Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0007107

Physical Location & Seq

Genomic Coordinates Reverse (-)

39176152 .. 39195167

Gene Structure 19016 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG342000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 825 bp

ATGCTGGAAGAGGATGTGAGCAAGTTCCATGAGATGATTGAGAATCTCGACAAGAATGTGAAGAAACTGCAGAAGGTTTTGGAGGAGAAAGAGAAGGCGTTGGAGGCCAAGAGGGAAGAGAAGAAGAGGATTTTACAGGAGAATGAGGAGTTGAAGAAGAGAGTCGAATCACAGAGTTTTAATGAGAGGGATGTGGAGAGAATGAAGAGGGAATTGCAGGCTGTGGAGAGGGACATTGGGGAAGCCGAGCTGGCTAGGAATGTGTGGGAGGAGAAGGTTTGGGAATTGGATAACACGCTCGGCCCAAAGGTTAAGCAGTTGGAGGCTTTGGCAATGGAGTGCAACCAAGTCATGAGGAGGTTGAAACTTTGTAATGGCTTTCAGTATGTATTGAATCCTAAGGGATCAACACCTGCTGAGGTGATGGGAGTTGACTATAAATCAACTTTAAAGCCTGCACTTGACTCATACTCTCAAAAAATAAAGAAGGATTCTGTGGAAACACTGGATGGGTTGATTTTGCTTCAGCATCAGTCAAGTGCACTTTCTGCTGATATTGAGGAAAAAAGAAATGATATATCAACACTTCAGTCGCGTCTTGATGAAATAGAAGAGATGTACTATAGGTCTGTTGACAGCAGTATTAATAGCAGTATGAATGTACATTATCAAAATGAGACACTTGAATACCTGAAATCCATGGAACTTGACAAATGTGTAGCGATGGATGAATTGAGCATTACCAGGAAACTTTTCACACATCCTCTTTTGTTACTTAAGTGCGTCAAAACAATGATGATGTATAAAAATGAACAAATGCATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000070 GO:0000228 GO:0000278 GO:0000280 GO:0000775 GO:0000776 GO:0000777 GO:0000778 GO:0000779 GO:0000780 GO:0000793 GO:0000794 GO:0000819 GO:0003674 GO:0005198 GO:0005200 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006996 GO:0007010 GO:0007049 GO:0007059 GO:0007080 GO:0008150 GO:0008608 GO:0009987 GO:0016043 GO:0022402 GO:0031262 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0048285 GO:0050000 GO:0051179 GO:0051234 GO:0051276 GO:0051303 GO:0051310 GO:0051315 GO:0051640 GO:0051641 GO:0051649 GO:0051656 GO:0070013 GO:0071840 GO:0098687 GO:0098813 GO:0140014 GO:1903047

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Ndc80_HEC

Protein Analysis

274

Amino Acids

32.11

Weight (kDa)

5.43

Isoelectric Point (pI)

