Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001578

Physical Location & Seq

Genomic Coordinates Forward (+)

12998596 .. 13004245

Gene Structure 5650 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG131900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 903 bp

ATGCTCACCAGTCTCTCAAGTATCTGCCTTTATCGTCCTCTCCGAACTGCACTCTTCTTCTCCACCCACAACTTGCTAAGCAGTCCCATATCATCCAATACTTCACTTCATACTTGGTCTTGCTCTTCCTCTAGTTCCACCCAAGTCCAGATTGCCCCAGCTAATGTGGAGCAGAATGAGGAGCAGAGCATTGGTGTGCCTAAAGTTGATGTCTTGAAGCAGAAATTGGAGCTTCTTGGGATTATCTGTGATAGTTCTTGTGTGCCTGGACACTATAGTAATCTACTTTGTCCCAAGTGCAATGGTGGGCAGTCACTGGAGAGGAGCTTGTCTCTTTACATTGTCCAAAAAGGGGATCTAGCAAGGTGGAGATGTTTTAGAACTGATTGTAATTGGGCTGACAAGGTGTTTTTAGAAGGCAAGGCAGGACACAATGAGGTGAAGAAGAAAGAATTCCAGCCATTTAGGCAAATGACAGAGGAAGGCCTCAGGCTAGTACCAATAGGAGAAAAGGTAACGGCTTACTTCAATGAGAGGAAGATATCTGAGGAAACTCTGCGGAGAAATGCTGTAATGCAACTCTCTAATGATGTGCAACGCTCTAAGGAGGATGTCATTGCATTTACTTATAGACACAATGGAATACTTGTCGGTTGCAAGTATCGGACCCTAGAAAAAAGATTTTGGACGGAGAGGGGTTCAGATAAGATATTATATGGAATTGATGATATAAATGGTGCAGCTGAAATTATCATTGTTGAAGGTGAAATAGATAAGCTTTCTATGGAGGAAGCTGGATTCTGCAATTGTGTGAGTGCTCCTGGGGGTGGAGCAGGAAAGAATTCTCCTATATTGCCATCTATGGAAAAGGTGTGGGTTAACTACTCTAGAGCCTGCTTGTAG

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

300

Amino Acids

33.53

Weight (kDa)

7.93

Isoelectric Point (pI)

