Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0005898

Physical Location & Seq

Genomic Coordinates Forward (+)

18358278 .. 18363556

Gene Structure 5279 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG130000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1719 bp

ATGGAGTTGTTCATCACATTCCTGTTCACCCGACCACATCTTCAATTGGTTCTAGTGAAGTATTGTGATGAATTTGACAAACTTTCAAGGTATTCATGGGCAGCAGCAGTGGGAGAATTCCTAAACAAATCTTTGAAAGCCAAGAGCAAAGTTGAAATTAAGGGATGCGCGCTTCTCATTCCACTTTGGTTGTGTGAGAAAACAAATATTACACAACCAATCAGTGGGAGGGAGATCATTGAGGGCAACACACCATCCCTAATCAGATGGAGTCTTCCAGAACTGAACATGAAAATGCAAGAAATAACCATTTGCGAAATTGAGCGTTTGTTCGAGGTGCAAAATGGGATCGAAGTAGAAATAAAACCTGAACATGAAAATCATGAAGGAGAAGAGGAAGAGCTAAAGAAGAAAGACACGAAACAAAAGGGAAGAGAATTATACCAACCGTTAAAAAAAGAAATTGTGGAAAGAAGAAAGGTACAGAAGAACGACTATGAATTAAACGTGAAGAACAACTTCAAAGATAAACTTAAAGCAGAAGTTGATGGAGACATGGAGTTGATTGAGAAAGATCAGCTAGATCCTCAAATCCCCTGCACTGCAATTCAATTGAGTCCAGGGGATGACAATAAGGTGCCACAAGTTGAGCATCAAATGAGGCTTCCTATGGAAGGAACTGGAGTGAAAGTTAGAAAGCAGCAACTGGATCCAGATTTTGTGTGCAATGTAGTGCCTAAAAGGAGAAAGGCAAAAGAGCAACATGCTCCATCTGATCCAATTCTTACAGTACCTACGAGGGCAATTCAGGATTCTGCTGGCAAGAGAGATGAACGGATAATAATTATCGTTGATGATTCTGTTTCAGAAGAGGAGAAGAGCACAAGGAAAGTGAAGAGACCAAGGAAAGAATGGTCCCCTTTGGAAAGATGTGAGGTATTCAAGTTATTGGATGATGAATATCAACAAAAGGTGAAAGCATTCTGGAGTATGACAAATCCCAAAGAACTATTTTGGAGTGGGAAAAATGCAAGCGTTGCACGTGAAGATGTCAAAAAGTTGATACAAAACACTGCAGTAGCGAGCAACGTCATTGATGCATTCATGGAGCTATTGGAACAAAAACAGCACCAAAGTAGTGTAAAACAATCAACATACATATCAACTCTGTGCTGGAACTATGTACGAATGAAAGATGCACGAAAGAAAGGAAAGAAAGATCAAGTGCAAGATGAAGTTCATGATGAAGTGGGGTTGAATCAATTGGTTTTTGATCCGCTATTGGGTAGTATGGCACAAAGCGACTATATATTCTTCCCAGTAATCTCAAAGTTCCACTACACTCTCCTCGTCCTAAACAAAAATGAGAAAAAGTGGACACATTACAACCCCTTAAGGAAGAGATCAGAACTGCATATTGATCCATGCTATGAGGTTGCTAAGCAAATGCATCAATTGATACAAGAATGGTTCCATATAACCCAAAAAGAAGCTCCAAGAGCACTGCTAAATGGAACAAAAAGGAAGAAGCTGGGGAAAAGGGAAGGCTGGATGGAAGTTCCTCTTAGTGAAGATGAAAAAAGAACTCTAACTTGGATGATGGATAACAATATCGACTTCAAAATAGAGAACGATCGAAATTCTGCCATGGCGGCGGTGGCTAGGCAGTGTGATGTTGTTGACTATGGCAGCGGGGTCGCATCTGGAAGTGATTCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF1985 PMD

Protein Analysis

572

Amino Acids

66.43

Weight (kDa)

7.54

Isoelectric Point (pI)

