Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001578

Physical Location & Seq

Genomic Coordinates Forward (+)

12830520 .. 12835875

Gene Structure 5356 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG144200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 891 bp

ATGCTCACCAATCTCTCAAGTATCTGCCTTTATCGTCCTCTCCGAACTGCACTCTTCTTCTCCACCCACAACTTGCTAAGCAGTCCCATATCATCCAATACTTCACTCCATATTTGGTCTTGCTCTTCCTCTAGTTCCACCCAAGTCCAAATTGCACCAGCTAATGTGGAGCAGAGCATTGGTGTGCCTAAAGTTGATGTCTTGAAGCAGAAATTGGAGCTTCTTGGGATTATCTGTGATAGTTCTTGTGTGCCTGGACACTATAGTAATCTACTGTGTCCCAAGTGCAATGGTGGGCGGTCACTGGAGAGGAGCTTGTCTCTTTACATTGTCCAAAAAGGGGATCTAGCAAGGTGGAGATGTTTTCGAACTGATTGTAATTGGGCTGACAAGGTGTTTTTAGAAGGCAAGGCAGGACACAATGAGGTGAAGAAGAAAGAATTCCAGCCATTTAGGCAAATGACAGAGGAAGGCCTCAGGCTAGTACCAATAGGAGAAAAGGTAACGGCTTATTTCAATGAGAGGAAGATATCTGAGGAAACTCTGCGGAGAAATGCTGTAATGCAACTCTCTAATGATGTGCAACGCTCTAAGGAGGATGTCATTGCATTTACTTATAGACACAAAGGACTAATTGTTGGTTGCAAGTACCGGACCCTAGAAAAAAGATTTTGGACGGAGAGGGGTTCAGAGAAGATATTATATGGAATTGATGATATAAATGATGCAGCTGAAATTATCATTGTTGAAGGTGAAATAGATAAGCTTTCTATGGAGGAAGCTGGATTCTGCAATTGTGTGAGTGCTCCTGGGGGTGGAGCAGGAAAGAATTCTCCTACATTGCCATCTATGGAAAAGGTGTGGGATAACTACTCTAGAGCCTGCTGTTAG

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

296

Amino Acids

33.17

Weight (kDa)

8.36

Isoelectric Point (pI)

