Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001847

Physical Location & Seq

Genomic Coordinates Reverse (-)

60907599 .. 60908996

Gene Structure 1398 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG392800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGTATGCAGTGGTTCCAGTGACGTTGGATGAGCAAGGCAGTGATTGTTTTTATAGTGATAAACAACCGGCAGCTGCAGCTCCTCCGCGAAATTCCCGATGGAATCCAACCCCGGAGCAGATAATGCACCTGGAGGAGCTCTATCGATCTGGGATCAAGACACCGACGACCCAACAAATCCGACAGGTGACTGCAGGGCTTCGAAACTATGGGAGGGTTGAAGGCAAGAATGTATTCTACTGGTTTCAGAACCACCGAGCCAGGGAGAGGCAGAAGAGACGCCGTGAACTCATGTCCATGTATCAGTCTGACTCTAAACAACAACAACAACAAACTTTGACTAACAACACAATTAGCAGTCTCCACGACAAAGAATCTGCAGGAGGTGACTTTGTTCGTTGTCTTGAAGTTGAGCAGCAGAATAGGCGGACACTACCAAACTTAACTGTTCTTTCCGATCAGGAATCATCTACAGTACTGCAAGAGAGGATGATGAGCATGGTGAAAAGCAATTCCTCCAAGCTACTTGTGGAACAATCCGATTCACCTGGATCGACCTCAGACACAAACGCGTCAGCTACAGTCATTTACACAAAGCTCTTGGACTTCCATCACTATTATGATTATGGTATGGTATTGACTACACCCAGTATTTACAAAGAATTCAAAGAAGAAGAAGAAAGCAGAGAAACTCAAACTCTGGAGCTCTTTCCACTCGAGAGCGACAATCTTAAAGGTGCTAAGGATACCAAATTACCTATGAGCAGAACCGCAAGCACAGACACTACTTCAGATTTCATGGCAGACCAATATTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001558 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007275 GO:0008150 GO:0009553 GO:0009561 GO:0009653 GO:0009790 GO:0009791 GO:0009889 GO:0009908 GO:0009965 GO:0009987 GO:0010016 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0022603 GO:0022604 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0035670 GO:0040008 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0048229 GO:0048314 GO:0048353 GO:0048366 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048441 GO:0048444 GO:0048445 GO:0048446 GO:0048465 GO:0048467 GO:0048481 GO:0048482 GO:0048598 GO:0048608 GO:0048638 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051128 GO:0051171 GO:0051252 GO:0051301 GO:0051510 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0099402 GO:0140110 GO:1903506 GO:1905392 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox

Protein Analysis

272

Amino Acids

31.29

Weight (kDa)

5.65

Isoelectric Point (pI)