44.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PMD	PF10536	14 - 101	8.8e-06	Plant mobile domain
Peptidase_C48	PF02902	361 - 486	3.2e-06	Ulp1 protease family, C-terminal catalytic 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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Publication-ready

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Orthologous Genes (Group: OG0005898)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g09801 FvH4_2g09801 FvH4_2g09802 FvH4_2g10140 FvH4_2g10140 FvH4_2g10140
rosa_chinensis	RchiOBHm_Chr6g0266141 RchiOBHm_Chr6g0266151
rosa_laevigata	RLG00000014112 RLG00000014113
rosa_multiflora	Rmu_sc0004324.1_g000010 Rmu_sc0012594.1_g000003
rosa_roxburghii	Rroxscaffold_174G00435240 Rroxscaffold_174G00435320 Rroxscaffold_2G00113790 Rroxscaffold_7G00201870 Rroxscaffold_7G00201900
rosa_rugosa	Rorug06G0024300
rosa_samantha	Rh6AG144900 Rh6AG145000 Rh6BG145600 Rh6BG145700 Rh6CG142000 Rh6CG142100 Rh6DG130000 Rh6DG130100
rosa_wichuraiana	Rw6G012510 Rw6G012520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	637
AccB7I	CCANNNNNTGG	1 cut(s)	224
AccII	CGCG	1 cut(s)	170
AciI	CCGC	4 cut(s)	1277, 1652, 1655, 1692
AclWI	GGATC	7 cut(s)	356, 578, 704, 717, 770, 1268, 1415
AcsI	RAATTY	3 cut(s)	71, 116, 1639
AcvI	CACGTG	1 cut(s)	1043
AfaI	GTAC	3 cut(s)	483, 792, 1185
AfiI	CCNNNNNNNGG	3 cut(s)	224, 674, 1283
AflII	CTTAAG	1 cut(s)	1393
AgsI	TTSAA	9 cut(s)	44, 87, 136, 155, 523, 611, 943, 1258, 1621
AjnI	CCWGG	1 cut(s)	619
AjuI	GAANNNNNNNTTGG	2 cut(s)	1576, 1608
AluBI	AGCT	5 cut(s)	403, 580, 1111, 1493, 1531
AluI	AGCT	5 cut(s)	403, 580, 1111, 1493, 1531
Alw21I	GWGCWC	2 cut(s)	884, 1504
Alw26I	GTCTC	2 cut(s)	546, 892
AlwI	GGATC	7 cut(s)	356, 578, 704, 717, 770, 1268, 1415
AlwNI	CAGNNNCTG	1 cut(s)	706
ApeKI	GCWGC	4 cut(s)	101, 104, 700, 1689
ApoI	RAATTY	3 cut(s)	71, 116, 1639
Asp700I	GAANNNNTTC	3 cut(s)	518, 980, 1711
AspLEI	GCGC	2 cut(s)	170, 172
AspS9I	GGNCC	1 cut(s)	915
AsuHPI	GGTGA	2 cut(s)	19, 985
AvaII	GGWCC	1 cut(s)	915
BamHI	GGATCC	1 cut(s)	709
BanI	GGYRCC	1 cut(s)	637
BbrPI	CACGTG	1 cut(s)	1043
BbsI	GAAGAC	1 cut(s)	266
Bbv12I	GWGCWC	2 cut(s)	884, 1504
