Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0014802

Physical Location & Seq

Genomic Coordinates Reverse (-)

57061410 .. 57064958

Gene Structure 3549 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG346800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1032 bp

ATGGCGGACGAGGGTTTCGAAGCGTTCCACGTCCCCCGACAAAGCAGAAGAGACCAGCTCCGAGTCGTGAACCTCCTAACCAACCCACCACAGCCACAACTCTCACTATTCACACCCTCCACCATTCCAACCCCCCAACTACCACTTTCCCCACATTTCTCCGATCACGACCACCGTGTTTCATTTGAAGGTGGTGAGTTCAGAAGCTCTGTTCCCCTAGGCCCTTTCACGGGCTACGCTTCCATACTGAAGCGGTCCAGGTTTCTCAAGCCTGCCCAGCAGCTCCTTCAAGACTTCTGCGGGTTGGATCGATCCGATTCGAATCTTCCTCTCCGTAACTGCTTCATTGGAAGAGGAAGAGATCAGATTAGTGGAGTGAGTGATCGGGTCGAGCTTCAGTTCAAGAATTCTAGGCTCACCATTATGCTCGAGGAGGTCTACAAGAGATATAAGTTATACTGCCAGCAGATGGAGTCGGTTGTTGCATCATTTGAAACCATTGATGGGCTTGGAAATGCAGCTCCATACATATCTTTTGCCATCAAAGCCATTTTGAAGCACTTTGGTTGCTTGAAGAATGCCATTTTGGACAAACTTCAATCCAAAGGCAAGAGCAGTGTCGGTGATTTTAGCCATGTTAAAGATGAGATTAGGGGGCTTTCGGGGGTTTCTAGAAGAGGCTTTCATAGCCAAAACCCAAGTCATGAGAACCTGACCAACAACTTTCATCTATCGGAAATTCGATCCCAAAGAGGACTTCCGGAAAATGCAGTGGCTGTGATGAGGACATGGCTTTTTGAACACTTCCTTCACCCTTATCCTAGTGATTCTGAAAAGCAAATGCTAGCTCAACAGACAGGCTTATCAAGAACTCAGGTGAAGCTGCTATACATTAGGGTTCAAATCCATTTAACTTGTGATGCATTTAACCATGTTGGTATCTATCTTTGGCTATATGCAGGTTTCCAATTGGTTTATCAATTCAAGAGTAAGACTCTGGAAGCCAATGGTGGAAGAAATACACAGCCTTGA

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

343

Amino Acids

38.95

Weight (kDa)

9.33

Isoelectric Point (pI)

45.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
POX	PF07526	82 - 195	2e-29	Associated with HOX
Homeobox_KN	PF05920	264 - 294	5.1e-12	Homeobox KN 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)