48.97

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

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	2 cut(s)	298, 547
AclWI	GGATC	1 cut(s)	351
AcsI	RAATTY	2 cut(s)	440, 829
AfaI	GTAC	2 cut(s)	486, 650
AfiI	CCNNNNNNNGG	2 cut(s)	340, 815
AgsI	TTSAA	3 cut(s)	205, 517, 749
AjnI	CCWGG	2 cut(s)	253, 808
AjuI	GAANNNNNNNTTGG	2 cut(s)	197, 229
AluBI	AGCT	6 cut(s)	161, 220, 315, 731, 766, 782
AluI	AGCT	6 cut(s)	161, 220, 315, 731, 766, 782
Alw21I	GWGCWC	1 cut(s)	808
Alw26I	GTCTC	1 cut(s)	324
AlwI	GGATC	1 cut(s)	351
AoxI	GGCC	1 cut(s)	472
ApeKI	GCWGC	1 cut(s)	728
ApoI	RAATTY	2 cut(s)	440, 829
Asp700I	GAANNNNTTC	2 cut(s)	440, 829
AspS9I	GGNCC	1 cut(s)	654
AsuHPI	GGTGA	2 cut(s)	439, 764
AsuII	TTCGAA	1 cut(s)	367
AvaII	GGWCC	1 cut(s)	654
AxyI	CCTNAGG	1 cut(s)	476
Bbv12I	GWGCWC	1 cut(s)	808
BbvI	GCAGC	1 cut(s)	740
BccI	CCATC	1 cut(s)	853
BceAI	ACGGC	1 cut(s)	522
BciT130I	CCWGG	2 cut(s)	255, 810
BcoDI	GTCTC	1 cut(s)	324
BfaI	CTAG	5 cut(s)	132, 347, 482, 659, 876
BfmI	CTRYAG	1 cut(s)	262
BglI	GCCNNNNNGGC	1 cut(s)	454
BisI	GCNGC	1 cut(s)	729
BlpI	GCTNAGC	1 cut(s)	77
BlsI	GCNGC	1 cut(s)	730
Bme1390I	CCNGG	2 cut(s)	255, 810
Bme18I	GGWCC	1 cut(s)	654
BmgT120I	GGNCC	1 cut(s)	654
BmiI	GGNNCC	1 cut(s)	656
BmrFI	CCNGG	2 cut(s)	255, 810
BmsI	GCATC	1 cut(s)	715
BplI	GAGNNNNNCTC	2 cut(s)	304, 336
BpmI	CTGGAG	1 cut(s)	326
Bpu1102I	GCTNAGC	1 cut(s)	77
Bpu14I	TTCGAA	1 cut(s)	367
BsaJI	CCNNGG	1 cut(s)	809
BsaWI	WCCGGW	1 cut(s)	651
BsaXI	ACNNNNNCTCC	2 cut(s)	486, 516
Bsc4I	CCNNNNNNNGG	2 cut(s)	340, 815
Bse1I	ACTGG	1 cut(s)	309
Bse21I	CCTNAGG	1 cut(s)	476
Bse3DI	GCAATG	3 cut(s)	295, 603, 839
BseBI	CCWGG	2 cut(s)	255, 810
BseDI	CCNNGG	1 cut(s)	809
BseGI	GGATG	2 cut(s)	92, 604
BseLI	CCNNNNNNNGG	2 cut(s)	340, 815
BseMI	GCAATG	3 cut(s)	295, 603, 839
BseMII	CTCAG	2 cut(s)	490, 525
BseNI	ACTGG	1 cut(s)	309
BseRI	GAGGAG	1 cut(s)	325
BseXI	GCAGC	1 cut(s)	740
BsgI	GTGCAG	1 cut(s)	33
BshFI	GGCC	1 cut(s)	474
BsiHKAI	GWGCWC	1 cut(s)	808
BsiSI	CCGG	1 cut(s)	652
BslFI	GGGAC	2 cut(s)	69, 264
BslI	CCNNNNNNNGG	2 cut(s)	340, 815
BsmAI	GTCTC	1 cut(s)	324
BsmFI	GGGAC	2 cut(s)	69, 264
BsnI	GGCC	1 cut(s)	474
Bsp119I	TTCGAA	1 cut(s)	367
Bsp1286I	GDGCHC	1 cut(s)	808
Bsp143I	GATC	1 cut(s)	343
Bsp1720I	GCTNAGC	1 cut(s)	77
BspACI	CCGC	2 cut(s)	298, 547
BspANI	GGCC	1 cut(s)	474
BspCNI	CTCAG	2 cut(s)	489, 526
BspLI	GGNNCC	1 cut(s)	656
BspPI	GGATC	1 cut(s)	351
BspQI	GCTCTTC	1 cut(s)	130
BspT104I	TTCGAA	1 cut(s)	367
BsrDI	GCAATG	3 cut(s)	295, 603, 839
BsrI	ACTGG	1 cut(s)	309
BssECI	CCNNGG	1 cut(s)	809
BssMI	GATC	1 cut(s)	343
Bst2UI	CCWGG	2 cut(s)	255, 810
Bst4CI	ACNGT	1 cut(s)	276
Bst6I	CTCTTC	2 cut(s)	59, 130
BstBI	TTCGAA	1 cut(s)	367
BstC8I	GCNNGC	1 cut(s)	883
BstDEI	CTNAG	4 cut(s)	77, 476, 534, 591
BstF5I	GGATG	2 cut(s)	92, 604
BstKTI	GATC	1 cut(s)	346
BstMAI	GTCTC	1 cut(s)	324
BstMBI	GATC	1 cut(s)	343
BstMWI	GCNNNNNNNGC	1 cut(s)	454
BstNI	CCWGG	2 cut(s)	255, 810
BstSCI	CCNGG	2 cut(s)	253, 808
BstSFI	CTRYAG	1 cut(s)	262
BstV1I	GCAGC	1 cut(s)	740
BstX2I	RGATCY	1 cut(s)	343
BstYI	RGATCY	1 cut(s)	343
Bsu36I	CCTNAGG	1 cut(s)	476
BsuRI	GGCC	1 cut(s)	474
BtsCI	GGATG	2 cut(s)	92, 604
BtsIMutI	CAGTG	1 cut(s)	302
Cac8I	GCNNGC	1 cut(s)	883
Cfr13I	GGNCC	1 cut(s)	654
Csp6I	GTAC	2 cut(s)	485, 649
CviQI	GTAC	2 cut(s)	485, 649
DdeI	CTNAG	4 cut(s)	77, 476, 534, 591
