Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001578

Physical Location & Seq

Genomic Coordinates Forward (+)

13205088 .. 13209860

Gene Structure 4773 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG133900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1158 bp

ATGCTCACCAGTCTCTCAAGTATCTGCCTTTATCGTCCTCTCCGAACTGCACTCTTCTTCTCCACCCACAACTTGCTAAGCAGTCCCATATCATCCAATACTTCACTTCATACTTGGTCTTGCTCTTCCTCTAGTTCCACCCAGGTCCAAATTGCACCAGCTAATGTGGAGCAGAATGAGGAGCAGAGCATTGGTGTGCCTAAAGTTGATGTCTTGAAGCAGAAATTGGAGCTTCTTGGAATTATCTGTGATAGTTCTTGTGTGCCTGGGCACTATAGTAATCTACTTTGTCCCAAGTGCAATGGTGGGCTGTCACTGGAGAGGAGCTTGTCTCTTTACATTGTCCAAAAAGGGGATTTAGCAAGGTGGAGGTGTTTTCGAACCGATTGTAATTGGGCTGACAAGGTGTTTTTAGAAGGCAAGGCAGGACACAATGAGGTGAAGAAGAAAGAATTCCTGCCATTTAGGCAAATGACAGAGGAAGGCCTCAGGCTAGTACCAATAGGAGAAAAGGTAACGGCTTACTTCAATGAGAGGAAGATATCTGAGGAAACTCTGCAGAGAAATGCTGTAATGCAACTCTCTAATGATGTGCAACACTCTAAGGAGGATGTCATTGCATTTACTTATAGACACAAAGGACTAATTGTCGGTTGCAAGTACCGGACCCTAGAAAAAAGATTTTGGACGGAGAGGGGTTCAGAGAAGATATTATATGGAATTGATGATATAAATGATGCAGCTGAAATTATCATTGTTGAAGGTGAAATAGATAAGCTTTCTATGGAGGAAGCTGGATTCTGCAATTGTGTGAGTGCTCCTGGGGGTGGAGCAGGAAAGAATTCTCCTACATTGCCATCTATGGAAAAGGACACTACATTTCAGTACCTGTGGAATTGCAAACAGGAGTTGGATAAGGTTTCTCGGATTATCCTGGCAACCGACAATGATGCAACAGGCCAAGCTTTGGCCAGAGCACTAGCACGCCGCCTCGGGACAAACAGATGTTGGCAAGTAAGCTGGCCAAAGAAAGATGAATTCAGCTGTTTCAAAGATGCTAATGAGGTTCTCAAATATATGGGACCTGATGCTTTGAGAAAGGTCATTGAAAGTGCAGAACCGTATCAGCTATGCATCTCAGAGACTGAGACAAAGTAG

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

Toprim_4

Protein Analysis

385

Amino Acids

43.25

Weight (kDa)

6.62

Isoelectric Point (pI)

43.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Toprim_4	PF13662	249 - 332	5e-10	Toprim domain
Toprim	PF01751	249 - 328	3.7e-09	Toprim domain
Toprim_2	PF13155	251 - 356	1.6e-07	Toprim-like