Image

Tree File

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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)
Acc36I	ACCTGC	1 cut(s)	950
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
AfiI	CCNNNNNNNGG	4 cut(s)	229, 230, 469, 504
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, 883
AluI	AGCT	7 cut(s)	58, 207, 283, 394, 521, 848, 883
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	3 cut(s)	280, 518, 883
ApoI	RAATTY	2 cut(s)	406, 738
ArsI	GACNNNNNNTTYG	3 cut(s)	31, 685, 717
AspA2I	CCTAGG	1 cut(s)	217
AspS9I	GGNCC	2 cut(s)	221, 255
AsuHPI	GGTGA	5 cut(s)	206, 409, 635, 803, 889
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
BarI	GAAGNNNNNNTAC	2 cut(s)	872, 904
BbvI	GCAGC	3 cut(s)	292, 530, 870
BccI	CCATC	3 cut(s)	463, 497, 548
BciT130I	CCWGG	1 cut(s)	259
BcoDI	GTCTC	1 cut(s)	45
BfaI	CTAG	5 cut(s)	218, 411, 672, 822, 845
BfuAI	ACCTGC	1 cut(s)	950
BisI	GCNGC	3 cut(s)	281, 519, 884
BlnI	CCTAGG	1 cut(s)	217
BlsI	GCNGC	3 cut(s)	282, 520, 885
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
BmrFI	CCNGG	1 cut(s)	259
BmsI	GCATC	2 cut(s)	494, 910
BmtI	GCTAGC	1 cut(s)	848
BplI	GAGNNNNNCTC	4 cut(s)	42, 74, 979, 1011
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
BsaI	GGTCTC	1 cut(s)	45
BsaJI	CCNNGG	1 cut(s)	217
BsaWI	WCCGGW	1 cut(s)	760
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	3 cut(s)	292, 530, 870
BseYI	CCCAGC	1 cut(s)	276
BshFI	GGCC	1 cut(s)	222
BshVI	ATCGAT	1 cut(s)	310
BsiHKCI	CYCGRG	1 cut(s)	428
BsiSI	CCGG	1 cut(s)	761
BslFI	GGGAC	1 cut(s)	17
BslI	CCNNNNNNNGG	4 cut(s)	229, 230, 469, 504
BsmAI	GTCTC	1 cut(s)	45
BsmFI	GGGAC	1 cut(s)	17
BsmI	GAATGC	1 cut(s)	583
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
BspMI	ACCTGC	1 cut(s)	950
BspOI	GCTAGC	1 cut(s)	848
BspPI	GGATC	3 cut(s)	306, 315, 738
BspT104I	TTCGAA	2 cut(s)	18, 320
BspTNI	GGTCTC	1 cut(s)	45
BssECI	CCNNGG	1 cut(s)	217
BssMI	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
BssT1I	CCWWGG	1 cut(s)	217
Bst2UI	CCWGG	1 cut(s)	259
Bst4CI	ACNGT	1 cut(s)	176
Bst6I	CTCTTC	4 cut(s)	43, 346, 352, 670
BstBI	TTCGAA	2 cut(s)	18, 320
BstC8I	GCNNGC	3 cut(s)	273, 464, 846
BstDEI	CTNAG	1 cut(s)	873
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
BstSCI	CCNGG	1 cut(s)	257
BstV1I	GCAGC	3 cut(s)	292, 530, 870
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
BveI	ACCTGC	1 cut(s)	950
Cac8I	GCNNGC	3 cut(s)	273, 464, 846
CaiI	CAGNNNCTG	1 cut(s)	776
CciI	TCATGA	1 cut(s)	703
Cfr13I	GGNCC	2 cut(s)	221, 255
ClaI	ATCGAT	1 cut(s)	310
CviAII	CATG	4 cut(s)	635, 704, 789, 932
DdeI	CTNAG	1 cut(s)	873
DpnI	GATC	6 cut(s)	165, 309, 313, 363, 384, 745
DpnII	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
Eam1104I	CTCTTC	4 cut(s)	43, 346, 352, 670
EarI	CTCTTC	4 cut(s)	43, 346, 352, 670
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
EcoT22I	ATGCAT	1 cut(s)	925
ErhI	CCWWGG	1 cut(s)	217
FaeI	CATG	4 cut(s)	638, 707, 792, 935
FaqI	GGGAC	1 cut(s)	17
FatI	CATG	4 cut(s)	634, 703, 788, 931
FauI	CCCGC	1 cut(s)	293