BbvI	GCAGC	4 cut(s)	113, 116, 712, 1701
BccI	CCATC	6 cut(s)	261, 262, 542, 778, 1546, 1594
BcgI	CGANNNNNNTGC	2 cut(s)	1678, 1712
BciT130I	CCWGG	1 cut(s)	621
BcoDI	GTCTC	2 cut(s)	546, 892
BfaI	CTAG	3 cut(s)	53, 581, 1662
BfmI	CTRYAG	1 cut(s)	1074
BfrI	CTTAAG	1 cut(s)	1393
BglI	GCCNNNNNGGC	1 cut(s)	1652
BisI	GCNGC	5 cut(s)	102, 105, 701, 1653, 1690
BlpI	GCTNAGC	1 cut(s)	1440
BlsI	GCNGC	5 cut(s)	103, 106, 702, 1654, 1691
Bme1390I	CCNGG	1 cut(s)	621
Bme18I	GGWCC	1 cut(s)	915
BmgT120I	GGNCC	1 cut(s)	915
BmiI	GGNNCC	4 cut(s)	639, 711, 917, 1472
BmrFI	CCNGG	1 cut(s)	621
BmrI	ACTGGG	1 cut(s)	1313
BmsI	GCATC	6 cut(s)	155, 661, 1087, 1186, 1459, 1709
BmuI	ACTGGG	1 cut(s)	1313
BpiI	GAAGAC	1 cut(s)	266
BpmI	CTGGAG	2 cut(s)	702, 1006
Bpu1102I	GCTNAGC	1 cut(s)	1440
BsaAI	YACGTR	1 cut(s)	1043
BsaBI	GATNNNNATC	1 cut(s)	960
BsaI	GGTCTC	1 cut(s)	892
BsaJI	CCNNGG	3 cut(s)	620, 902, 1647
BsaXI	ACNNNNNCTCC	2 cut(s)	675, 705
Bsc4I	CCNNNNNNNGG	3 cut(s)	224, 674, 1283
Bse1I	ACTGG	3 cut(s)	685, 711, 1319
Bse3DI	GCAATG	1 cut(s)	733
Bse8I	GATNNNNATC	1 cut(s)	960
BseBI	CCWGG	1 cut(s)	621
BseDI	CCNNGG	3 cut(s)	620, 902, 1647
BseGI	GGATG	6 cut(s)	170, 254, 631, 958, 1557, 1602
BseJI	GATNNNNATC	1 cut(s)	960
BseLI	CCNNNNNNNGG	3 cut(s)	224, 674, 1283
BseMI	GCAATG	1 cut(s)	733
BseNI	ACTGG	3 cut(s)	685, 711, 1319
BsePI	GCGCGC	1 cut(s)	168
BseRI	GAGGAG	2 cut(s)	887, 1337
BseXI	GCAGC	4 cut(s)	113, 116, 712, 1701
BseYI	CCCAGC	1 cut(s)	1531
BsgI	GTGCAG	1 cut(s)	583
Bsh1236I	CGCG	1 cut(s)	170
Bsh1285I	CGRYCG	1 cut(s)	1636
BshNI	GGYRCC	1 cut(s)	637
BsiEI	CGRYCG	1 cut(s)	1636
BsiHKAI	GWGCWC	2 cut(s)	884, 1504
BslFI	GGGAC	1 cut(s)	901
BslI	CCNNNNNNNGG	3 cut(s)	224, 674, 1283
BsmAI	GTCTC	2 cut(s)	546, 892
BsmFI	GGGAC	1 cut(s)	901
BsmI	GAATGC	2 cut(s)	980, 1100
Bso31I	GGTCTC	1 cut(s)	892
Bsp1286I	GDGCHC	2 cut(s)	884, 1504
Bsp1720I	GCTNAGC	1 cut(s)	1440
Bsp19I	CCATGG	1 cut(s)	1647
BspACI	CCGC	4 cut(s)	1277, 1652, 1655, 1692
BspFNI	CGCG	1 cut(s)	170
BspHI	TCATGA	2 cut(s)	382, 1240
BspLI	GGNNCC	4 cut(s)	639, 711, 917, 1472
BspMAI	CTGCAG	1 cut(s)	1078
BspPI	GGATC	7 cut(s)	356, 578, 704, 717, 770, 1268, 1415
