Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0004719

Physical Location & Seq

Genomic Coordinates Forward (+)

11473228 .. 11477035

Gene Structure 3808 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG137200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGGCAGTCTTGTACAGAGTGAGATCAATACATCATCTATCCAAATGTATTTCCACAAAAATTTTACCGGGGAGATTTTACTCGGCACAAGTCTCGTCCCAATTTGAGACTGTAGGGTTTATTGGACTGGGAAATATGGGATCCAGAATGGCAAACAATCTAATAAAGGCGGGATACCGAGTAGCTGTTCATGACATAAACTGCAATGCCATGAAAAAGTTCTCTGATATTGGAGCCGCAACAAAAGAAACACCTACTGAAGTTGCAGAAGCTAGTGATGTTGTAATCACAATGCTCCCTACATCATCTCATGTATATGATGTTTATACTGGACCAAATGGTTTACTTTATGGAGGGAATTTGCGACCACGGCTATTTATAGATTCATCCACTATTGATCCACAAACATCGAGAAAGCTTTCTACCATCGTCTCTAACTGTACTCTAAAGGAACAGAAAGAAGATCATTGGAAGAAGCCTGCCTTGCTGGATGCTCCAGTATCTGGAGGTGTCCTTGCAGCGGAAGCTGGGACTCTTACTTTCATGGTTGGTGGATCTGAGGAAGCTTATATGGCGGCTGAACCCTTGTTCCTTTCGATGGGGAAGAACACAGTTTATTGTGGTGGGGCAGGAAATGGTTCAGCAGCAAAGATTTGCAATAATCTGGCACTGGCTATAAGTATGCTTGGCGTCTCAGAATCTCTTGCTCTTGGTCAGTCTCTAGGAATATCTGCCAGTACTCTAACAAAAGTGTTTAACTCTTCCAGTGCTCGCTGTTGGAGCAGCGATAGTTACAATCCAGTTCCGGGAGTGATGGAAGGGGTTCCCTCTTCGAGAAACTATGATGGTGGGTTTGCATCCAAACTAATGGCTAAAGACGTAAATATTGCTGCAACATCAGCCAAAGAGGTTGGTCTTCGATGCCCGTTGACTTCCCAAGCACAAGAGATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0006082 GO:0006520 GO:0006551 GO:0006573 GO:0006807 GO:0008150 GO:0008152 GO:0008442 GO:0009081 GO:0009987 GO:0016491 GO:0016614 GO:0016616 GO:0019752 GO:0043436 GO:0043621 GO:0044237 GO:0044238 GO:0044281 GO:0055114 GO:0071704 GO:1901564 GO:1901605

KEGG Pathways

Metabolic & Signaling

ko00280 ko01100 map00280 map01100

Pfam Domains

Protein Families

NAD_binding_11 NAD_binding_2

Protein Analysis

317

Amino Acids

33.5

Weight (kDa)

8.4

Isoelectric Point (pI)

37.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
2-Hacid_dh_C	PF02826	4 - 104	1e-08	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain
NAD_binding_2	PF03446	37 - 208	9.6e-42	NAD binding domain of 6-phosphogluconate dehydrogenase
F420_oxidored	PF03807	37 - 101	3.8e-07	NADP oxidoreductase coenzyme F420-dependent
NAD_binding_11	PF14833	211 - 317	1.9e-23	NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase

