cut(s)	281, 519
Fsp4HI	GCNGC	2 cut(s)	281, 519
FspBI	CTAG	5 cut(s)	218, 411, 672, 822, 845
GlaI	GCGC	1 cut(s)	1008
GluI	GCNGC	2 cut(s)	281, 519
GsaI	CCCAGC	1 cut(s)	280
HaeII	RGCGCY	1 cut(s)	1010
HaeIII	GGCC	1 cut(s)	222
HapII	CCGG	2 cut(s)	761, 1176
HhaI	GCGC	1 cut(s)	1009
Hin1I	GRCGYC	1 cut(s)	1007
Hin1II	CATG	5 cut(s)	638, 707, 792, 1102, 1187
Hin6I	GCGC	1 cut(s)	1007
HinP1I	GCGC	1 cut(s)	1007
HinfI	GANTC	7 cut(s)	63, 317, 322, 473, 827, 909, 1054
HpaII	CCGG	2 cut(s)	761, 1176
HphI	GGTGA	5 cut(s)	206, 409, 635, 803, 1202
Hpy166II	GTNNAC	2 cut(s)	70, 439
Hpy188I	TCNGA	9 cut(s)	62, 163, 203, 316, 366, 736, 832, 979, 1096
Hpy8I	GTNNAC	2 cut(s)	70, 439
HpyAV	CCTTC	5 cut(s)	182, 296, 818, 1181, 1223
HpyCH4III	ACNGT	1 cut(s)	176
HpyCH4IV	ACGT	1 cut(s)	30
HpyCH4V	TGCA	4 cut(s)	485, 518, 770, 1130
HpyF10VI	GCNNNNNNNGC	3 cut(s)	277, 545, 687
HpyF3I	CTNAG	2 cut(s)	873, 1104
HpySE526I	ACGT	1 cut(s)	30
Hsp92I	GRCGYC	1 cut(s)	1007
Hsp92II	CATG	5 cut(s)	638, 707, 792, 1102, 1187
HspAI	GCGC	1 cut(s)	1007
KasI	GGCGCC	1 cut(s)	1006
Kpn2I	TCCGGA	1 cut(s)	760
Kzo9I	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
LguI	GCTCTTC	1 cut(s)	1027
LmnI	GCTCC	4 cut(s)	63, 288, 526, 964
Lsp1109I	GCAGC	2 cut(s)	292, 530
LweI	GCATC	1 cut(s)	494
MaeI	CTAG	5 cut(s)	218, 411, 672, 822, 845
MaeII	ACGT	1 cut(s)	30
MaeIII	GTNAC	1 cut(s)	335
MalI	GATC	6 cut(s)	165, 309, 313, 363, 384, 745
MboI	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
MboII	GAAGA	8 cut(s)	60, 317, 363, 369, 586, 687, 941, 1014
MfeI	CAATTG	2 cut(s)	883, 963
MluCI	AATT	6 cut(s)	406, 738, 883, 895, 963, 1156
Mly113I	GGCGCC	1 cut(s)	1007
MlyI	GAGTC	3 cut(s)	72, 482, 903
MmeI	TCCRAC	2 cut(s)	152, 285
MroI	TCCGGA	1 cut(s)	760
MseI	TTAA	2 cut(s)	639, 1208
MslI	CAYNNNNRTG	3 cut(s)	422, 1001, 1188
MspI	CCGG	2 cut(s)	761, 1176
MspR9I	CCNGG	1 cut(s)	259
MunI	CAATTG	2 cut(s)	883, 963
Mva1269I	GAATGC	2 cut(s)	583, 1132
MvaI	CCWGG	1 cut(s)	259
MwoI	GCNNNNNNNGC	3 cut(s)	277, 545, 687
NarI	GGCGCC	1 cut(s)	1007
NdeII	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
NheI	GCTAGC	1 cut(s)	844
NlaIII	CATG	5 cut(s)	638, 707, 792, 1102, 1187
NlaIV	GGNNCC	1 cut(s)	1008