BspQI	GCTCTTC	2 cut(s)	393, 872
BspT107I	GGYRCC	1 cut(s)	637
BspTI	CTTAAG	1 cut(s)	1393
BspTNI	GGTCTC	1 cut(s)	892
BsrDI	GCAATG	1 cut(s)	733
BsrI	ACTGG	3 cut(s)	685, 711, 1319
BssECI	CCNNGG	3 cut(s)	620, 902, 1647
BssHII	GCGCGC	1 cut(s)	168
BssT1I	CCWWGG	2 cut(s)	902, 1647
Bst2UI	CCWGG	1 cut(s)	621
Bst4CI	ACNGT	2 cut(s)	450, 790
Bst6I	CTCTTC	7 cut(s)	387, 393, 427, 864, 872, 890, 1394
BstAFI	CTTAAG	1 cut(s)	1393
BstAPI	GCANNNNNTGC	1 cut(s)	1037
BstBAI	YACGTR	1 cut(s)	1043
BstC8I	GCNNGC	4 cut(s)	170, 820, 1033, 1084
BstDEI	CTNAG	2 cut(s)	1440, 1565
BstDSI	CCRYGG	1 cut(s)	1647
BstENI	CCTNNNNNAGG	1 cut(s)	672
BstF5I	GGATG	6 cut(s)	170, 254, 631, 958, 1557, 1602
BstFNI	CGCG	1 cut(s)	170
BstHHI	GCGC	2 cut(s)	170, 172
BstMAI	GTCTC	2 cut(s)	546, 892
BstMCI	CGRYCG	1 cut(s)	1636
BstMWI	GCNNNNNNNGC	4 cut(s)	1037, 1499, 1652, 1658
BstNI	CCWGG	1 cut(s)	621
BstNSI	RCATGY	1 cut(s)	767
BstSCI	CCNGG	1 cut(s)	619
BstSFI	CTRYAG	1 cut(s)	1074
BstUI	CGCG	1 cut(s)	170
BstV1I	GCAGC	4 cut(s)	113, 116, 712, 1701
BstV2I	GAAGAC	1 cut(s)	266
BstX2I	RGATCY	2 cut(s)	583, 709
BstYI	RGATCY	2 cut(s)	583, 709
BtgI	CCRYGG	1 cut(s)	1647
BtsCI	GGATG	6 cut(s)	170, 254, 631, 958, 1557, 1602
BtsI	GCAGTG	5 cut(s)	114, 600, 1071, 1502, 1673
BtsIMutI	CAGTG	6 cut(s)	114, 229, 600, 1071, 1502, 1673
Cac8I	GCNNGC	4 cut(s)	170, 820, 1033, 1084
CaiI	CAGNNNCTG	1 cut(s)	706
CciI	TCATGA	2 cut(s)	382, 1240
CfoI	GCGC	2 cut(s)	170, 172
Cfr13I	GGNCC	1 cut(s)	915
Csp6I	GTAC	3 cut(s)	482, 791, 1184
CspCI	CAANNNNNGTGG	2 cut(s)	171, 206
CviJI	RGCY	9 cut(s)	140, 403, 580, 664, 1111, 1493, 1531, 1548, 1661
CviKI_1	RGCY	9 cut(s)	140, 403, 580, 664, 1111, 1493, 1531, 1548, 1661
CviQI	GTAC	3 cut(s)	482, 791, 1184
DdeI	CTNAG	2 cut(s)	1440, 1565
Eam1104I	CTCTTC	7 cut(s)	387, 393, 427, 864, 872, 890, 1394
EarI	CTCTTC	7 cut(s)	387, 393, 427, 864, 872, 890, 1394
Eco130I	CCWWGG	2 cut(s)	902, 1647
Eco31I	GGTCTC	1 cut(s)	892
Eco47I	GGWCC	1 cut(s)	915
Eco72I	CACGTG	1 cut(s)	1043
EcoNI	CCTNNNNNAGG	1 cut(s)	672
EcoRI	GAATTC	1 cut(s)	116
EcoRII	CCWGG	1 cut(s)	619
EcoT14I	CCWWGG	2 cut(s)	902, 1647
EcoT22I	ATGCAT	2 cut(s)	1102, 1452
ErhI	CCWWGG	2 cut(s)	902, 1647
