Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0009450

Physical Location & Seq

Genomic Coordinates Reverse (-)

18238355 .. 18245750

Gene Structure 7396 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG106500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1548 bp

ATGGAGTTCGATAAGCAATTGTCACCTGATGAGTTGGATAAGGAGTGTTCAATTCTACTTGAGCTAGATGAAAATGACCCTCTTTTTGATAAAAAGAAGAAACTGCTACAAGATAATGGATTTAAAACTAAGGAACAAGTACGCATAAAAAGGTCATCAGATCCTAATTGGCTCAGTACCTCCTTGAAAGTAATGCTTCAAATAGCACGGATCATAAAACTTGATGAGGTAGAGCTTTATTTTGGGGGAGAAGAACAGTTGGACTCCTATAGTCCCAGAAATGAGCTTGAGGCCCTCAATTCTATTCTTCAGCTTGTGGAAAGTTCACTCTCTGATGCATGTGAAATAACAAAGAATGTCCTGCAAGACTTGCACAATCTTACCATTGATAAGATTTGTCAGTTTGCTGAAGAAAACAGTTTGAAGACTACAATTGTAGAAGGCCAGAACTCTGATAAAGAAAAGCAATTGCTGCAATGGGGTGAAAACAATGGTGTCAAGACAAGGCTGCAGATAGCTTATGTCGAAGGGGCTGGTAGAGGAGCTATAGCTAGAGAAGATCTAAAAGTTGGAGACACTGCTTTGGAGATCCCGACATCCTTAATAATTTCTGAGGAGCTTGTCCAGAAAACTGATATGTATCATGTATTAGAGAAGTTGGAAGACACTTCCTCTGAGACTATGTTATTGTTGTGGAGCATGAAGGAGAGGCACAATACTGATTCACAATACAAGATCTACTTCGATACACTGCCAGAGGATTTTCATACTGGATTGAGTTTTGGAATTTCGGCAGTGATGTCTTTGTATGGAACCTTGCTGTTGGATGAGATAATGCAAGCAAAAGAGCATTTGCGTGCTCAATATGATAAGCTTTTCCCTGCACTGTGCAATGAGCATCCTGATATCTTTCCCCCAGAGCTTTACACGTGGGAGCAATTCTTGTGGGCGTGTGAATTGTGGTACTCAAATAGCATGAAAATCATGTTTGCTGATGGAAAATTAAGGACATGCTTGATTCCTATTGCTGGCTTTTTGAACCATTCGATATACCCACATGTAGTGAATTATGGCAGAGTAGATTCTGCAACAAATACCATAAAATTCCGTCTGTCAAGACCTTGCAGTGCTGGACAAGAATGTTGCCTTAGTTATGGAAACCTCTCCACTTCTCATCTAGTTACCTTTTATGGCTTCTTACCACAAGGATACAACCCTTATGATGTCATTCCACTAGATATTGGTGGTGCCGATGACGATTCTACTGAAGGCAGCTCCACATCTGAATGGACAACTCACATGGTGCGAGGTACTTGGTTCTCAAAGAACTGGAATATTTTCTATTATGGCCTGCCCTCCCCGTTTTTGGACTGCCTAAGGAGAGCTCGGAATCCCATGCTGCTGACTAAGACCCTTCTGCCAGAAAACTTGGAGAATGAAATTGAAATCCTTGAAGATCTTCTCGCAATCTTCAATGACATGATGGATAGCCTTGGTGACGCAGACCTCGATGACAGGTATACAAGTCTCTATACAATTATATCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00310 map00310

Pfam Domains

Protein Families

Rubis-subs-bind SET

Protein Analysis

515

Amino Acids

58.89

Weight (kDa)

4.63

Isoelectric Point (pI)

40.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rubis-subs-bind	PF09273	24 - 111	1e-06	Rubisco LSMT substrate-binding
SET	PF00856	179 - 386	3.7e-06	SET domain