54.62

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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007107)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G54630
fragaria_vesca	FvH4_5g35831
malus_domestica	MD08G1226900.v1.1 MD15G1419200.v1.1
prunus_persica	Prupe.1G564000_v2.0.a1
pyrus_communis	pycom08g19790 pycom15g37210
rosa_chinensis	RchiOBHm_Chr5g0046031
rosa_laevigata	RLG00000034393
rosa_multiflora	Rmu_co8491665.1_g000002 Rmu_sc0001035.1_g000029 Rmu_sc0001212.1_g000011
rosa_roxburghii	Rroxscaffold_1G00035270 Rroxscaffold_1G00035320 Rroxscaffold_3G00224020
rosa_rugosa	Rorug05G0226200 Rorug07G0304000
rosa_samantha	Rh5AG306800 Rh5BG315500 Rh5CG341700 Rh5CG342000 Rh5DG325500
rosa_wichuraiana	Rw0G011960 Rw5G028710 Rw7G038200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	421
Acc36I	ACCTGC	1 cut(s)	421
AccII	CGCG	1 cut(s)	595
AclWI	GGATC	1 cut(s)	412
AcuI	CTGAAG	2 cut(s)	509, 572
AfaI	GTAC	2 cut(s)	620, 663
AflII	CTTAAG	1 cut(s)	776
AgsI	TTSAA	4 cut(s)	154, 364, 394, 686
AjnI	CCWGG	1 cut(s)	743
AluBI	AGCT	1 cut(s)	250
AluI	AGCT	1 cut(s)	250
Alw21I	GWGCWC	1 cut(s)	544
Alw26I	GTCTC	1 cut(s)	671
Alw44I	GTGCAC	1 cut(s)	540
AlwI	GGATC	1 cut(s)	412
AoxI	GGCC	2 cut(s)	105, 301
ApaLI	GTGCAC	1 cut(s)	540
AseI	ATTAAT	1 cut(s)	645
Asp700I	GAANNNNTTC	1 cut(s)	752
AspS9I	GGNCC	1 cut(s)	302
AsuHPI	GGTGA	1 cut(s)	433
AxyI	CCTNAGG	1 cut(s)	399
BaeGI	GKGCMC	1 cut(s)	544
Bbv12I	GWGCWC	1 cut(s)	544
BbvCI	CCTCAGC	1 cut(s)	417
BccI	CCATC	3 cut(s)	418, 503, 718
BciT130I	CCWGG	1 cut(s)	745
BcoDI	GTCTC	1 cut(s)	671
BfaI	CTAG	1 cut(s)	255
BfmI	CTRYAG	2 cut(s)	68, 622
BfrI	CTTAAG	1 cut(s)	776
BfuAI	ACCTGC	1 cut(s)	421
BglI	GCCNNNNNGGC	1 cut(s)	251
Bme1390I	CCNGG	1 cut(s)	745
BmgT120I	GGNCC	1 cut(s)	302
BmrFI	CCNGG	1 cut(s)	745
BmsI	GCATC	1 cut(s)	538
Bpu10I	CCTNAGC	1 cut(s)	417
BsaJI	CCNNGG	1 cut(s)	699
Bse1I	ACTGG	1 cut(s)	510
Bse21I	CCTNAGG	1 cut(s)	399
Bse3DI	GCAATG	1 cut(s)	339
BseBI	CCWGG	1 cut(s)	745
BseDI	CCNNGG	1 cut(s)	699
BseGI	GGATG	5 cut(s)	19, 196, 514, 733, 760
BseMI	GCAATG	1 cut(s)	339
BseMII	CTCAG	1 cut(s)	408
BseNI	ACTGG	1 cut(s)	510
BseRI	GAGGAG	4 cut(s)	98, 161, 284, 370
BseSI	GKGCMC	1 cut(s)	544
BsgI	GTGCAG	1 cut(s)	441
Bsh1236I	CGCG	1 cut(s)	595
BshFI	GGCC	2 cut(s)	107, 303
BsiHKAI	GWGCWC	1 cut(s)	544
BslFI	GGGAC	1 cut(s)	245
BsmAI	GTCTC	1 cut(s)	671
BsmFI	GGGAC	1 cut(s)	245
BsnI	GGCC	2 cut(s)	107, 303
Bsp1286I	GDGCHC	1 cut(s)	544