FalI	AAGNNNNNCTT	6 cut(s)	503, 535, 516, 548, 1548, 1580
FaqI	GGGAC	1 cut(s)	901
FauI	CCCGC	1 cut(s)	1685
Fnu4HI	GCNGC	5 cut(s)	102, 105, 701, 1653, 1690
FokI	GGATG	6 cut(s)	177, 241, 638, 965, 1564, 1609
Fsp4HI	GCNGC	5 cut(s)	102, 105, 701, 1653, 1690
FspBI	CTAG	3 cut(s)	53, 581, 1662
GlaI	GCGC	2 cut(s)	169, 171
GluI	GCNGC	5 cut(s)	102, 105, 701, 1653, 1690
GsaI	CCCAGC	1 cut(s)	1535
GsuI	CTGGAG	2 cut(s)	702, 1006
HhaI	GCGC	2 cut(s)	170, 172
Hin6I	GCGC	2 cut(s)	168, 170
HinP1I	GCGC	2 cut(s)	168, 170
HincII	GTYRAC	1 cut(s)	1681
HindII	GTYRAC	1 cut(s)	1681
HinfI	GANTC	6 cut(s)	271, 616, 812, 857, 1258, 1712
HphI	GGTGA	2 cut(s)	19, 985
Hpy166II	GTNNAC	3 cut(s)	27, 1377, 1681
Hpy188I	TCNGA	4 cut(s)	266, 775, 868, 1408
Hpy188III	TCNNGA	8 cut(s)	278, 383, 713, 809, 985, 1241, 1704, 1716
Hpy8I	GTNNAC	3 cut(s)	27, 1377, 1681
HpyAV	CCTTC	3 cut(s)	380, 668, 1538
HpyCH4III	ACNGT	2 cut(s)	450, 790
HpyCH4IV	ACGT	3 cut(s)	507, 1042, 1089
HpyF10VI	GCNNNNNNNGC	4 cut(s)	1037, 1499, 1652, 1658
HpyF3I	CTNAG	2 cut(s)	1440, 1565
HpySE526I	ACGT	3 cut(s)	507, 1042, 1089
HspAI	GCGC	2 cut(s)	168, 170
LguI	GCTCTTC	2 cut(s)	393, 872
LmnI	GCTCC	3 cut(s)	772, 1108, 1498
Lsp1109I	GCAGC	4 cut(s)	113, 116, 712, 1701
LweI	GCATC	6 cut(s)	155, 661, 1087, 1186, 1459, 1709
MaeI	CTAG	3 cut(s)	53, 581, 1662
MaeII	ACGT	3 cut(s)	507, 1042, 1089
MfeI	CAATTG	4 cut(s)	44, 611, 1262, 1454
MflI	RGATCY	2 cut(s)	583, 709
MhlI	GDGCHC	2 cut(s)	884, 1504
MlyI	GAGTC	2 cut(s)	280, 625
Mph1103I	ATGCAT	2 cut(s)	1102, 1452
MroXI	GAANNNNTTC	3 cut(s)	518, 980, 1711
MseI	TTAA	5 cut(s)	159, 452, 503, 534, 1394
MslI	CAYNNNNRTG	1 cut(s)	293
MspA1I	CMGCKG	1 cut(s)	1692
MspCI	CTTAAG	1 cut(s)	1393
MspR9I	CCNGG	1 cut(s)	621
MunI	CAATTG	4 cut(s)	44, 611, 1262, 1454
Mva1269I	GAATGC	2 cut(s)	980, 1100
MvaI	CCWGG	1 cut(s)	621
MvnI	CGCG	1 cut(s)	170
MwoI	GCNNNNNNNGC	4 cut(s)	1037, 1499, 1652, 1658
NcoI	CCATGG	1 cut(s)	1647
NlaIV	GGNNCC	4 cut(s)	639, 711, 917, 1472
NsiI	ATGCAT	2 cut(s)	1102, 1452
NspI	RCATGY	1 cut(s)	767
PagI	TCATGA	2 cut(s)	382, 1240
PauI	GCGCGC	1 cut(s)	168
PciSI	GCTCTTC	2 cut(s)	393, 872
PctI	GAATGC	2 cut(s)	980, 1100