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: OG0001578)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G30660 AT1G30660 AT1G30660 AT1G30680
fragaria_vesca	FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11200 FvH4_3g11220 FvH4_3g11220
malus_domestica	MD05G1265600.v1.1 MD10G1243800.v1.1
prunus_persica	Prupe.4G099700_v2.0.a1 Prupe.4G099700_v2.0.a1 Prupe.4G099700_v2.0.a1 Prupe.4G099700_v2.0.a1 Prupe.4G099900_v2.0.a1 Prupe.4G099900_v2.0.a1
pyrus_communis	pycom05g24970 pycom10g20390
rosa_chinensis	RchiOBHm_Chr5g0018141 RchiOBHm_Chr5g0018171
rosa_laevigata	RLG00000032341 RLG00000032343
rosa_multiflora	Rmu_sc0006594.1_g000001 Rmu_sc0013020.1_g000001 Rmu_sc0013020.1_g000004
rosa_roxburghii	Rroxscaffold_1G00059480 Rroxscaffold_1G00059500
rosa_rugosa	Rorug05G0040700 Rorug05G0040900
rosa_samantha	Rh5AG133500 Rh5AG133800 Rh5BG131900 Rh5BG132300 Rh5CG144200 Rh5CG144500 Rh5DG133900 Rh5DG134200
rosa_wichuraiana	Rw5G011640 Rw5G011690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	967
AciI	CCGC	1 cut(s)	988
AcoI	YGGCCR	2 cut(s)	969, 1022
AcsI	RAATTY	3 cut(s)	452, 841, 1037
AfaI	GTAC	3 cut(s)	498, 662, 887
AfiI	CCNNNNNNNGG	3 cut(s)	352, 827, 967
AgsI	TTSAA	5 cut(s)	217, 529, 761, 1051, 1109
AhdI	GACNNNNNGTC	1 cut(s)	647
AjnI	CCWGG	4 cut(s)	141, 265, 820, 933
AjuI	GAANNNNNNNTTGG	2 cut(s)	209, 241
Alw21I	GWGCWC	2 cut(s)	820, 979
Alw26I	GTCTC	4 cut(s)	17, 336, 1136, 1142
AlwNI	CAGNNNCTG	2 cut(s)	889, 1145
Ama87I	CYCGRG	1 cut(s)	992
AoxI	GGCC	4 cut(s)	484, 958, 969, 1022
ApeKI	GCWGC	1 cut(s)	740
ApoI	RAATTY	3 cut(s)	452, 841, 1037
Asp700I	GAANNNNTTC	2 cut(s)	452, 841
AspS9I	GGNCC	3 cut(s)	145, 666, 1082
AsuHPI	GGTGA	2 cut(s)	451, 776
AsuII	TTCGAA	1 cut(s)	379
AvaI	CYCGRG	1 cut(s)	992
AvaII	GGWCC	3 cut(s)	145, 666, 1082
AxyI	CCTNAGG	1 cut(s)	488
BaeGI	GKGCMC	1 cut(s)	273
BalI	TGGCCA	2 cut(s)	971, 1024
Bbv12I	GWGCWC	2 cut(s)	820, 979
BbvI	GCAGC	1 cut(s)	752
BccI	CCATC	1 cut(s)	865
BceAI	ACGGC	1 cut(s)	534
BcgI	CGANNNNNNTGC	2 cut(s)	932, 966
BciT130I	CCWGG	4 cut(s)	143, 267, 822, 935
BcoDI	GTCTC	4 cut(s)	17, 336, 1136, 1142
BfaI	CTAG	4 cut(s)	132, 494, 671, 980
BfmI	CTRYAG	2 cut(s)	274, 557