66.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	30 - 91	4.1e-13	Homeodomain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001847)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g32650 FvH4_4g32660 FvH4_5g02150 FvH4_5g02150
rosa_chinensis	RchiOBHm_Chr2g0140271 RchiOBHm_Chr4g0441531 RchiOBHm_Chr4g0441541 RchiOBHm_Chr6g0282911 RchiOBHm_Chr6g0283101
rosa_laevigata	RLG00000006085 RLG00000006087 RLG00000012846 RLG00000012849 RLG00000012850 RLG00000012852 RLG00000012853 RLG00000019859
rosa_multiflora	Rmu_sc0000159.1_g000025 Rmu_sc0000159.1_g000041 Rmu_sc0000159.1_g000052 Rmu_sc0000353.1_g000028 Rmu_sc0005446.1_g000015 Rmu_sc0012670.1_g000016
rosa_roxburghii	Rroxscaffold_2G00104940 Rroxscaffold_5G00382380 Rroxscaffold_5G00382400
rosa_rugosa	Rorug02G0361700 Rorug04G0334600 Rorug04G0334700 Rorug06G0150700 Rorug06G0151300 Rorug06G0151300
rosa_samantha	Rh2AG412600 Rh2BG423100 Rh2CG398800 Rh2DG432200 Rh4AG385900 Rh4BG400200 Rh4DG392700 Rh4DG392800 Rh6AG264100 Rh6BG267200 Rh6CG266000
rosa_wichuraiana	Rw2G033820 Rw4G033330 Rw6G022800 Rw6G022850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	88, 572
AciI	CCGC	3 cut(s)	86, 427, 771
AclWI	GGATC	2 cut(s)	161, 559
AcsI	RAATTY	2 cut(s)	91, 662
AcuI	CTGAAG	1 cut(s)	774
AcyI	GRCGYC	1 cut(s)	280
AfaI	GTAC	1 cut(s)	477
AfiI	CCNNNNNNNGG	2 cut(s)	262, 267
AflIII	ACRYGT	1 cut(s)	570
AgsI	TTSAA	3 cut(s)	221, 407, 667
AjnI	CCWGG	3 cut(s)	129, 260, 547
AluBI	AGCT	7 cut(s)	74, 80, 139, 523, 578, 598, 706
AluI	AGCT	7 cut(s)	74, 80, 139, 523, 578, 598, 706
Alw21I	GWGCWC	2 cut(s)	141, 708
Alw26I	GTCTC	2 cut(s)	271, 365
AlwI	GGATC	2 cut(s)	161, 559
Ama87I	CYCGRG	1 cut(s)	716
ApeKI	GCWGC	4 cut(s)	71, 74, 77, 415
ApoI	RAATTY	2 cut(s)	91, 662
Asp700I	GAANNNNTTC	1 cut(s)	233
AsuC2I	CCSGG	1 cut(s)	113
AsuHPI	GGTGA	4 cut(s)	199, 398, 514, 537
AsuII	TTCGAA	1 cut(s)	202
AvaI	CYCGRG	1 cut(s)	716
BanII	GRGCYC	2 cut(s)	141, 708
Bbv12I	GWGCWC	2 cut(s)	141, 708
BbvI	GCAGC	4 cut(s)	61, 83, 89, 427
BccI	CCATC	2 cut(s)	93, 618
BceAI	ACGGC	1 cut(s)	267
BciT130I	CCWGG	3 cut(s)	131, 262, 549
BciVI	GTATCC	1 cut(s)	739
BcnI	CCSGG	1 cut(s)	113
BcoDI	GTCTC	2 cut(s)	271, 365
BfmI	CTRYAG	5 cut(s)	75, 192, 378, 471, 579
BfuI	GTATCC	1 cut(s)	739
BisI	GCNGC	4 cut(s)	72, 75, 78, 416
BlsI	GCNGC	4 cut(s)	73, 76, 79, 417
BmcAI	AGTACT	1 cut(s)	477
