Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0000227

Physical Location & Seq

Genomic Coordinates Forward (+)

29200422 .. 29203261

Gene Structure 2840 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G023310.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 825 bp

ATGGAATTGGAGAGCATTCTGGGATACCTGAAGAACAAGACTATCTTAATCACTGGAGCTACCGGCTTTGTAGGAAAGGTCTTGGTAGAGAAAATATTAAGAGTTCAACCAGACGTGAAAAGGCTCTATCTTCTTTTAAGAGCTTCCGATGCCAACTCTGCCACACAACGCATGCATAATGAGGTTCTGAGGGAGAAATTAGGTGCAGATTTTGATTCTTACATATTAGAAAAAGTAGTTGCTCTGTCGGGAGATGTAATTTTTCAAGATCTAGGAGTGAAGCCAGTCAAACTAAAGGAAGAGATGTGCAATGAAGTACAAATCATACTTAATTCTGCAGCAATCACTAAGTTTGATGAAAGGTATGATGTTGCGTTGGATGTGAATACATTTGGAGTTTTGAATATGTTGGACTTTGCCAAAAAATGCTTGAAATTGGAGATGGTTGTCCACGTGTCAACAGCTTATGTGTGTGGTGAAAGGGCAGGGCTGATACTAGAGGACTCCTCTTCAATGGATGAGATGGCGAAAAAACCCAGTAAATTTGACTTGAAATCGCAGGAAAAGAAAATGGTGGAGAACAAGTTGAAAGAACTACAAGCACAAAACGCTTCGGAAGAAGTTATAACAAGTGCAATGAAGAACTTAGGCACCGCAAGGTCTAAGTTGTACGGGTGGCCAGATACCTATGTGCTTACAAAGGTGATGGGAGAAATGTATCTAGGACATGCAAAAGGTAATCTATCTGTTGCTATTATACGTCCAACTATGATTACAAGTACATACAAGGAGCCATTTTCAGGCTGGATCGAAGGTTTCAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0006139 GO:0006163 GO:0006637 GO:0006725 GO:0006732 GO:0006753 GO:0006790 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009058 GO:0009117 GO:0009150 GO:0009259 GO:0009507 GO:0009536 GO:0009611 GO:0009628 GO:0009651 GO:0009698 GO:0009699 GO:0009987 GO:0010345 GO:0016020 GO:0016491 GO:0016620 GO:0016903 GO:0019438 GO:0019637 GO:0019693 GO:0019748 GO:0033865 GO:0033875 GO:0034032 GO:0034641 GO:0035336 GO:0035337 GO:0035383 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043603 GO:0044237 GO:0044238 GO:0044249 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0044550 GO:0046483 GO:0050062 GO:0050896 GO:0051186 GO:0055086 GO:0055114 GO:0071704 GO:0071944 GO:0072521 GO:0080019 GO:1901135 GO:1901360 GO:1901362 GO:1901564 GO:1901568 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00073 ko04146 ko04212 map00073 map04146 map04212

Pfam Domains

Protein Families

NAD_binding_4 Sterile

Protein Analysis

274

Amino Acids

30.69

Weight (kDa)

7.63

Isoelectric Point (pI)