BglI	GCCNNNNNGGC	1 cut(s)	466
BisI	GCNGC	2 cut(s)	741, 988
BlpI	GCTNAGC	1 cut(s)	77
BlsI	GCNGC	2 cut(s)	742, 989
Bme1390I	CCNGG	4 cut(s)	143, 267, 822, 935
Bme18I	GGWCC	3 cut(s)	145, 666, 1082
BmeRI	GACNNNNNGTC	1 cut(s)	647
BmeT110I	CYCGRG	1 cut(s)	992
BmgT120I	GGNCC	3 cut(s)	145, 666, 1082
BmiI	GGNNCC	2 cut(s)	668, 1083
BmrFI	CCNGG	4 cut(s)	143, 267, 822, 935
BmsI	GCATC	5 cut(s)	727, 940, 1045, 1078, 1143
BplI	GAGNNNNNCTC	2 cut(s)	316, 348
BpmI	CTGGAG	1 cut(s)	338
Bpu1102I	GCTNAGC	1 cut(s)	77
Bpu14I	TTCGAA	1 cut(s)	379
BsaJI	CCNNGG	4 cut(s)	141, 266, 821, 991
BsaWI	WCCGGW	1 cut(s)	663
BsaXI	ACNNNNNCTCC	2 cut(s)	498, 528
Bsc4I	CCNNNNNNNGG	3 cut(s)	352, 827, 967
Bse1I	ACTGG	2 cut(s)	9, 321
Bse21I	CCTNAGG	1 cut(s)	488
Bse3DI	GCAATG	3 cut(s)	307, 615, 851
BseBI	CCWGG	4 cut(s)	143, 267, 822, 935
BseDI	CCNNGG	4 cut(s)	141, 266, 821, 991
BseGI	GGATG	2 cut(s)	92, 616
BseLI	CCNNNNNNNGG	3 cut(s)	352, 827, 967
BseMI	GCAATG	3 cut(s)	307, 615, 851
BseMII	CTCAG	4 cut(s)	502, 537, 1137, 1152
BseNI	ACTGG	2 cut(s)	9, 321
BseRI	GAGGAG	2 cut(s)	194, 337
BseSI	GKGCMC	1 cut(s)	273
BseXI	GCAGC	1 cut(s)	752
BsgI	GTGCAG	2 cut(s)	33, 1134
BshFI	GGCC	4 cut(s)	486, 960, 971, 1024
BsiHKAI	GWGCWC	2 cut(s)	820, 979
BsiHKCI	CYCGRG	1 cut(s)	992
BsiSI	CCGG	1 cut(s)	664
BslFI	GGGAC	4 cut(s)	69, 276, 1009, 1095
BslI	CCNNNNNNNGG	3 cut(s)	352, 827, 967
BsmAI	GTCTC	4 cut(s)	17, 336, 1136, 1142
BsmFI	GGGAC	4 cut(s)	69, 276, 1009, 1095
BsnI	GGCC	4 cut(s)	486, 960, 971, 1024
BsoBI	CYCGRG	1 cut(s)	992
Bsp119I	TTCGAA	1 cut(s)	379
Bsp1286I	GDGCHC	3 cut(s)	273, 820, 979
Bsp1720I	GCTNAGC	1 cut(s)	77
BspACI	CCGC	1 cut(s)	988
BspANI	GGCC	4 cut(s)	486, 960, 971, 1024
BspCNI	CTCAG	4 cut(s)	501, 538, 1138, 1151
BspLI	GGNNCC	2 cut(s)	668, 1083
BspMAI	CTGCAG	1 cut(s)	561
BspQI	GCTCTTC	1 cut(s)	130
BspT104I	TTCGAA	1 cut(s)	379
BsrDI	GCAATG	3 cut(s)	307, 615, 851
BsrI	ACTGG	2 cut(s)	9, 321
BssECI	CCNNGG	4 cut(s)	141, 266, 821, 991
Bst2UI	CCWGG	4 cut(s)	143, 267, 822, 935
Bst4CI	ACNGT	1 cut(s)	1122
Bst6I	CTCTTC	2 cut(s)	59, 130
BstBI	TTCGAA	1 cut(s)	379
BstC8I	GCNNGC	2 cut(s)	985, 1022
BstDEI	CTNAG	6 cut(s)	77, 488, 546, 603, 1138, 1146
BstF5I	GGATG	2 cut(s)	92, 616