48.18

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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)
AciI	CCGC	1 cut(s)	559
AclWI	GGATC	1 cut(s)	363
AcsI	RAATTY	2 cut(s)	452, 841
AfaI	GTAC	1 cut(s)	498
AfiI	CCNNNNNNNGG	2 cut(s)	352, 827
AgsI	TTSAA	3 cut(s)	217, 529, 761
AjnI	CCWGG	2 cut(s)	265, 820
AjuI	GAANNNNNNNTTGG	2 cut(s)	209, 241
AluBI	AGCT	6 cut(s)	161, 232, 327, 743, 778, 794
AluI	AGCT	6 cut(s)	161, 232, 327, 743, 778, 794
Alw21I	GWGCWC	1 cut(s)	820
Alw26I	GTCTC	2 cut(s)	17, 336
AlwI	GGATC	1 cut(s)	363
AlwNI	CAGNNNCTG	1 cut(s)	316
AoxI	GGCC	1 cut(s)	484
ApeKI	GCWGC	1 cut(s)	740
ApoI	RAATTY	2 cut(s)	452, 841
Asp700I	GAANNNNTTC	2 cut(s)	452, 841
AspS9I	GGNCC	1 cut(s)	666
AsuHPI	GGTGA	2 cut(s)	451, 776
AvaII	GGWCC	1 cut(s)	666
AxyI	CCTNAGG	1 cut(s)	488
Bbv12I	GWGCWC	1 cut(s)	820
BbvI	GCAGC	1 cut(s)	752
BccI	CCATC	1 cut(s)	865
BceAI	ACGGC	1 cut(s)	534
BciT130I	CCWGG	2 cut(s)	267, 822
BcoDI	GTCTC	2 cut(s)	17, 336
BfaI	CTAG	5 cut(s)	132, 359, 494, 671, 888
BfmI	CTRYAG	1 cut(s)	274
BglI	GCCNNNNNGGC	1 cut(s)	466
BisI	GCNGC	1 cut(s)	741
BlpI	GCTNAGC	1 cut(s)	77
BlsI	GCNGC	1 cut(s)	742
Bme1390I	CCNGG	2 cut(s)	267, 822
Bme18I	GGWCC	1 cut(s)	666
BmgT120I	GGNCC	1 cut(s)	666
BmiI	GGNNCC	1 cut(s)	668
BmrFI	CCNGG	2 cut(s)	267, 822
BplI	GAGNNNNNCTC	2 cut(s)	316, 348
BpmI	CTGGAG	1 cut(s)	338
Bpu1102I	GCTNAGC	1 cut(s)	77
BsaJI	CCNNGG	1 cut(s)	821
BsaXI	ACNNNNNCTCC	2 cut(s)	498, 528
Bsc4I	CCNNNNNNNGG	2 cut(s)	352, 827
Bse1I	ACTGG	2 cut(s)	9, 321
Bse21I	CCTNAGG	1 cut(s)	488
Bse3DI	GCAATG	2 cut(s)	307, 615
BseBI	CCWGG	2 cut(s)	267, 822
BseDI	CCNNGG	1 cut(s)	821
BseGI	GGATG	2 cut(s)	92, 616
BseLI	CCNNNNNNNGG	2 cut(s)	352, 827
BseMI	GCAATG	2 cut(s)	307, 615
BseMII	CTCAG	2 cut(s)	502, 537
BseNI	ACTGG	2 cut(s)	9, 321
BseRI	GAGGAG	2 cut(s)	194, 337
BseXI	GCAGC	1 cut(s)	752
BseYI	CCCAGC	1 cut(s)	157
BsgI	GTGCAG	2 cut(s)	33, 759
BshFI	GGCC	1 cut(s)	486
BsiHKAI	GWGCWC	1 cut(s)	820
BslFI	GGGAC	2 cut(s)	69, 276
BslI	CCNNNNNNNGG	2 cut(s)	352, 827
BsmAI	GTCTC	2 cut(s)	17, 336
BsmFI	GGGAC	2 cut(s)	69, 276
BsnI	GGCC	1 cut(s)	486
Bsp1286I	GDGCHC	1 cut(s)	820
Bsp143I	GATC	1 cut(s)	355
Bsp1720I	GCTNAGC	1 cut(s)	77
BspACI	CCGC	1 cut(s)	559
BspANI	GGCC	1 cut(s)	486
BspCNI	CTCAG	2 cut(s)	501, 538
BspLI	GGNNCC	1 cut(s)	668
BspPI	GGATC	1 cut(s)	363
BspQI	GCTCTTC	1 cut(s)	130
BsrDI	GCAATG	2 cut(s)	307, 615
BsrI	ACTGG	2 cut(s)	9, 321
BssECI	CCNNGG	1 cut(s)	821
BssMI	GATC	1 cut(s)	355
Bst2UI	CCWGG	2 cut(s)	267, 822
Bst6I	CTCTTC	2 cut(s)	59, 130
BstC8I	GCNNGC	1 cut(s)	895
BstDEI	CTNAG	4 cut(s)	77, 488, 546, 603
BstF5I	GGATG	2 cut(s)	92, 616
BstKTI	GATC	1 cut(s)	358
BstMAI	GTCTC	2 cut(s)	17, 336
BstMBI	GATC	1 cut(s)	355
BstMWI	GCNNNNNNNGC	1 cut(s)	466
BstNI	CCWGG	2 cut(s)	267, 822
BstSCI	CCNGG	2 cut(s)	265, 820
BstSFI	CTRYAG	1 cut(s)	274
BstV1I	GCAGC	1 cut(s)	752
BstX2I	RGATCY	1 cut(s)	355
BstYI	RGATCY	1 cut(s)	355
Bsu36I	CCTNAGG	1 cut(s)	488
BsuRI	GGCC	1 cut(s)	486
BtsCI	GGATG	2 cut(s)	92, 616
BtsIMutI	CAGTG	1 cut(s)	314
Cac8I	GCNNGC	1 cut(s)	895
CaiI	CAGNNNCTG	1 cut(s)	316
Cfr13I	GGNCC	1 cut(s)	666
Csp6I	GTAC	1 cut(s)	497
CviQI	GTAC	1 cut(s)	497
DdeI	CTNAG	4 cut(s)	77, 488, 546, 603