PdmI	GAANNNNTTC	3 cut(s)	518, 980, 1711
PfeI	GAWTC	4 cut(s)	812, 857, 1258, 1712
PflMI	CCANNNNNTGG	1 cut(s)	224
PkrI	GCNGC	5 cut(s)	103, 106, 702, 1654, 1691
Ple19I	CGATCG	1 cut(s)	1636
PleI	GAGTC	2 cut(s)	279, 624
PmaCI	CACGTG	1 cut(s)	1043
PmlI	CACGTG	1 cut(s)	1043
PpsI	GAGTC	2 cut(s)	279, 624
Ppu21I	YACGTR	1 cut(s)	1043
Psp6I	CCWGG	1 cut(s)	619
PspCI	CACGTG	1 cut(s)	1043
PspFI	CCCAGC	1 cut(s)	1531
PspGI	CCWGG	1 cut(s)	619
PspN4I	GGNNCC	4 cut(s)	639, 711, 917, 1472
PspPI	GGNCC	1 cut(s)	915
PstI	CTGCAG	1 cut(s)	1078
PstNI	CAGNNNCTG	1 cut(s)	706
PsuI	RGATCY	2 cut(s)	583, 709
PteI	GCGCGC	1 cut(s)	168
PvuI	CGATCG	1 cut(s)	1636
RsaI	GTAC	3 cut(s)	483, 792, 1185
RsaNI	GTAC	3 cut(s)	482, 791, 1184
RseI	CAYNNNNRTG	1 cut(s)	293
SapI	GCTCTTC	2 cut(s)	393, 872
SaqAI	TTAA	5 cut(s)	159, 452, 503, 534, 1394
SatI	GCNGC	5 cut(s)	102, 105, 701, 1653, 1690
Sau96I	GGNCC	1 cut(s)	915
SchI	GAGTC	2 cut(s)	280, 625
ScrFI	CCNGG	1 cut(s)	621
SduI	GDGCHC	2 cut(s)	884, 1504
SfaNI	GCATC	6 cut(s)	155, 661, 1087, 1186, 1459, 1709
SfcI	CTRYAG	1 cut(s)	1074
SinI	GGWCC	1 cut(s)	915
SmiMI	CAYNNNNRTG	1 cut(s)	293
SmlI	CTYRAG	1 cut(s)	1393
SmoI	CTYRAG	1 cut(s)	1393
SsiI	CCGC	4 cut(s)	1277, 1652, 1655, 1692
SspI	AATATT	1 cut(s)	208
SspMI	CTAG	3 cut(s)	53, 581, 1662
StyD4I	CCNGG	1 cut(s)	619
StyI	CCWWGG	2 cut(s)	902, 1647
TaaI	ACNGT	2 cut(s)	450, 790
TaiI	ACGT	3 cut(s)	510, 1045, 1092
TaqI	TCGA	4 cut(s)	333, 351, 1614, 1636
TauI	GCSGC	1 cut(s)	1655
TfiI	GAWTC	4 cut(s)	812, 857, 1258, 1712
Tru1I	TTAA	5 cut(s)	159, 452, 503, 534, 1394
Tru9I	TTAA	5 cut(s)	159, 452, 503, 534, 1394
TscAI	CASTG	6 cut(s)	114, 229, 607, 1078, 1509, 1673
TseI	GCWGC	4 cut(s)	101, 104, 700, 1689
TspGWI	ACGGA	1 cut(s)	850
TspRI	CASTG	6 cut(s)	114, 229, 607, 1078, 1509, 1673
Van91I	CCANNNNNTGG	1 cut(s)	224
Vha464I	CTTAAG	1 cut(s)	1393
VpaK11BI	GGWCC	1 cut(s)	915
XagI	CCTNNNNNAGG	1 cut(s)	672
XapI	RAATTY	3 cut(s)	71, 116, 1639
XceI	RCATGY	1 cut(s)	767
XcmI	CCANNNNNNNNNTGG	2 cut(s)	909, 1654
XmnI	GAANNNNTTC	3 cut(s)	518, 980, 1711
XspI	CTAG	3 cut(s)	53, 581, 1662
Zsp2I	ATGCAT	2 cut(s)	1102, 1452

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