BstMAI	GTCTC	4 cut(s)	17, 336, 1136, 1142
BstMWI	GCNNNNNNNGC	1 cut(s)	466
BstNI	CCWGG	4 cut(s)	143, 267, 822, 935
BstSCI	CCNGG	4 cut(s)	141, 265, 820, 933
BstSFI	CTRYAG	2 cut(s)	274, 557
BstSLI	GKGCMC	1 cut(s)	273
BstV1I	GCAGC	1 cut(s)	752
Bsu36I	CCTNAGG	1 cut(s)	488
BsuRI	GGCC	4 cut(s)	486, 960, 971, 1024
BtsCI	GGATG	2 cut(s)	92, 616
BtsIMutI	CAGTG	1 cut(s)	314
Cac8I	GCNNGC	2 cut(s)	985, 1022
CaiI	CAGNNNCTG	2 cut(s)	889, 1145
Cfr13I	GGNCC	3 cut(s)	145, 666, 1082
Csp6I	GTAC	3 cut(s)	497, 661, 886
CviQI	GTAC	3 cut(s)	497, 661, 886
DdeI	CTNAG	6 cut(s)	77, 488, 546, 603, 1138, 1146
DriI	GACNNNNNGTC	1 cut(s)	647
EaeI	YGGCCR	2 cut(s)	969, 1022
Eam1104I	CTCTTC	2 cut(s)	59, 130
Eam1105I	GACNNNNNGTC	1 cut(s)	647
EarI	CTCTTC	2 cut(s)	59, 130
Eco147I	AGGCCT	1 cut(s)	486
Eco32I	GATATC	1 cut(s)	543
Eco47I	GGWCC	3 cut(s)	145, 666, 1082
Eco81I	CCTNAGG	1 cut(s)	488
Eco88I	CYCGRG	1 cut(s)	992
EcoO109I	RGGNCCY	1 cut(s)	1082
EcoRI	GAATTC	3 cut(s)	452, 841, 1037
EcoRII	CCWGG	4 cut(s)	141, 265, 820, 933
EcoRV	GATATC	1 cut(s)	543
EcoT22I	ATGCAT	1 cut(s)	1136
FaqI	GGGAC	4 cut(s)	69, 276, 1009, 1095
Fnu4HI	GCNGC	2 cut(s)	741, 988
FokI	GGATG	2 cut(s)	79, 623
Fsp4HI	GCNGC	2 cut(s)	741, 988
FspBI	CTAG	4 cut(s)	132, 494, 671, 980
GluI	GCNGC	2 cut(s)	741, 988
GsuI	CTGGAG	1 cut(s)	338
HaeIII	GGCC	4 cut(s)	486, 960, 971, 1024
HapII	CCGG	1 cut(s)	664
HindIII	AAGCTT	2 cut(s)	776, 963
HinfI	GANTC	1 cut(s)	798
HpaII	CCGG	1 cut(s)	664
HphI	GGTGA	2 cut(s)	451, 776
Hpy188I	TCNGA	5 cut(s)	44, 547, 703, 927, 1141
Hpy188III	TCNNGA	2 cut(s)	214, 994
HpyAV	CCTTC	3 cut(s)	410, 476, 755
HpyCH4III	ACNGT	1 cut(s)	1122
HpyF10VI	GCNNNNNNNGC	1 cut(s)	466
HpyF3I	CTNAG	6 cut(s)	77, 488, 546, 603, 1138, 1146
LguI	GCTCTTC	1 cut(s)	130
LmnI	GCTCC	6 cut(s)	169, 181, 229, 324, 823, 830
Lsp1109I	GCAGC	1 cut(s)	752
LweI	GCATC	5 cut(s)	727, 940, 1045, 1078, 1143
MaeI	CTAG	4 cut(s)	132, 494, 671, 980
MaeIII	GTNAC	2 cut(s)	312, 514
MboII	GAAGA	7 cut(s)	46, 49, 117, 454, 457, 550, 718
MfeI	CAATTG	1 cut(s)	805
MhlI	GDGCHC	3 cut(s)	273, 820, 979
MlsI	TGGCCA	2 cut(s)	971, 1024
MluNI	TGGCCA	2 cut(s)	971, 1024
MmeI	TCCRAC	1 cut(s)	891
Mox20I	TGGCCA	2 cut(s)	971, 1024