Bsp1407I	TGTACA	1 cut(s)	661
Bsp143I	GATC	1 cut(s)	404
Bsp19I	CCATGG	1 cut(s)	699
BspANI	GGCC	2 cut(s)	107, 303
BspCNI	CTCAG	1 cut(s)	409
BspFNI	CGCG	1 cut(s)	595
BspHI	TCATGA	1 cut(s)	351
BspMAI	CTGCAG	1 cut(s)	72
BspMI	ACCTGC	1 cut(s)	421
BspPI	GGATC	1 cut(s)	412
BspTI	CTTAAG	1 cut(s)	776
BsrDI	GCAATG	1 cut(s)	339
BsrGI	TGTACA	1 cut(s)	661
BsrI	ACTGG	1 cut(s)	510
BssECI	CCNNGG	1 cut(s)	699
BssMI	GATC	1 cut(s)	404
BssT1I	CCWWGG	1 cut(s)	699
Bst2UI	CCWGG	1 cut(s)	745
Bst6I	CTCTTC	6 cut(s)	3, 111, 119, 152, 200, 606
BstAFI	CTTAAG	1 cut(s)	776
BstAPI	GCANNNNNTGC	1 cut(s)	548
BstAUI	TGTACA	1 cut(s)	661
BstC8I	GCNNGC	3 cut(s)	219, 252, 456
BstDEI	CTNAG	2 cut(s)	399, 417
BstDSI	CCRYGG	1 cut(s)	699
BstF5I	GGATG	5 cut(s)	19, 196, 514, 733, 760
BstFNI	CGCG	1 cut(s)	595
BstKTI	GATC	1 cut(s)	407
BstMAI	GTCTC	1 cut(s)	671
BstMBI	GATC	1 cut(s)	404
BstMWI	GCNNNNNNNGC	3 cut(s)	104, 251, 548
BstNI	CCWGG	1 cut(s)	745
BstSCI	CCNGG	1 cut(s)	743
BstSFI	CTRYAG	2 cut(s)	68, 622
BstSLI	GKGCMC	1 cut(s)	544
BstUI	CGCG	1 cut(s)	595
Bsu36I	CCTNAGG	1 cut(s)	399
BsuRI	GGCC	2 cut(s)	107, 303
BtgI	CCRYGG	1 cut(s)	699
BtgZI	GCGATG	1 cut(s)	737
BtsCI	GGATG	5 cut(s)	19, 196, 514, 733, 760
BtsIMutI	CAGTG	1 cut(s)	503
BveI	ACCTGC	1 cut(s)	421
Cac8I	GCNNGC	3 cut(s)	219, 252, 456
CciI	TCATGA	1 cut(s)	351
Cfr13I	GGNCC	1 cut(s)	302
CseI	GACGC	2 cut(s)	584, 772
Csp6I	GTAC	2 cut(s)	619, 662
CviAII	CATG	3 cut(s)	29, 352, 700
CviJI	RGCY	9 cut(s)	107, 221, 245, 250, 254, 303, 326, 378, 454
CviKI_1	RGCY	9 cut(s)	107, 221, 245, 250, 254, 303, 326, 378, 454
CviQI	GTAC	2 cut(s)	619, 662
DdeI	CTNAG	2 cut(s)	399, 417
DpnI	GATC	1 cut(s)	406
DpnII	GATC	1 cut(s)	404
DraI	TTTAAA	1 cut(s)	450
Eam1104I	CTCTTC	6 cut(s)	3, 111, 119, 152, 200, 606
EarI	CTCTTC	6 cut(s)	3, 111, 119, 152, 200, 606
Eco130I	CCWWGG	1 cut(s)	699
Eco57I	CTGAAG	2 cut(s)	509, 572
Eco81I	CCTNAGG	1 cut(s)	399
EcoRII	CCWGG	1 cut(s)	743
EcoT14I	CCWWGG	1 cut(s)	699
EcoT22I	ATGCAT	1 cut(s)	822
ErhI	CCWWGG	1 cut(s)	699
FaeI	CATG	3 cut(s)	32, 355, 703
FaqI	GGGAC	1 cut(s)	245
FatI	CATG	3 cut(s)	28, 351, 699
FokI	GGATG	5 cut(s)	26, 203, 521, 740, 747
FspBI	CTAG	1 cut(s)	255
HaeIII	GGCC	2 cut(s)	107, 303
HgaI	GACGC	2 cut(s)	584, 772
Hin1II	CATG	3 cut(s)	32, 355, 703
HincII	GTYRAC	2 cut(s)	433, 634
HindII	GTYRAC	2 cut(s)	433, 634
HinfI	GANTC	6 cut(s)	43, 162, 167, 394, 464, 491
HphI	GGTGA	1 cut(s)	433
Hpy166II	GTNNAC	3 cut(s)	433, 542, 634