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: OG0004719)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20930 AT4G20930
fragaria_vesca	FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220 FvH4_3g10220
malus_domestica	MD05G1271700.v1.1
prunus_persica	Prupe.4G091300_v2.0.a1 Prupe.4G091300_v2.0.a1 Prupe.4G091300_v2.0.a1 Prupe.4G091300_v2.0.a1 Prupe.4G091300_v2.0.a1
pyrus_communis	pycom05g25400
rosa_chinensis	RchiOBHm_Chr5g0016441
rosa_laevigata	RLG00000032250
rosa_multiflora	Rmu_sc0030879.1_g000005
rosa_roxburghii	Rroxscaffold_1G00060460
rosa_rugosa	Rorug05G0032300 Rorug05G0032400
rosa_samantha	Rh5AG125900 Rh5BG124900 Rh5CG137200 Rh5DG124600
rosa_wichuraiana	Rw5G010910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	503
AciI	CCGC	4 cut(s)	170, 237, 521, 575
AclWI	GGATC	4 cut(s)	135, 148, 392, 562
AcsI	RAATTY	2 cut(s)	60, 358
AcuI	CTGAAG	1 cut(s)	279
AcyI	GRCGYC	1 cut(s)	690
AfaI	GTAC	3 cut(s)	14, 442, 739
AfiI	CCNNNNNNNGG	4 cut(s)	503, 520, 598, 806
AloI	GAACNNNNNNTCC	2 cut(s)	573, 605
AluBI	AGCT	5 cut(s)	185, 272, 418, 527, 566
AluI	AGCT	5 cut(s)	185, 272, 418, 527, 566
Alw21I	GWGCWC	1 cut(s)	772
Alw26I	GTCTC	5 cut(s)	97, 101, 436, 697, 723
AlwI	GGATC	4 cut(s)	135, 148, 392, 562
AlwNI	CAGNNNCTG	1 cut(s)	503
ApeKI	GCWGC	4 cut(s)	518, 644, 783, 890
ApoI	RAATTY	2 cut(s)	60, 358
Asp700I	GAANNNNTTC	4 cut(s)	218, 418, 637, 822
AspS9I	GGNCC	1 cut(s)	332
AsuC2I	CCSGG	2 cut(s)	69, 807
AvaII	GGWCC	1 cut(s)	332
BamHI	GGATCC	1 cut(s)	140
BbsI	GAAGAC	1 cut(s)	908
Bbv12I	GWGCWC	1 cut(s)	772
BbvI	GCAGC	4 cut(s)	530, 656, 795, 877
BccI	CCATC	4 cut(s)	434, 592, 808, 839
BceAI	ACGGC	1 cut(s)	386
BcgI	CGANNNNNNTGC	2 cut(s)	75, 109
BciVI	GTATCC	1 cut(s)	167
BcnI	CCSGG	2 cut(s)	69, 807
BcoDI	GTCTC	5 cut(s)	97, 101, 436, 697, 723
BfaI	CTAG	2 cut(s)	273, 722
BfmI	CTRYAG	1 cut(s)	111
BfuI	GTATCC	1 cut(s)	167
BisI	GCNGC	6 cut(s)	237, 519, 576, 645, 784, 891
BlsI	GCNGC	6 cut(s)	238, 520, 577, 646, 785, 892
BmcAI	AGTACT	1 cut(s)	739
Bme1390I	CCNGG	2 cut(s)	69, 807
Bme18I	GGWCC	1 cut(s)	332
BmgT120I	GGNCC	1 cut(s)	332
BmiI	GGNNCC	3 cut(s)	142, 235, 825
BmrFI	CCNGG	2 cut(s)	69, 807
BmrI	ACTGGG	1 cut(s)	137