FblI	GTMKAC	1 cut(s)	438
Fnu4HI	GCNGC	3 cut(s)	281, 519, 884
Fsp4HI	GCNGC	3 cut(s)	281, 519, 884
FspBI	CTAG	5 cut(s)	218, 411, 672, 822, 845
GluI	GCNGC	3 cut(s)	281, 519, 884
GsaI	CCCAGC	1 cut(s)	280
HaeIII	GGCC	1 cut(s)	222
HapII	CCGG	1 cut(s)	761
Hin1II	CATG	4 cut(s)	638, 707, 792, 935
HinfI	GANTC	6 cut(s)	63, 317, 322, 473, 827, 994
HpaII	CCGG	1 cut(s)	761
HphI	GGTGA	5 cut(s)	206, 409, 635, 803, 889
Hpy166II	GTNNAC	2 cut(s)	70, 439
Hpy188I	TCNGA	7 cut(s)	62, 163, 203, 316, 366, 736, 832
Hpy8I	GTNNAC	2 cut(s)	70, 439
HpyAV	CCTTC	3 cut(s)	182, 296, 818
HpyCH4III	ACNGT	1 cut(s)	176
HpyCH4IV	ACGT	1 cut(s)	30
HpyCH4V	TGCA	5 cut(s)	485, 518, 770, 923, 959
HpyF10VI	GCNNNNNNNGC	3 cut(s)	277, 545, 687
HpyF3I	CTNAG	1 cut(s)	873
HpySE526I	ACGT	1 cut(s)	30
Hsp92II	CATG	4 cut(s)	638, 707, 792, 935
Kpn2I	TCCGGA	1 cut(s)	760
Kzo9I	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
LmnI	GCTCC	3 cut(s)	63, 288, 526
Lsp1109I	GCAGC	3 cut(s)	292, 530, 870
LweI	GCATC	2 cut(s)	494, 910
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	7 cut(s)	60, 317, 363, 369, 586, 687, 1026
MfeI	CAATTG	1 cut(s)	968
MluCI	AATT	4 cut(s)	406, 738, 968, 980
MlyI	GAGTC	3 cut(s)	72, 482, 988
MmeI	TCCRAC	2 cut(s)	152, 285
Mph1103I	ATGCAT	1 cut(s)	925
MroI	TCCGGA	1 cut(s)	760
MseI	TTAA	3 cut(s)	639, 911, 927
MslI	CAYNNNNRTG	1 cut(s)	422
MspI	CCGG	1 cut(s)	761
MspR9I	CCNGG	1 cut(s)	259
MunI	CAATTG	1 cut(s)	968
Mva1269I	GAATGC	1 cut(s)	583
MvaI	CCWGG	1 cut(s)	259
MwoI	GCNNNNNNNGC	3 cut(s)	277, 545, 687
NdeII	GATC	6 cut(s)	163, 307, 311, 361, 382, 743
NheI	GCTAGC	1 cut(s)	844
NlaIII	CATG	4 cut(s)	638, 707, 792, 935
NsiI	ATGCAT	1 cut(s)	925
NspV	TTCGAA	2 cut(s)	18, 320
PaeR7I	CTCGAG	1 cut(s)	428
PagI	TCATGA	1 cut(s)	703
PcsI	WCGNNNNNNNCGW	1 cut(s)	15
PctI	GAATGC	1 cut(s)	583
PfeI	GAWTC	3 cut(s)	317, 322, 827
PflMI	CCANNNNNTGG	1 cut(s)	469
PkrI	GCNGC	3 cut(s)	282, 520, 885
PleI	GAGTC	3 cut(s)	71, 481, 988
PpsI	GAGTC	3 cut(s)	71, 481, 988
Psp6I	CCWGG	1 cut(s)	257
PspFI	CCCAGC	1 cut(s)	276
PspGI	CCWGG	1 cut(s)	257
PspPI	GGNCC	2 cut(s)	221, 255
PspXI	VCTCGAGB	1 cut(s)	428
PstNI	CAGNNNCTG	1 cut(s)	776
RseI	CAYNNNNRTG	1 cut(s)	422
SaqAI	TTAA	3 cut(s)	639, 911, 927
SatI	GCNGC	3 cut(s)	281, 519, 884
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, 988
ScrFI	CCNGG	1 cut(s)	259
SfaNI	GCATC	2 cut(s)	494, 910
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	1 cut(s)	422
SmlI	CTYRAG	2 cut(s)	266, 428
SmoI	CTYRAG	2 cut(s)	266, 428
Sse9I	AATT	4 cut(s)	406, 738, 968, 980
SsiI	CCGC	3 cut(s)	5, 253, 300
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	4 cut(s)	406, 738, 968, 980
TfiI	GAWTC	3 cut(s)	317, 322, 827
Tru1I	TTAA	3 cut(s)	639, 911, 927
Tru9I	TTAA	3 cut(s)	639, 911, 927
TscAI	CASTG	2 cut(s)	622, 777
TseI	GCWGC	3 cut(s)	280, 518, 883
TspDTI	ATGAA	4 cut(s)	171, 334, 674, 716
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
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
Zsp2I	ATGCAT	1 cut(s)	925

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