Hpy188III	TCNNGA	3 cut(s)	47, 352, 599
Hpy8I	GTNNAC	3 cut(s)	433, 542, 634
HpyAV	CCTTC	4 cut(s)	67, 88, 268, 481
HpyCH4V	TGCA	6 cut(s)	70, 217, 342, 458, 542, 820
HpyF10VI	GCNNNNNNNGC	3 cut(s)	104, 251, 548
HpyF3I	CTNAG	2 cut(s)	399, 417
Hsp92II	CATG	3 cut(s)	32, 355, 703
Kzo9I	GATC	1 cut(s)	404
LpnPI	CCDG	9 cut(s)	122, 203, 236, 426, 468, 491, 704, 730, 757
LweI	GCATC	1 cut(s)	538
MaeI	CTAG	1 cut(s)	255
MaeIII	GTNAC	1 cut(s)	771
MalI	GATC	1 cut(s)	406
MboI	GATC	1 cut(s)	404
MboII	GAAGA	9 cut(s)	20, 73, 128, 133, 136, 166, 169, 217, 623
MhlI	GDGCHC	1 cut(s)	544
MluCI	AATT	3 cut(s)	212, 284, 731
MlyI	GAGTC	2 cut(s)	171, 458
MmeI	TCCRAC	2 cut(s)	81, 300
Mph1103I	ATGCAT	1 cut(s)	822
MroXI	GAANNNNTTC	1 cut(s)	752
MseI	TTAA	5 cut(s)	180, 312, 449, 645, 777
MspCI	CTTAAG	1 cut(s)	776
MspR9I	CCNGG	1 cut(s)	745
MvaI	CCWGG	1 cut(s)	745
MvnI	CGCG	1 cut(s)	595
MwoI	GCNNNNNNNGC	3 cut(s)	104, 251, 548
NcoI	CCATGG	1 cut(s)	699
NdeII	GATC	1 cut(s)	404
NlaIII	CATG	3 cut(s)	32, 355, 703
NmeAIII	GCCGAG	2 cut(s)	271, 279
NsiI	ATGCAT	1 cut(s)	822
PagI	TCATGA	1 cut(s)	351
PaqCI	CACCTGC	1 cut(s)	421
PdmI	GAANNNNTTC	1 cut(s)	752
PfeI	GAWTC	4 cut(s)	43, 167, 394, 491
PleI	GAGTC	2 cut(s)	170, 458
PpsI	GAGTC	2 cut(s)	170, 458
PshBI	ATTAAT	1 cut(s)	645
Psp6I	CCWGG	1 cut(s)	743
PspGI	CCWGG	1 cut(s)	743
PspPI	GGNCC	1 cut(s)	302
PstI	CTGCAG	1 cut(s)	72
RsaI	GTAC	2 cut(s)	620, 663
RsaNI	GTAC	2 cut(s)	619, 662
SaqAI	TTAA	5 cut(s)	180, 312, 449, 645, 777
Sau3AI	GATC	1 cut(s)	404
Sau96I	GGNCC	1 cut(s)	302
SchI	GAGTC	2 cut(s)	171, 458
ScrFI	CCNGG	1 cut(s)	745
SduI	GDGCHC	1 cut(s)	544
SetI	ASST	9 cut(s)	78, 252, 279, 312, 362, 415, 423, 629, 693
SfaNI	GCATC	1 cut(s)	538
SfcI	CTRYAG	2 cut(s)	68, 622
SmlI	CTYRAG	1 cut(s)	776
SmoI	CTYRAG	1 cut(s)	776
Sse9I	AATT	3 cut(s)	212, 284, 731
SspMI	CTAG	1 cut(s)	255
StyD4I	CCNGG	1 cut(s)	743
StyI	CCWWGG	1 cut(s)	699
TaqI	TCGA	2 cut(s)	48, 165
TasI	AATT	3 cut(s)	212, 284, 731
TatI	WGTACW	2 cut(s)	618, 661
TfiI	GAWTC	4 cut(s)	43, 167, 394, 491
Tru1I	TTAA	5 cut(s)	180, 312, 449, 645, 777
Tru9I	TTAA	5 cut(s)	180, 312, 449, 645, 777
TscAI	CASTG	1 cut(s)	510
TspDTI	ATGAA	5 cut(s)	218, 618, 671, 744, 825
TspRI	CASTG	1 cut(s)	510
Vha464I	CTTAAG	1 cut(s)	776
VneI	GTGCAC	1 cut(s)	540
VspI	ATTAAT	1 cut(s)	645
XmnI	GAANNNNTTC	1 cut(s)	752
XspI	CTAG	1 cut(s)	255
Zsp2I	ATGCAT	1 cut(s)	822

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