BmsI	GCATC	3 cut(s)	481, 866, 911
BmuI	ACTGGG	1 cut(s)	137
BpiI	GAAGAC	1 cut(s)	908
BpmI	CTGGAG	2 cut(s)	480, 525
BpuMI	CCSGG	2 cut(s)	69, 807
BsaHI	GRCGYC	1 cut(s)	690
BsaJI	CCNNGG	2 cut(s)	68, 368
Bsc4I	CCNNNNNNNGG	4 cut(s)	503, 520, 598, 806
Bse1I	ACTGG	7 cut(s)	132, 334, 497, 675, 735, 765, 800
Bse3DI	GCAATG	1 cut(s)	211
BseDI	CCNNGG	2 cut(s)	68, 368
BseGI	GGATG	3 cut(s)	386, 496, 857
BseLI	CCNNNNNNNGG	4 cut(s)	503, 520, 598, 806
BseMI	GCAATG	1 cut(s)	211
BseMII	CTCAG	2 cut(s)	549, 708
BseNI	ACTGG	7 cut(s)	132, 334, 497, 675, 735, 765, 800
BseXI	GCAGC	4 cut(s)	530, 656, 795, 877
BseYI	CCCAGC	1 cut(s)	527
BsiHKAI	GWGCWC	1 cut(s)	772
BsiSI	CCGG	2 cut(s)	68, 806
BslFI	GGGAC	2 cut(s)	82, 544
BslI	CCNNNNNNNGG	4 cut(s)	503, 520, 598, 806
BsmAI	GTCTC	5 cut(s)	97, 101, 436, 697, 723
BsmBI	CGTCTC	2 cut(s)	436, 697
BsmFI	GGGAC	2 cut(s)	82, 544
Bsp1286I	GDGCHC	1 cut(s)	772
Bsp1407I	TGTACA	1 cut(s)	12
Bsp143I	GATC	5 cut(s)	23, 140, 397, 463, 554
BspACI	CCGC	4 cut(s)	170, 237, 521, 575
BspCNI	CTCAG	2 cut(s)	550, 707
BspHI	TCATGA	1 cut(s)	190
BspLI	GGNNCC	3 cut(s)	142, 235, 825
BspPI	GGATC	4 cut(s)	135, 148, 392, 562
BsrDI	GCAATG	1 cut(s)	211
BsrGI	TGTACA	1 cut(s)	12
BsrI	ACTGG	7 cut(s)	132, 334, 497, 675, 735, 765, 800
BssECI	CCNNGG	2 cut(s)	68, 368
BssMI	GATC	5 cut(s)	23, 140, 397, 463, 554
BssNI	GRCGYC	1 cut(s)	690
Bst4CI	ACNGT	3 cut(s)	112, 440, 613
Bst6I	CTCTTC	2 cut(s)	766, 835
BstACI	GRCGYC	1 cut(s)	690
BstAUI	TGTACA	1 cut(s)	12
BstC8I	GCNNGC	2 cut(s)	480, 772
BstDEI	CTNAG	2 cut(s)	558, 694
BstDSI	CCRYGG	1 cut(s)	368
BstF5I	GGATG	3 cut(s)	386, 496, 857
BstKTI	GATC	5 cut(s)	26, 143, 400, 466, 557
BstMAI	GTCTC	5 cut(s)	97, 101, 436, 697, 723
BstMBI	GATC	5 cut(s)	23, 140, 397, 463, 554
BstMWI	GCNNNNNNNGC	6 cut(s)	370, 484, 524, 572, 780, 899
BstSCI	CCNGG	2 cut(s)	67, 805
BstSFI	CTRYAG	1 cut(s)	111
BstV1I	GCAGC	4 cut(s)	530, 656, 795, 877
BstV2I	GAAGAC	1 cut(s)	908
BstX2I	RGATCY	2 cut(s)	140, 554
BstXI	CCANNNNNNTGG	1 cut(s)	868
BstYI	RGATCY	2 cut(s)	140, 554
BsuI	GTATCC	1 cut(s)	167
BtgI	CCRYGG	1 cut(s)	368
BtsCI	GGATG	3 cut(s)	386, 496, 857
BtsIMutI	CAGTG	2 cut(s)	668, 772
Cac8I	GCNNGC	2 cut(s)	480, 772
CaiI	CAGNNNCTG	1 cut(s)	503