DpnI	GATC	1 cut(s)	345
DpnII	GATC	1 cut(s)	343
Eam1104I	CTCTTC	2 cut(s)	59, 130
EarI	CTCTTC	2 cut(s)	59, 130
Eco147I	AGGCCT	1 cut(s)	474
Eco32I	GATATC	1 cut(s)	531
Eco47I	GGWCC	1 cut(s)	654
Eco81I	CCTNAGG	1 cut(s)	476
EcoRI	GAATTC	2 cut(s)	440, 829
EcoRII	CCWGG	2 cut(s)	253, 808
EcoRV	GATATC	1 cut(s)	531
FaiI	YATR	9 cut(s)	89, 111, 264, 618, 703, 705, 719, 773, 851
FaqI	GGGAC	2 cut(s)	69, 264
Fnu4HI	GCNGC	1 cut(s)	729
FokI	GGATG	2 cut(s)	79, 611
Fsp4HI	GCNGC	1 cut(s)	729
FspBI	CTAG	5 cut(s)	132, 347, 482, 659, 876
GluI	GCNGC	1 cut(s)	729
GsuI	CTGGAG	1 cut(s)	326
HaeIII	GGCC	1 cut(s)	474
HapII	CCGG	1 cut(s)	652
HindIII	AAGCTT	1 cut(s)	764
HinfI	GANTC	1 cut(s)	786
HpaII	CCGG	1 cut(s)	652
HphI	GGTGA	2 cut(s)	439, 764
Hpy188I	TCNGA	3 cut(s)	44, 535, 691
Hpy188III	TCNNGA	2 cut(s)	202, 876
HpyAV	CCTTC	3 cut(s)	398, 464, 743
HpyCH4III	ACNGT	1 cut(s)	276
HpyCH4V	TGCA	9 cut(s)	50, 155, 288, 565, 583, 608, 645, 728, 792
HpyF10VI	GCNNNNNNNGC	1 cut(s)	454
HpyF3I	CTNAG	4 cut(s)	77, 476, 534, 591
Kzo9I	GATC	1 cut(s)	343
LguI	GCTCTTC	1 cut(s)	130
LmnI	GCTCC	5 cut(s)	169, 217, 312, 811, 818
Lsp1109I	GCAGC	1 cut(s)	740
LweI	GCATC	1 cut(s)	715
MaeI	CTAG	5 cut(s)	132, 347, 482, 659, 876
MaeIII	GTNAC	2 cut(s)	300, 502
MalI	GATC	1 cut(s)	345
MboI	GATC	1 cut(s)	343
MboII	GAAGA	7 cut(s)	46, 49, 117, 442, 445, 538, 706
MfeI	CAATTG	1 cut(s)	793
MflI	RGATCY	1 cut(s)	343
MhlI	GDGCHC	1 cut(s)	808
MluCI	AATT	9 cut(s)	150, 212, 379, 440, 633, 708, 735, 793, 829
MroXI	GAANNNNTTC	2 cut(s)	440, 829
MslI	CAYNNNNRTG	1 cut(s)	182
MspA1I	CMGCKG	1 cut(s)	731
MspI	CCGG	1 cut(s)	652
MspR9I	CCNGG	2 cut(s)	255, 810
MunI	CAATTG	1 cut(s)	793
MvaI	CCWGG	2 cut(s)	255, 810
MwoI	GCNNNNNNNGC	1 cut(s)	454
NdeII	GATC	1 cut(s)	343
NlaIV	GGNNCC	1 cut(s)	656
NmuCI	GTSAC	1 cut(s)	300
NspV	TTCGAA	1 cut(s)	367
PceI	AGGCCT	1 cut(s)	474
PciSI	GCTCTTC	1 cut(s)	130
PcsI	WCGNNNNNNNCGW	1 cut(s)	40
PdmI	GAANNNNTTC	2 cut(s)	440, 829
PfeI	GAWTC	1 cut(s)	786
PkrI	GCNGC	1 cut(s)	730
Psp6I	CCWGG	2 cut(s)	253, 808
PspGI	CCWGG	2 cut(s)	253, 808
PspN4I	GGNNCC	1 cut(s)	656
PspPI	GGNCC	1 cut(s)	654
PsuI	RGATCY	1 cut(s)	343
PvuII	CAGCTG	1 cut(s)	731
RsaI	GTAC	2 cut(s)	486, 650
RsaNI	GTAC	2 cut(s)	485, 649
RseI	CAYNNNNRTG	1 cut(s)	182
SapI	GCTCTTC	1 cut(s)	130
SatI	GCNGC	1 cut(s)	729
Sau3AI	GATC	1 cut(s)	343
Sau96I	GGNCC	1 cut(s)	654
ScrFI	CCNGG	2 cut(s)	255, 810
SduI	GDGCHC	1 cut(s)	808
SfaNI	GCATC	1 cut(s)	715
SfcI	CTRYAG	1 cut(s)	262
SfuI	TTCGAA	1 cut(s)	367
SinI	GGWCC	1 cut(s)	654
SmiMI	CAYNNNNRTG	1 cut(s)	182
SmlI	CTYRAG	1 cut(s)	16
SmoI	CTYRAG	1 cut(s)	16
Sse9I	AATT	9 cut(s)	150, 212, 379, 440, 633, 708, 735, 793, 829
SseBI	AGGCCT	1 cut(s)	474
SsiI	CCGC	2 cut(s)	298, 547
SspMI	CTAG	5 cut(s)	132, 347, 482, 659, 876
StuI	AGGCCT	1 cut(s)	474
StyD4I	CCNGG	2 cut(s)	253, 808
TaaI	ACNGT	1 cut(s)	276
TaqI	TCGA	1 cut(s)	367
TasI	AATT	9 cut(s)	150, 212, 379, 440, 633, 708, 735, 793, 829
TfiI	GAWTC	1 cut(s)	786
TscAI	CASTG	1 cut(s)	309
TseFI	GTSAC	1 cut(s)	300
TseI	GCWGC	1 cut(s)	728
Tsp45I	GTSAC	1 cut(s)	300
TspGWI	ACGGA	1 cut(s)	692
TspRI	CASTG	1 cut(s)	309
VpaK11BI	GGWCC	1 cut(s)	654
XapI	RAATTY	2 cut(s)	440, 829
XbaI	TCTAGA	1 cut(s)	875
XmnI	GAANNNNTTC	2 cut(s)	440, 829
XspI	CTAG	5 cut(s)	132, 347, 482, 659, 876

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