Bme1390I	CCNGG	4 cut(s)	113, 131, 262, 549
BmeT110I	CYCGRG	1 cut(s)	716
BmiI	GGNNCC	1 cut(s)	15
BmrFI	CCNGG	4 cut(s)	113, 131, 262, 549
BmrI	ACTGGG	1 cut(s)	642
BmuI	ACTGGG	1 cut(s)	642
BpmI	CTGGAG	2 cut(s)	152, 722
Bpu10I	CCTNAGC	1 cut(s)	741
Bpu14I	TTCGAA	1 cut(s)	202
BpuMI	CCSGG	1 cut(s)	113
Bsa29I	ATCGAT	1 cut(s)	145
BsaHI	GRCGYC	1 cut(s)	280
BsaJI	CCNNGG	2 cut(s)	111, 261
Bsc4I	CCNNNNNNNGG	2 cut(s)	262, 267
Bse118I	RCCGGY	1 cut(s)	67
Bse1I	ACTGG	3 cut(s)	17, 245, 648
BseBI	CCWGG	3 cut(s)	131, 262, 549
BseCI	ATCGAT	1 cut(s)	145
BseDI	CCNNGG	2 cut(s)	111, 261
BseGI	GGATG	2 cut(s)	34, 495
BseLI	CCNNNNNNNGG	2 cut(s)	262, 267
BseMII	CTCAG	1 cut(s)	573
BseNI	ACTGG	3 cut(s)	17, 245, 648
BseRI	GAGGAG	2 cut(s)	72, 149
BseXI	GCAGC	4 cut(s)	61, 83, 89, 427
Bsh1236I	CGCG	2 cut(s)	88, 572
BshVI	ATCGAT	1 cut(s)	145
BsiHKAI	GWGCWC	2 cut(s)	141, 708
BsiHKCI	CYCGRG	1 cut(s)	716
BsiSI	CCGG	2 cut(s)	68, 113
BslI	CCNNNNNNNGG	2 cut(s)	262, 267
BsmAI	GTCTC	2 cut(s)	271, 365
BsmBI	CGTCTC	1 cut(s)	271
BsoBI	CYCGRG	1 cut(s)	716
Bsp119I	TTCGAA	1 cut(s)	202
Bsp1286I	GDGCHC	2 cut(s)	141, 708
Bsp143I	GATC	4 cut(s)	146, 153, 457, 551
BspACI	CCGC	3 cut(s)	86, 427, 771
BspCNI	CTCAG	1 cut(s)	572
BspDI	ATCGAT	1 cut(s)	145
BspFNI	CGCG	2 cut(s)	88, 572
BspLI	GGNNCC	1 cut(s)	15
BspMAI	CTGCAG	3 cut(s)	79, 196, 382
BspPI	GGATC	2 cut(s)	161, 559
BspT104I	TTCGAA	1 cut(s)	202
BsrFI	RCCGGY	1 cut(s)	67
BsrI	ACTGG	3 cut(s)	17, 245, 648
BssAI	RCCGGY	1 cut(s)	67
BssECI	CCNNGG	2 cut(s)	111, 261
BssMI	GATC	4 cut(s)	146, 153, 457, 551
BssNI	GRCGYC	1 cut(s)	280
Bst2UI	CCWGG	3 cut(s)	131, 262, 549
Bst4CI	ACNGT	3 cut(s)	448, 475, 583
Bst6I	CTCTTC	1 cut(s)	269
BstACI	GRCGYC	1 cut(s)	280
BstAPI	GCANNNNNTGC	1 cut(s)	124
BstBI	TTCGAA	1 cut(s)	202
BstC8I	GCNNGC	1 cut(s)	775
BstDEI	CTNAG	2 cut(s)	559, 741
BstF5I	GGATG	2 cut(s)	34, 495
BstFNI	CGCG	2 cut(s)	88, 572
BstKTI	GATC	4 cut(s)	149, 156, 460, 554
BstMAI	GTCTC	2 cut(s)	271, 365
BstMBI	GATC	4 cut(s)	146, 153, 457, 551
BstMWI	GCNNNNNNNGC	3 cut(s)	77, 124, 424
BstNI	CCWGG	3 cut(s)	131, 262, 549
BstSCI	CCNGG	4 cut(s)	111, 129, 260, 547
BstSFI	CTRYAG	5 cut(s)	75, 192, 378, 471, 579
BstUI	CGCG	2 cut(s)	88, 572
BstV1I	GCAGC	4 cut(s)	61, 83, 89, 427
Bsu15I	ATCGAT	1 cut(s)	145
BsuI	GTATCC	1 cut(s)	739
BsuTUI	ATCGAT	1 cut(s)	145
BtsCI	GGATG	2 cut(s)	34, 495