CciI	TCATGA	1 cut(s)	190
Cfr13I	GGNCC	1 cut(s)	332
CseI	GACGC	1 cut(s)	679
Csp6I	GTAC	3 cut(s)	13, 441, 738
CviAII	CATG	4 cut(s)	191, 211, 311, 544
CviQI	GTAC	3 cut(s)	13, 441, 738
DdeI	CTNAG	2 cut(s)	558, 694
DpnI	GATC	5 cut(s)	25, 142, 399, 465, 556
DpnII	GATC	5 cut(s)	23, 140, 397, 463, 554
Eam1104I	CTCTTC	2 cut(s)	766, 835
EarI	CTCTTC	2 cut(s)	766, 835
Eco47I	GGWCC	1 cut(s)	332
Eco57I	CTGAAG	1 cut(s)	279
Esp3I	CGTCTC	2 cut(s)	436, 697
FaeI	CATG	4 cut(s)	194, 214, 314, 547
FalI	AAGNNNNNCTT	2 cut(s)	467, 499
FaqI	GGGAC	2 cut(s)	82, 544
FatI	CATG	4 cut(s)	190, 210, 310, 543
FauI	CCCGC	1 cut(s)	163
Fnu4HI	GCNGC	6 cut(s)	237, 519, 576, 645, 784, 891
FokI	GGATG	3 cut(s)	373, 503, 844
Fsp4HI	GCNGC	6 cut(s)	237, 519, 576, 645, 784, 891
FspBI	CTAG	2 cut(s)	273, 722
GluI	GCNGC	6 cut(s)	237, 519, 576, 645, 784, 891
GsaI	CCCAGC	1 cut(s)	531
GsuI	CTGGAG	2 cut(s)	480, 525
HapII	CCGG	2 cut(s)	68, 806
HgaI	GACGC	1 cut(s)	679
Hin1I	GRCGYC	1 cut(s)	690
Hin1II	CATG	4 cut(s)	194, 214, 314, 547
HincII	GTYRAC	1 cut(s)	930
HindII	GTYRAC	1 cut(s)	930
HindIII	AAGCTT	2 cut(s)	416, 564
HinfI	GANTC	3 cut(s)	383, 532, 698
HpaII	CCGG	2 cut(s)	68, 806
Hpy166II	GTNNAC	2 cut(s)	344, 930
Hpy188I	TCNGA	3 cut(s)	226, 559, 697
Hpy188III	TCNNGA	5 cut(s)	144, 191, 411, 504, 834
Hpy8I	GTNNAC	2 cut(s)	344, 930
HpyAV	CCTTC	1 cut(s)	812
HpyCH4III	ACNGT	3 cut(s)	112, 440, 613
HpyCH4IV	ACGT	1 cut(s)	879
HpyCH4V	TGCA	6 cut(s)	204, 266, 518, 657, 857, 893
HpyF10VI	GCNNNNNNNGC	6 cut(s)	370, 484, 524, 572, 780, 899
HpyF3I	CTNAG	2 cut(s)	558, 694
HpySE526I	ACGT	1 cut(s)	879
Hsp92I	GRCGYC	1 cut(s)	690
Hsp92II	CATG	4 cut(s)	194, 214, 314, 547
Kzo9I	GATC	5 cut(s)	23, 140, 397, 463, 554
LmnI	GCTCC	4 cut(s)	233, 300, 499, 780
Lsp1109I	GCAGC	4 cut(s)	530, 656, 795, 877
LweI	GCATC	3 cut(s)	481, 866, 911
MaeI	CTAG	2 cut(s)	273, 722
MaeII	ACGT	1 cut(s)	879
MaeIII	GTNAC	1 cut(s)	791
MalI	GATC	5 cut(s)	25, 142, 399, 465, 556
MboI	GATC	5 cut(s)	23, 140, 397, 463, 554
MboII	GAAGA	6 cut(s)	473, 484, 616, 753, 822, 908
MflI	RGATCY	2 cut(s)	140, 554
MhlI	GDGCHC	1 cut(s)	772
MluCI	AATT	3 cut(s)	60, 101, 358
MlyI	GAGTC	1 cut(s)	526
MmeI	TCCRAC	1 cut(s)	758