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: OG0009450)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G18850 AT2G18850
fragaria_vesca	FvH4_4g08310 FvH4_4g08310 FvH4_4g08310
malus_domestica	MD13G1255300.v1.1 MD16G1258300.v1.1 MD16G1258400.v1.1
prunus_persica	Prupe.1G086300_v2.0.a1
pyrus_communis	pycom16g22180
rosa_chinensis	RchiOBHm_Chr4g0402581
rosa_laevigata	RLG00000009066
rosa_multiflora	Rmu_co7971726.1_g000001 Rmu_sc0015071.1_g000001
rosa_roxburghii	Rroxscaffold_5G00347290
rosa_rugosa	Rorug04G0036700.1 Rorug04G0036800
rosa_samantha	Rh4AG114400 Rh4BG106500 Rh4CG120900 Rh4DG106400
rosa_wichuraiana	Rw4G009120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	1247
AccI	GTMKAC	1 cut(s)	1520
AclWI	GGATC	3 cut(s)	155, 218, 583
AcsI	RAATTY	2 cut(s)	786, 1103
AcuI	CTGAAG	3 cut(s)	293, 429, 1287
AcvI	CACGTG	1 cut(s)	930
AdeI	CACNNNGTG	1 cut(s)	1303
AfaI	GTAC	4 cut(s)	141, 178, 965, 1312
AfiI	CCNNNNNNNGG	2 cut(s)	1028, 1366
AflIII	ACRYGT	2 cut(s)	927, 1057
AgsI	TTSAA	8 cut(s)	51, 187, 200, 424, 1039, 1445, 1454, 1474
Alw21I	GWGCWC	2 cut(s)	862, 1387
Alw26I	GTCTC	3 cut(s)	567, 671, 1532
AlwI	GGATC	3 cut(s)	155, 218, 583
AoxI	GGCC	3 cut(s)	291, 442, 1348
ApeKI	GCWGC	4 cut(s)	472, 508, 1272, 1399
ApoI	RAATTY	2 cut(s)	786, 1103
ArsI	GACNNNNNNTTYG	2 cut(s)	68, 100
Asp700I	GAANNNNTTC	2 cut(s)	1337, 1458
AspS9I	GGNCC	1 cut(s)	292
AsuHPI	GGTGA	3 cut(s)	15, 494, 1508
AxyI	CCTNAGG	1 cut(s)	1376
BanI	GGYRCC	1 cut(s)	1247
BanII	GRGCYC	1 cut(s)	1387
BbrPI	CACGTG	1 cut(s)	930
BbsI	GAAGAC	2 cut(s)	431, 669
Bbv12I	GWGCWC	2 cut(s)	862, 1387
BbvI	GCAGC	4 cut(s)	459, 495, 1284, 1386
BccI	CCATC	2 cut(s)	989, 1477
BciVI	GTATCC	1 cut(s)	1202
BcoDI	GTCTC	3 cut(s)	567, 671, 1532
BfaI	CTAG	4 cut(s)	65, 552, 1178, 1235
BfmI	CTRYAG	3 cut(s)	268, 509, 546
BfuI	GTATCC	1 cut(s)	1202
BglII	AGATCT	3 cut(s)	559, 735, 1456
BisI	GCNGC	4 cut(s)	473, 509, 1273, 1400
BlsI	GCNGC	4 cut(s)	474, 510, 1274, 1401
BmgT120I	GGNCC	1 cut(s)	292
BmiI	GGNNCC	2 cut(s)	814, 1249
BmsI	GCATC	2 cut(s)	325, 907
BpiI	GAAGAC	2 cut(s)	431, 669
BpuEI	CTTGAG	2 cut(s)	80, 308
BsaAI	YACGTR	1 cut(s)	930
BsaBI	GATNNNNATC	1 cut(s)	639
BsaJI	CCNNGG	1 cut(s)	1492
Bsc4I	CCNNNNNNNGG	2 cut(s)	1028, 1366
Bse1I	ACTGG	2 cut(s)	775, 1334