BtsI	GCAGTG	2 cut(s)	15, 46
BtsIMutI	CAGTG	3 cut(s)	15, 24, 46
Cac8I	GCNNGC	1 cut(s)	775
Cfr10I	RCCGGY	1 cut(s)	67
ClaI	ATCGAT	1 cut(s)	145
CseI	GACGC	2 cut(s)	288, 561
Csp6I	GTAC	1 cut(s)	476
CviAII	CATG	4 cut(s)	292, 298, 499, 799
CviJI	RGCY	9 cut(s)	74, 80, 139, 199, 260, 523, 578, 598, 706
CviKI_1	RGCY	9 cut(s)	74, 80, 139, 199, 260, 523, 578, 598, 706
CviQI	GTAC	1 cut(s)	476
DdeI	CTNAG	2 cut(s)	559, 741
DpnI	GATC	4 cut(s)	148, 155, 459, 553
DpnII	GATC	4 cut(s)	146, 153, 457, 551
Eam1104I	CTCTTC	1 cut(s)	269
EarI	CTCTTC	1 cut(s)	269
EciI	GGCGGA	1 cut(s)	442
Ecl136II	GAGCTC	2 cut(s)	139, 706
Eco24I	GRGCYC	2 cut(s)	141, 708
Eco53kI	GAGCTC	2 cut(s)	139, 706
Eco57I	CTGAAG	1 cut(s)	774
Eco88I	CYCGRG	1 cut(s)	716
EcoICRI	GAGCTC	2 cut(s)	139, 706
EcoRI	GAATTC	1 cut(s)	662
EcoRII	CCWGG	3 cut(s)	129, 260, 547
EcoT38I	GRGCYC	2 cut(s)	141, 708
Esp3I	CGTCTC	1 cut(s)	271
FaeI	CATG	4 cut(s)	295, 301, 502, 802
FatI	CATG	4 cut(s)	291, 297, 498, 798
Fnu4HI	GCNGC	4 cut(s)	72, 75, 78, 416
FokI	GGATG	2 cut(s)	41, 502
FriOI	GRGCYC	2 cut(s)	141, 708
Fsp4HI	GCNGC	4 cut(s)	72, 75, 78, 416
GluI	GCNGC	4 cut(s)	72, 75, 78, 416
GsuI	CTGGAG	2 cut(s)	152, 722
HapII	CCGG	2 cut(s)	68, 113
HgaI	GACGC	2 cut(s)	288, 561
Hin1I	GRCGYC	1 cut(s)	280
Hin1II	CATG	4 cut(s)	295, 301, 502, 802
HinfI	GANTC	5 cut(s)	103, 311, 374, 464, 542
HpaII	CCGG	2 cut(s)	68, 113
HphI	GGTGA	4 cut(s)	199, 398, 514, 537
Hpy166II	GTNNAC	1 cut(s)	287
Hpy188I	TCNGA	7 cut(s)	182, 249, 310, 457, 541, 562, 793
Hpy188III	TCNNGA	6 cut(s)	96, 157, 404, 461, 701, 718
Hpy8I	GTNNAC	1 cut(s)	287
Hpy99I	CGWCG	1 cut(s)	169
HpyAV	CCTTC	1 cut(s)	215
HpyCH4III	ACNGT	3 cut(s)	448, 475, 583
HpyCH4IV	ACGT	1 cut(s)	23
HpyCH4V	TGCA	6 cut(s)	8, 77, 127, 194, 380, 481
HpyF10VI	GCNNNNNNNGC	3 cut(s)	77, 124, 424
HpyF3I	CTNAG	2 cut(s)	559, 741
HpySE526I	ACGT	1 cut(s)	23
Hsp92I	GRCGYC	1 cut(s)	280
Hsp92II	CATG	4 cut(s)	295, 301, 502, 802
Kzo9I	GATC	4 cut(s)	146, 153, 457, 551
LmnI	GCTCC	4 cut(s)	85, 115, 136, 703
Lsp1109I	GCAGC	4 cut(s)	61, 83, 89, 427
MaeII	ACGT	1 cut(s)	23
MaeIII	GTNAC	3 cut(s)	19, 187, 386
MalI	GATC	4 cut(s)	148, 155, 459, 553
MboI	GATC	4 cut(s)	146, 153, 457, 551
MboII	GAAGA	4 cut(s)	286, 683, 686, 689
MhlI	GDGCHC	2 cut(s)	141, 708
MluCI	AATT	5 cut(s)	91, 351, 511, 662, 752
MluI	ACGCGT	1 cut(s)	570
MlyI	GAGTC	1 cut(s)	305