MnlI	CCTC	5 cut(s)	347, 500, 553, 838, 901
MroXI	GAANNNNTTC	4 cut(s)	218, 418, 637, 822
MseI	TTAA	1 cut(s)	756
MslI	CAYNNNNRTG	1 cut(s)	315
MspA1I	CMGCKG	1 cut(s)	521
MspI	CCGG	2 cut(s)	68, 806
MspR9I	CCNGG	2 cut(s)	69, 807
MwoI	GCNNNNNNNGC	6 cut(s)	370, 484, 524, 572, 780, 899
NciI	CCSGG	2 cut(s)	69, 807
NdeII	GATC	5 cut(s)	23, 140, 397, 463, 554
NlaIII	CATG	4 cut(s)	194, 214, 314, 547
NlaIV	GGNNCC	3 cut(s)	142, 235, 825
NmeAIII	GCCGAG	1 cut(s)	62
PagI	TCATGA	1 cut(s)	190
PdmI	GAANNNNTTC	4 cut(s)	218, 418, 637, 822
PfeI	GAWTC	2 cut(s)	383, 698
PflMI	CCANNNNNTGG	1 cut(s)	503
PfoI	TCCNGGA	1 cut(s)	805
PkrI	GCNGC	6 cut(s)	238, 520, 577, 646, 785, 892
PleI	GAGTC	1 cut(s)	526
PpsI	GAGTC	1 cut(s)	526
PspFI	CCCAGC	1 cut(s)	527
PspN4I	GGNNCC	3 cut(s)	142, 235, 825
PspPI	GGNCC	1 cut(s)	332
PstNI	CAGNNNCTG	1 cut(s)	503
PsuI	RGATCY	2 cut(s)	140, 554
RsaI	GTAC	3 cut(s)	14, 442, 739
RsaNI	GTAC	3 cut(s)	13, 441, 738
RseI	CAYNNNNRTG	1 cut(s)	315
SaqAI	TTAA	1 cut(s)	756
SatI	GCNGC	6 cut(s)	237, 519, 576, 645, 784, 891
Sau3AI	GATC	5 cut(s)	23, 140, 397, 463, 554
Sau96I	GGNCC	1 cut(s)	332
ScaI	AGTACT	1 cut(s)	739
SchI	GAGTC	1 cut(s)	526
ScrFI	CCNGG	2 cut(s)	69, 807
SduI	GDGCHC	1 cut(s)	772
SetI	ASST	9 cut(s)	187, 256, 274, 420, 511, 529, 568, 882, 912
SfaNI	GCATC	3 cut(s)	481, 866, 911
SfcI	CTRYAG	1 cut(s)	111
SinI	GGWCC	1 cut(s)	332
SmiMI	CAYNNNNRTG	1 cut(s)	315
Sse9I	AATT	3 cut(s)	60, 101, 358
SsiI	CCGC	4 cut(s)	170, 237, 521, 575
SspI	AATATT	1 cut(s)	886
SspMI	CTAG	2 cut(s)	273, 722
StyD4I	CCNGG	2 cut(s)	67, 805
TaaI	ACNGT	3 cut(s)	112, 440, 613
TaiI	ACGT	1 cut(s)	882
TaqI	TCGA	4 cut(s)	410, 596, 833, 919
TasI	AATT	3 cut(s)	60, 101, 358
TatI	WGTACW	3 cut(s)	12, 440, 737
TauI	GCSGC	2 cut(s)	239, 578
TfiI	GAWTC	2 cut(s)	383, 698
Tru1I	TTAA	1 cut(s)	756
Tru9I	TTAA	1 cut(s)	756
TscAI	CASTG	2 cut(s)	675, 772
TseI	GCWGC	4 cut(s)	518, 644, 783, 890
TspDTI	ATGAA	4 cut(s)	179, 227, 375, 532
TspRI	CASTG	2 cut(s)	675, 772
Van91I	CCANNNNNTGG	1 cut(s)	503
VpaK11BI	GGWCC	1 cut(s)	332
XapI	RAATTY	2 cut(s)	60, 358
XmnI	GAANNNNTTC	4 cut(s)	218, 418, 637, 822
XspI	CTAG	2 cut(s)	273, 722
ZrmI	AGTACT	1 cut(s)	739

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