Bse21I	CCTNAGG	1 cut(s)	1376
Bse3DI	GCAATG	2 cut(s)	482, 898
Bse8I	GATNNNNATC	1 cut(s)	639
BseDI	CCNNGG	1 cut(s)	1492
BseGI	GGATG	3 cut(s)	596, 832, 898
BseJI	GATNNNNATC	1 cut(s)	639
BseLI	CCNNNNNNNGG	2 cut(s)	1028, 1366
BseMI	GCAATG	2 cut(s)	482, 898
BseMII	CTCAG	3 cut(s)	187, 603, 666
BseNI	ACTGG	2 cut(s)	775, 1334
BseRI	GAGGAG	2 cut(s)	555, 629
BseXI	GCAGC	4 cut(s)	459, 495, 1284, 1386
BsgI	GTGCAG	1 cut(s)	867
BshFI	GGCC	3 cut(s)	293, 444, 1350
BshNI	GGYRCC	1 cut(s)	1247
BsiHKAI	GWGCWC	2 cut(s)	862, 1387
BslFI	GGGAC	1 cut(s)	258
BslI	CCNNNNNNNGG	2 cut(s)	1028, 1366
BsmAI	GTCTC	3 cut(s)	567, 671, 1532
BsmFI	GGGAC	1 cut(s)	258
BsnI	GGCC	3 cut(s)	293, 444, 1350
Bsp1286I	GDGCHC	2 cut(s)	862, 1387
Bsp143I	GATC	6 cut(s)	160, 210, 559, 588, 735, 1456
BspANI	GGCC	3 cut(s)	293, 444, 1350
BspCNI	CTCAG	3 cut(s)	186, 604, 667
BspLI	GGNNCC	2 cut(s)	814, 1249
BspMAI	CTGCAG	1 cut(s)	513
BspPI	GGATC	3 cut(s)	155, 218, 583
BspT107I	GGYRCC	1 cut(s)	1247
BsrDI	GCAATG	2 cut(s)	482, 898
BsrI	ACTGG	2 cut(s)	775, 1334
BssECI	CCNNGG	1 cut(s)	1492
BssMI	GATC	6 cut(s)	160, 210, 559, 588, 735, 1456
BssNAI	GTATAC	1 cut(s)	1521
BssT1I	CCWWGG	1 cut(s)	1492
Bst1107I	GTATAC	1 cut(s)	1521
Bst4CI	ACNGT	3 cut(s)	258, 419, 888
BstAPI	GCANNNNNTGC	2 cut(s)	370, 472
BstBAI	YACGTR	1 cut(s)	930
BstC8I	GCNNGC	4 cut(s)	840, 858, 1030, 1352
BstDEI	CTNAG	7 cut(s)	129, 173, 612, 675, 1148, 1376, 1407
BstF5I	GGATG	3 cut(s)	596, 832, 898
BstKTI	GATC	6 cut(s)	163, 213, 562, 591, 738, 1459
BstMAI	GTCTC	3 cut(s)	567, 671, 1532
BstMBI	GATC	6 cut(s)	160, 210, 559, 588, 735, 1456
BstMWI	GCNNNNNNNGC	2 cut(s)	370, 472
BstNSI	RCATGY	3 cut(s)	342, 1014, 1061
BstSFI	CTRYAG	3 cut(s)	268, 509, 546
BstV1I	GCAGC	4 cut(s)	459, 495, 1284, 1386
BstV2I	GAAGAC	2 cut(s)	431, 669
BstX2I	RGATCY	5 cut(s)	160, 559, 588, 735, 1456
BstYI	RGATCY	5 cut(s)	160, 559, 588, 735, 1456
BstZ17I	GTATAC	1 cut(s)	1521
Bsu36I	CCTNAGG	1 cut(s)	1376
BsuI	GTATCC	1 cut(s)	1202
BsuRI	GGCC	3 cut(s)	293, 444, 1350
BtsCI	GGATG	3 cut(s)	596, 832, 898
BtsI	GCAGTG	4 cut(s)	576, 749, 801, 1132
BtsIMutI	CAGTG	5 cut(s)	576, 749, 801, 884, 1132
Cac8I	GCNNGC	4 cut(s)	840, 858, 1030, 1352
Cfr13I	GGNCC	1 cut(s)	292
CseI	GACGC	1 cut(s)	1508
Csp6I	GTAC	4 cut(s)	140, 177, 964, 1311