NspI	RCATGY	1 cut(s)	1102
NspV	TTCGAA	2 cut(s)	18, 320
PaeR7I	CTCGAG	1 cut(s)	428
PagI	TCATGA	1 cut(s)	703
PciI	ACATGT	1 cut(s)	1098
PciSI	GCTCTTC	1 cut(s)	1027
PcsI	WCGNNNNNNNCGW	1 cut(s)	15
PctI	GAATGC	2 cut(s)	583, 1132
PfeI	GAWTC	4 cut(s)	317, 322, 827, 1054
PflMI	CCANNNNNTGG	1 cut(s)	469
PkrI	GCNGC	2 cut(s)	282, 520
PleI	GAGTC	3 cut(s)	71, 481, 903
PluTI	GGCGCC	1 cut(s)	1010
PpsI	GAGTC	3 cut(s)	71, 481, 903
PscI	ACATGT	1 cut(s)	1098
Psp6I	CCWGG	1 cut(s)	257
PspFI	CCCAGC	1 cut(s)	276
PspGI	CCWGG	1 cut(s)	257
PspN4I	GGNNCC	1 cut(s)	1008
PspPI	GGNCC	2 cut(s)	221, 255
PspXI	VCTCGAGB	1 cut(s)	428
PstNI	CAGNNNCTG	1 cut(s)	776
RseI	CAYNNNNRTG	3 cut(s)	422, 1001, 1188
SapI	GCTCTTC	1 cut(s)	1027
SaqAI	TTAA	2 cut(s)	639, 1208
SatI	GCNGC	2 cut(s)	281, 519
Sau3AI	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
Sau96I	GGNCC	2 cut(s)	221, 255
SchI	GAGTC	3 cut(s)	72, 482, 903
ScrFI	CCNGG	1 cut(s)	259
SfaNI	GCATC	1 cut(s)	494
SfcI	CTRYAG	1 cut(s)	1075
SfoI	GGCGCC	1 cut(s)	1008
Sfr274I	CTCGAG	1 cut(s)	428
SfuI	TTCGAA	2 cut(s)	18, 320
SinI	GGWCC	1 cut(s)	255
SlaI	CTCGAG	1 cut(s)	428
SmiMI	CAYNNNNRTG	3 cut(s)	422, 1001, 1188
SmlI	CTYRAG	2 cut(s)	266, 428
SmoI	CTYRAG	2 cut(s)	266, 428
Sse9I	AATT	6 cut(s)	406, 738, 883, 895, 963, 1156
SsiI	CCGC	3 cut(s)	5, 253, 300
SspDI	GGCGCC	1 cut(s)	1006
SspMI	CTAG	5 cut(s)	218, 411, 672, 822, 845
StyD4I	CCNGG	1 cut(s)	257
StyI	CCWWGG	1 cut(s)	217
TaaI	ACNGT	1 cut(s)	176
TaiI	ACGT	1 cut(s)	33
TaqI	TCGA	6 cut(s)	18, 310, 320, 390, 429, 742
TasI	AATT	6 cut(s)	406, 738, 883, 895, 963, 1156
TfiI	GAWTC	4 cut(s)	317, 322, 827, 1054
Tru1I	TTAA	2 cut(s)	639, 1208
Tru9I	TTAA	2 cut(s)	639, 1208
TscAI	CASTG	2 cut(s)	622, 777
TseI	GCWGC	2 cut(s)	280, 518
TspDTI	ATGAA	6 cut(s)	171, 334, 674, 716, 1184, 1200
TspGWI	ACGGA	1 cut(s)	323
TspRI	CASTG	2 cut(s)	622, 777
Van91I	CCANNNNNTGG	1 cut(s)	469
VpaK11BI	GGWCC	1 cut(s)	255
XapI	RAATTY	2 cut(s)	406, 738
XbaI	TCTAGA	1 cut(s)	671
XceI	RCATGY	1 cut(s)	1102
XhoI	CTCGAG	1 cut(s)	428
XmaJI	CCTAGG	1 cut(s)	217
XmiI	GTMKAC	1 cut(s)	438
XspI	CTAG	5 cut(s)	218, 411, 672, 822, 845

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