Mph1103I	ATGCAT	1 cut(s)	1136
MroXI	GAANNNNTTC	2 cut(s)	452, 841
MscI	TGGCCA	2 cut(s)	971, 1024
MslI	CAYNNNNRTG	1 cut(s)	194
Msp20I	TGGCCA	2 cut(s)	971, 1024
MspA1I	CMGCKG	2 cut(s)	743, 1044
MspI	CCGG	1 cut(s)	664
MspR9I	CCNGG	4 cut(s)	143, 267, 822, 935
MunI	CAATTG	1 cut(s)	805
MvaI	CCWGG	4 cut(s)	143, 267, 822, 935
MwoI	GCNNNNNNNGC	1 cut(s)	466
NlaIV	GGNNCC	2 cut(s)	668, 1083
NmuCI	GTSAC	1 cut(s)	312
NsiI	ATGCAT	1 cut(s)	1136
NspV	TTCGAA	1 cut(s)	379
PceI	AGGCCT	1 cut(s)	486
PciSI	GCTCTTC	1 cut(s)	130
PcsI	WCGNNNNNNNCGW	1 cut(s)	40
PdmI	GAANNNNTTC	2 cut(s)	452, 841
PfeI	GAWTC	1 cut(s)	798
PflMI	CCANNNNNTGG	1 cut(s)	967
PkrI	GCNGC	2 cut(s)	742, 989
PpuMI	RGGWCCY	1 cut(s)	1082
Psp5II	RGGWCCY	1 cut(s)	1082
Psp6I	CCWGG	4 cut(s)	141, 265, 820, 933
PspGI	CCWGG	4 cut(s)	141, 265, 820, 933
PspN4I	GGNNCC	2 cut(s)	668, 1083
PspPI	GGNCC	3 cut(s)	145, 666, 1082
PspPPI	RGGWCCY	1 cut(s)	1082
PstI	CTGCAG	1 cut(s)	561
PstNI	CAGNNNCTG	2 cut(s)	889, 1145
PvuII	CAGCTG	2 cut(s)	743, 1044
RsaI	GTAC	3 cut(s)	498, 662, 887
RsaNI	GTAC	3 cut(s)	497, 661, 886
RseI	CAYNNNNRTG	1 cut(s)	194
SapI	GCTCTTC	1 cut(s)	130
SatI	GCNGC	2 cut(s)	741, 988
Sau96I	GGNCC	3 cut(s)	145, 666, 1082
ScrFI	CCNGG	4 cut(s)	143, 267, 822, 935
SduI	GDGCHC	3 cut(s)	273, 820, 979
SfaNI	GCATC	5 cut(s)	727, 940, 1045, 1078, 1143
SfcI	CTRYAG	2 cut(s)	274, 557
SfuI	TTCGAA	1 cut(s)	379
SinI	GGWCC	3 cut(s)	145, 666, 1082
SmiMI	CAYNNNNRTG	1 cut(s)	194
SmlI	CTYRAG	1 cut(s)	16
SmoI	CTYRAG	1 cut(s)	16
SseBI	AGGCCT	1 cut(s)	486
SsiI	CCGC	1 cut(s)	988
SspMI	CTAG	4 cut(s)	132, 494, 671, 980
StuI	AGGCCT	1 cut(s)	486
StyD4I	CCNGG	4 cut(s)	141, 265, 820, 933
TaaI	ACNGT	1 cut(s)	1122
TaqI	TCGA	1 cut(s)	379
TauI	GCSGC	1 cut(s)	990
TfiI	GAWTC	1 cut(s)	798
TscAI	CASTG	1 cut(s)	321
TseFI	GTSAC	1 cut(s)	312
TseI	GCWGC	1 cut(s)	740
Tsp45I	GTSAC	1 cut(s)	312
TspDTI	ATGAA	2 cut(s)	98, 1050
TspGWI	ACGGA	1 cut(s)	704
TspRI	CASTG	1 cut(s)	321
Van91I	CCANNNNNTGG	1 cut(s)	967
VpaK11BI	GGWCC	3 cut(s)	145, 666, 1082
XapI	RAATTY	3 cut(s)	452, 841, 1037
XmnI	GAANNNNTTC	2 cut(s)	452, 841
XspI	CTAG	4 cut(s)	132, 494, 671, 980
Zsp2I	ATGCAT	1 cut(s)	1136

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