CspCI	CAANNNNNGTGG	2 cut(s)	926, 961
CviQI	GTAC	4 cut(s)	140, 177, 964, 1311
DdeI	CTNAG	7 cut(s)	129, 173, 612, 675, 1148, 1376, 1407
DpnI	GATC	6 cut(s)	162, 212, 561, 590, 737, 1458
DpnII	GATC	6 cut(s)	160, 210, 559, 588, 735, 1456
DraI	TTTAAA	1 cut(s)	124
DraIII	CACNNNGTG	1 cut(s)	1303
Ecl136II	GAGCTC	1 cut(s)	1385
Eco130I	CCWWGG	1 cut(s)	1492
Eco24I	GRGCYC	1 cut(s)	1387
Eco32I	GATATC	1 cut(s)	907
Eco53kI	GAGCTC	1 cut(s)	1385
Eco57I	CTGAAG	3 cut(s)	293, 429, 1287
Eco72I	CACGTG	1 cut(s)	930
Eco81I	CCTNAGG	1 cut(s)	1376
EcoICRI	GAGCTC	1 cut(s)	1385
EcoO109I	RGGNCCY	1 cut(s)	292
EcoRV	GATATC	1 cut(s)	907
EcoT14I	CCWWGG	1 cut(s)	1492
EcoT22I	ATGCAT	1 cut(s)	340
EcoT38I	GRGCYC	1 cut(s)	1387
ErhI	CCWWGG	1 cut(s)	1492
FalI	AAGNNNNNCTT	4 cut(s)	180, 212, 725, 757
FaqI	GGGAC	1 cut(s)	258
FblI	GTMKAC	1 cut(s)	1520
Fnu4HI	GCNGC	4 cut(s)	473, 509, 1273, 1400
FokI	GGATG	3 cut(s)	583, 839, 885
FriOI	GRGCYC	1 cut(s)	1387
Fsp4HI	GCNGC	4 cut(s)	473, 509, 1273, 1400
FspBI	CTAG	4 cut(s)	65, 552, 1178, 1235
GluI	GCNGC	4 cut(s)	473, 509, 1273, 1400
HaeIII	GGCC	3 cut(s)	293, 444, 1350
HgaI	GACGC	1 cut(s)	1508
HindIII	AAGCTT	1 cut(s)	872
HinfI	GANTC	6 cut(s)	263, 722, 1018, 1082, 1259, 1390
HphI	GGTGA	3 cut(s)	15, 494, 1508
Hpy166II	GTNNAC	2 cut(s)	326, 1521
Hpy188I	TCNGA	7 cut(s)	160, 334, 454, 613, 676, 1285, 1389
Hpy188III	TCNNGA	5 cut(s)	499, 592, 625, 902, 1116
Hpy8I	GTNNAC	2 cut(s)	326, 1521
HpyAV	CCTTC	5 cut(s)	434, 521, 697, 1262, 1424
HpyCH4III	ACNGT	3 cut(s)	258, 419, 888
HpyCH4IV	ACGT	1 cut(s)	929
HpyF10VI	GCNNNNNNNGC	2 cut(s)	370, 472
HpyF3I	CTNAG	7 cut(s)	129, 173, 612, 675, 1148, 1376, 1407
HpySE526I	ACGT	1 cut(s)	929
Kzo9I	GATC	6 cut(s)	160, 210, 559, 588, 735, 1456
LmnI	GCTCC	5 cut(s)	542, 616, 696, 934, 1280
Lsp1109I	GCAGC	4 cut(s)	459, 495, 1284, 1386
LweI	GCATC	2 cut(s)	325, 907
MaeI	CTAG	4 cut(s)	65, 552, 1178, 1235
MaeII	ACGT	1 cut(s)	929
MaeIII	GTNAC	3 cut(s)	21, 1180, 1496
MalI	GATC	6 cut(s)	162, 212, 561, 590, 737, 1458
MboI	GATC	6 cut(s)	160, 210, 559, 588, 735, 1456
MfeI	CAATTG	3 cut(s)	17, 432, 467
MflI	RGATCY	5 cut(s)	160, 559, 588, 735, 1456
MhlI	GDGCHC	2 cut(s)	862, 1387
MlyI	GAGTC	1 cut(s)	257
MmeI	TCCRAC	5 cut(s)	15, 240, 550, 639, 804
Mph1103I	ATGCAT	1 cut(s)	340