DpnI	GATC	1 cut(s)	357
DpnII	GATC	1 cut(s)	355
Eam1104I	CTCTTC	2 cut(s)	59, 130
EarI	CTCTTC	2 cut(s)	59, 130
Eco147I	AGGCCT	1 cut(s)	486
Eco32I	GATATC	1 cut(s)	543
Eco47I	GGWCC	1 cut(s)	666
Eco81I	CCTNAGG	1 cut(s)	488
EcoRI	GAATTC	2 cut(s)	452, 841
EcoRII	CCWGG	2 cut(s)	265, 820
EcoRV	GATATC	1 cut(s)	543
FaqI	GGGAC	2 cut(s)	69, 276
Fnu4HI	GCNGC	1 cut(s)	741
FokI	GGATG	2 cut(s)	79, 623
Fsp4HI	GCNGC	1 cut(s)	741
FspBI	CTAG	5 cut(s)	132, 359, 494, 671, 888
GluI	GCNGC	1 cut(s)	741
GsaI	CCCAGC	1 cut(s)	161
GsuI	CTGGAG	1 cut(s)	338
HaeIII	GGCC	1 cut(s)	486
HincII	GTYRAC	1 cut(s)	880
HindII	GTYRAC	1 cut(s)	880
HindIII	AAGCTT	1 cut(s)	776
HinfI	GANTC	1 cut(s)	798
HpaI	GTTAAC	1 cut(s)	880
HphI	GGTGA	2 cut(s)	451, 776
Hpy166II	GTNNAC	1 cut(s)	880
Hpy188I	TCNGA	4 cut(s)	44, 547, 666, 703
Hpy188III	TCNNGA	3 cut(s)	148, 214, 888
Hpy8I	GTNNAC	1 cut(s)	880
HpyAV	CCTTC	3 cut(s)	410, 476, 755
HpyCH4V	TGCA	8 cut(s)	50, 300, 577, 595, 620, 657, 740, 804
HpyF10VI	GCNNNNNNNGC	1 cut(s)	466
HpyF3I	CTNAG	4 cut(s)	77, 488, 546, 603
KspAI	GTTAAC	1 cut(s)	880
Kzo9I	GATC	1 cut(s)	355
LguI	GCTCTTC	1 cut(s)	130
LmnI	GCTCC	6 cut(s)	169, 181, 229, 324, 823, 830
Lsp1109I	GCAGC	1 cut(s)	752
MaeI	CTAG	5 cut(s)	132, 359, 494, 671, 888
MaeIII	GTNAC	2 cut(s)	312, 514
MalI	GATC	1 cut(s)	357
MboI	GATC	1 cut(s)	355
MboII	GAAGA	6 cut(s)	46, 49, 117, 454, 457, 550
MfeI	CAATTG	1 cut(s)	805
MflI	RGATCY	1 cut(s)	355
MhlI	GDGCHC	1 cut(s)	820
MluCI	AATT	7 cut(s)	224, 391, 452, 720, 747, 805, 841
MroXI	GAANNNNTTC	2 cut(s)	452, 841
MseI	TTAA	1 cut(s)	879
MslI	CAYNNNNRTG	1 cut(s)	194
MspA1I	CMGCKG	1 cut(s)	743
MspR9I	CCNGG	2 cut(s)	267, 822
MunI	CAATTG	1 cut(s)	805
MvaI	CCWGG	2 cut(s)	267, 822
MwoI	GCNNNNNNNGC	1 cut(s)	466
NdeII	GATC	1 cut(s)	355
NlaIV	GGNNCC	1 cut(s)	668
NmuCI	GTSAC	1 cut(s)	312
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
PkrI	GCNGC	1 cut(s)	742
Psp6I	CCWGG	2 cut(s)	265, 820
PspFI	CCCAGC	1 cut(s)	157
PspGI	CCWGG	2 cut(s)	265, 820
PspN4I	GGNNCC	1 cut(s)	668
PspPI	GGNCC	1 cut(s)	666
PstNI	CAGNNNCTG	1 cut(s)	316
PsuI	RGATCY	1 cut(s)	355
PvuII	CAGCTG	1 cut(s)	743
RsaI	GTAC	1 cut(s)	498
RsaNI	GTAC	1 cut(s)	497
RseI	CAYNNNNRTG	1 cut(s)	194
SapI	GCTCTTC	1 cut(s)	130
SaqAI	TTAA	1 cut(s)	879
SatI	GCNGC	1 cut(s)	741
Sau3AI	GATC	1 cut(s)	355
Sau96I	GGNCC	1 cut(s)	666
ScrFI	CCNGG	2 cut(s)	267, 822
SduI	GDGCHC	1 cut(s)	820
SfcI	CTRYAG	1 cut(s)	274
SinI	GGWCC	1 cut(s)	666
SmiMI	CAYNNNNRTG	1 cut(s)	194
SmlI	CTYRAG	1 cut(s)	16
SmoI	CTYRAG	1 cut(s)	16
Sse9I	AATT	7 cut(s)	224, 391, 452, 720, 747, 805, 841
SseBI	AGGCCT	1 cut(s)	486
SsiI	CCGC	1 cut(s)	559
SspMI	CTAG	5 cut(s)	132, 359, 494, 671, 888
StuI	AGGCCT	1 cut(s)	486
StyD4I	CCNGG	2 cut(s)	265, 820
TasI	AATT	7 cut(s)	224, 391, 452, 720, 747, 805, 841
TfiI	GAWTC	1 cut(s)	798
Tru1I	TTAA	1 cut(s)	879
Tru9I	TTAA	1 cut(s)	879
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	1 cut(s)	98
TspGWI	ACGGA	1 cut(s)	704
TspRI	CASTG	1 cut(s)	321
VpaK11BI	GGWCC	1 cut(s)	666
XapI	RAATTY	2 cut(s)	452, 841
XbaI	TCTAGA	1 cut(s)	887
XmnI	GAANNNNTTC	2 cut(s)	452, 841
XspI	CTAG	5 cut(s)	132, 359, 494, 671, 888

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