MmeI	TCCRAC	3 cut(s)	6, 131, 205
MnlI	CCTC	8 cut(s)	93, 127, 207, 261, 377, 480, 526, 568
MroXI	GAANNNNTTC	1 cut(s)	233
MseI	TTAA	2 cut(s)	443, 732
MslI	CAYNNNNRTG	2 cut(s)	296, 618
MspA1I	CMGCKG	1 cut(s)	74
MspI	CCGG	2 cut(s)	68, 113
MspR9I	CCNGG	4 cut(s)	113, 131, 262, 549
MvaI	CCWGG	3 cut(s)	131, 262, 549
MvnI	CGCG	2 cut(s)	88, 572
MwoI	GCNNNNNNNGC	3 cut(s)	77, 124, 424
NciI	CCSGG	1 cut(s)	113
NdeII	GATC	4 cut(s)	146, 153, 457, 551
NlaIII	CATG	4 cut(s)	295, 301, 502, 802
NlaIV	GGNNCC	1 cut(s)	15
NmuCI	GTSAC	3 cut(s)	19, 187, 386
NspV	TTCGAA	1 cut(s)	202
PaeR7I	CTCGAG	1 cut(s)	716
PdmI	GAANNNNTTC	1 cut(s)	233
PfeI	GAWTC	4 cut(s)	103, 374, 464, 542
PkrI	GCNGC	4 cut(s)	73, 76, 79, 417
PleI	GAGTC	1 cut(s)	305
PpsI	GAGTC	1 cut(s)	305
Psp124BI	GAGCTC	2 cut(s)	141, 708
Psp6I	CCWGG	3 cut(s)	129, 260, 547
PspGI	CCWGG	3 cut(s)	129, 260, 547
PspN4I	GGNNCC	1 cut(s)	15
PstI	CTGCAG	3 cut(s)	79, 196, 382
PvuII	CAGCTG	1 cut(s)	74
RsaI	GTAC	1 cut(s)	477
RsaNI	GTAC	1 cut(s)	476
RseI	CAYNNNNRTG	2 cut(s)	296, 618
SacI	GAGCTC	2 cut(s)	141, 708
SaqAI	TTAA	2 cut(s)	443, 732
SatI	GCNGC	4 cut(s)	72, 75, 78, 416
Sau3AI	GATC	4 cut(s)	146, 153, 457, 551
ScaI	AGTACT	1 cut(s)	477
SchI	GAGTC	1 cut(s)	305
ScrFI	CCNGG	4 cut(s)	113, 131, 262, 549
SduI	GDGCHC	2 cut(s)	141, 708
SfcI	CTRYAG	5 cut(s)	75, 192, 378, 471, 579
Sfr274I	CTCGAG	1 cut(s)	716
SfuI	TTCGAA	1 cut(s)	202
SlaI	CTCGAG	1 cut(s)	716
SmiMI	CAYNNNNRTG	2 cut(s)	296, 618
SmlI	CTYRAG	1 cut(s)	716
SmoI	CTYRAG	1 cut(s)	716
Sse9I	AATT	5 cut(s)	91, 351, 511, 662, 752
SsiI	CCGC	3 cut(s)	86, 427, 771
SspI	AATATT	1 cut(s)	812
SstI	GAGCTC	2 cut(s)	141, 708
StyD4I	CCNGG	4 cut(s)	111, 129, 260, 547
TaaI	ACNGT	3 cut(s)	448, 475, 583
TaiI	ACGT	1 cut(s)	26
TaqI	TCGA	4 cut(s)	145, 202, 554, 717
TasI	AATT	5 cut(s)	91, 351, 511, 662, 752
TatI	WGTACW	1 cut(s)	475
TfiI	GAWTC	4 cut(s)	103, 374, 464, 542
Tru1I	TTAA	2 cut(s)	443, 732
Tru9I	TTAA	2 cut(s)	443, 732
TscAI	CASTG	3 cut(s)	15, 24, 46
TseFI	GTSAC	3 cut(s)	19, 187, 386
TseI	GCWGC	4 cut(s)	71, 74, 77, 415
Tsp45I	GTSAC	3 cut(s)	19, 187, 386
TspDTI	ATGAA	1 cut(s)	787
TspRI	CASTG	3 cut(s)	15, 24, 46
XapI	RAATTY	2 cut(s)	91, 662
XcmI	CCANNNNNNNNNTGG	1 cut(s)	526
XhoI	CTCGAG	1 cut(s)	716
XmnI	GAANNNNTTC	1 cut(s)	233
ZrmI	AGTACT	1 cut(s)	477

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