MroXI	GAANNNNTTC	2 cut(s)	1337, 1458
MseI	TTAA	3 cut(s)	123, 602, 1004
MslI	CAYNNNNRTG	2 cut(s)	855, 1285
MunI	CAATTG	3 cut(s)	17, 432, 467
MwoI	GCNNNNNNNGC	2 cut(s)	370, 472
NdeII	GATC	6 cut(s)	160, 210, 559, 588, 735, 1456
NlaIV	GGNNCC	2 cut(s)	814, 1249
NmuCI	GTSAC	2 cut(s)	21, 1496
NsiI	ATGCAT	1 cut(s)	340
NspI	RCATGY	3 cut(s)	342, 1014, 1061
PciI	ACATGT	1 cut(s)	1057
PcsI	WCGNNNNNNNCGW	1 cut(s)	1506
PdmI	GAANNNNTTC	2 cut(s)	1337, 1458
PfeI	GAWTC	5 cut(s)	722, 1018, 1082, 1259, 1390
PkrI	GCNGC	4 cut(s)	474, 510, 1274, 1401
PleI	GAGTC	1 cut(s)	257
PmaCI	CACGTG	1 cut(s)	930
PmlI	CACGTG	1 cut(s)	930
PpsI	GAGTC	1 cut(s)	257
Ppu21I	YACGTR	1 cut(s)	930
PscI	ACATGT	1 cut(s)	1057
Psp124BI	GAGCTC	1 cut(s)	1387
PspCI	CACGTG	1 cut(s)	930
PspN4I	GGNNCC	2 cut(s)	814, 1249
PspPI	GGNCC	1 cut(s)	292
PstI	CTGCAG	1 cut(s)	513
PsuI	RGATCY	5 cut(s)	160, 559, 588, 735, 1456
RsaI	GTAC	4 cut(s)	141, 178, 965, 1312
RsaNI	GTAC	4 cut(s)	140, 177, 964, 1311
RseI	CAYNNNNRTG	2 cut(s)	855, 1285
SacI	GAGCTC	1 cut(s)	1387
SaqAI	TTAA	3 cut(s)	123, 602, 1004
SatI	GCNGC	4 cut(s)	473, 509, 1273, 1400
Sau3AI	GATC	6 cut(s)	160, 210, 559, 588, 735, 1456
Sau96I	GGNCC	1 cut(s)	292
SchI	GAGTC	1 cut(s)	257
SduI	GDGCHC	2 cut(s)	862, 1387
SfaNI	GCATC	2 cut(s)	325, 907
SfcI	CTRYAG	3 cut(s)	268, 509, 546
SmiMI	CAYNNNNRTG	2 cut(s)	855, 1285
SmlI	CTYRAG	2 cut(s)	59, 287
SmoI	CTYRAG	2 cut(s)	59, 287
SspI	AATATT	1 cut(s)	1336
SspMI	CTAG	4 cut(s)	65, 552, 1178, 1235
SstI	GAGCTC	1 cut(s)	1387
StyI	CCWWGG	1 cut(s)	1492
TaaI	ACNGT	3 cut(s)	258, 419, 888
TaiI	ACGT	1 cut(s)	932
TaqI	TCGA	5 cut(s)	9, 525, 744, 1046, 1509
TfiI	GAWTC	5 cut(s)	722, 1018, 1082, 1259, 1390
Tru1I	TTAA	3 cut(s)	123, 602, 1004
Tru9I	TTAA	3 cut(s)	123, 602, 1004
TscAI	CASTG	5 cut(s)	583, 756, 801, 891, 1132
TseFI	GTSAC	2 cut(s)	21, 1496
TseI	GCWGC	4 cut(s)	472, 508, 1272, 1399
Tsp45I	GTSAC	2 cut(s)	21, 1496
TspDTI	ATGAA	5 cut(s)	84, 716, 755, 992, 1452
TspGWI	ACGGA	2 cut(s)	223, 1097
TspRI	CASTG	5 cut(s)	583, 756, 801, 891, 1132
XapI	RAATTY	2 cut(s)	786, 1103
XceI	RCATGY	3 cut(s)	342, 1014, 1061
XmiI	GTMKAC	1 cut(s)	1520
XmnI	GAANNNNTTC	2 cut(s)	1337, 1458
XspI	CTAG	4 cut(s)	65, 552, 1178, 1235
Zsp2I	ATGCAT	1 cut(s)	340

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