34.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	15 - 167	4e-08	NAD dependent epimerase/dehydratase family
Polysacc_synt_2	PF02719	15 - 154	8.3e-06	Polysaccharide biosynthesis protein
3Beta_HSD	PF01073	16 - 214	4.4e-07	3-beta hydroxysteroid dehydrogenase/isomerase family
NAD_binding_4	PF07993	17 - 273	8.2e-61	Male sterility 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: OG0000227)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G44550 AT3G44550 AT3G44560 AT3G44560 AT3G44560
fragaria_vesca	FvH4_3g09600 FvH4_3g24560 FvH4_3g24560 FvH4_3g24560 FvH4_3g24570 FvH4_3g24570 FvH4_3g38410 FvH4_3g38410 FvH4_3g38410 FvH4_5g01800 FvH4_7g07480 FvH4_7g07480
malus_domestica	MD02G1239300.v1.1 MD03G1141400.v1.1 MD03G1141600.v1.1 MD03G1141700.v1.1 MD10G1066600.v1.1 MD11G1171600.v1.1
prunus_persica	Prupe.6G126600_v2.0.a1 Prupe.6G126700_v2.0.a1 Prupe.6G126700_v2.0.a1 Prupe.6G126800_v2.0.a1
pyrus_communis	pycom03g09610 pycom03g09620 pycom03g09650 pycom10g05210 pycom11g13330
rosa_chinensis	RchiOBHm_Chr3g0483921 RchiOBHm_Chr5g0043321 RchiOBHm_Chr5g0044031 RchiOBHm_Chr5g0044071 RchiOBHm_Chr5g0069061 RchiOBHm_Chr5g0069111 RchiOBHm_Chr5g0069131 RchiOBHm_Chr6g0256891 RchiOBHm_Chr6g0256901 RchiOBHm_Chr7g0198821 RchiOBHm_Chr7g0198851 RchiOBHm_Chr7g0198861 RchiOBHm_Chr7g0219381 RchiOBHm_Chr7g0230491
rosa_laevigata	RLG00000001491 RLG00000003837 RLG00000014654 RLG00000014655 RLG00000020958 RLG00000023252 RLG00000028966 RLG00000034179 RLG00000034211 RLG00000034236 RLG00000034238 RLG00000036034 RLG00000036038
rosa_multiflora	Rmu_co8020118.1_g000001 Rmu_sc0000060.1_g000002 Rmu_sc0000060.1_g000026 Rmu_sc0001157.1_g000010 Rmu_sc0001157.1_g000016 Rmu_sc0002252.1_g000009 Rmu_sc0003076.1_g000025 Rmu_sc0008623.1_g000018 Rmu_sc0008623.1_g000021 Rmu_sc0022203.1_g000001
rosa_roxburghii	Rroxscaffold_1G00036940 Rroxscaffold_1G00036990 Rroxscaffold_3G00230110 Rroxscaffold_3G00257340 Rroxscaffold_3G00257380 Rroxscaffold_6G00398020 Rroxscaffold_6G00398040 Rroxscaffold_7G00208240 Rroxscaffold_7G00208260
rosa_rugosa	Rorug01G0059500 Rorug03G0208700 Rorug03G0208700 Rorug03G0208800 Rorug03G0208900 Rorug03G0208900 Rorug04G0119300 Rorug05G0210300 Rorug05G0210300 Rorug05G0395800 Rorug05G0396000 Rorug05G0396100 Rorug05G0396200 Rorug05G0577200 Rorug07G0050100 Rorug07G0050200 Rorug07G0215200
rosa_samantha	Rh1BG061200 Rh2BG536700 Rh2DG545600 Rh3AG257500 Rh3BG294300 Rh3BG322600 Rh3CG292100 Rh3DG287300 Rh4BG178300 Rh5AG290800 Rh5AG291000 Rh5AG294200 Rh5AG294300 Rh5BG297400 Rh5BG302600 Rh5BG303000 Rh5CG329900 Rh5CG330100 Rh5DG307000 Rh5DG311500 Rh5DG311700 Rh6AG095800 Rh6BG086800 Rh6BG086900 Rh6CG082900 Rh6DG078600 Rh6DG078700 Rh7AG173700 Rh7AG174000 Rh7AG174100 Rh7AG327500 Rh7AG412100 Rh7BG177100 Rh7CG182900 Rh7CG183100 Rh7CG344800 Rh7CG429900 Rh7DG176600
rosa_wichuraiana	Rw0G003880 Rw0G006090 Rw2G043200 Rw3G023270 Rw3G023310 Rw5G026990 Rw5G027280 Rw5G027300 Rw5G042270 Rw6G008160 Rw7G015210 Rw7G015230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	626
AccB1I	GGYRCC	1 cut(s)	650
AciI	CCGC	1 cut(s)	654
AclWI	GGATC	1 cut(s)	815
AcoI	YGGCCR	1 cut(s)	677
AcsI	RAATTY	1 cut(s)	542
AcuI	CTGAAG	1 cut(s)	50
AcvI	CACGTG	1 cut(s)	454
AfaI	GTAC	3 cut(s)	318, 671, 781
AfiI	CCNNNNNNNGG	1 cut(s)	800
AflIII	ACRYGT	1 cut(s)	453
AgsI	TTSAA	7 cut(s)	107, 266, 403, 433, 513, 553, 589
AjiI	CACGTC	1 cut(s)	115
AluBI	AGCT	3 cut(s)	59, 143, 464
AluI	AGCT	3 cut(s)	59, 143, 464
AlwI	GGATC	1 cut(s)	815
AoxI	GGCC	1 cut(s)	677
ApeKI	GCWGC	1 cut(s)	338
ApoI	RAATTY	1 cut(s)	542
AsuHPI	GGTGA	2 cut(s)	488, 715
BaeI	ACNNNNGTAYC	2 cut(s)	675, 708
BalI	TGGCCA	1 cut(s)	679
BanI	GGYRCC	1 cut(s)	650
BbrPI	CACGTG	1 cut(s)	454
BbvI	GCAGC	1 cut(s)	350
BccI	CCATC	3 cut(s)	436, 517, 700
BciVI	GTATCC	1 cut(s)	17
BfaI	CTAG	3 cut(s)	272, 497, 722
BfmI	CTRYAG	1 cut(s)	336
BfuI	GTATCC	1 cut(s)	17
BglII	AGATCT	1 cut(s)	268
BisI	GCNGC	1 cut(s)	339
BlsI	GCNGC	1 cut(s)	340
BmgBI	CACGTC	1 cut(s)	115
BmiI	GGNNCC	2 cut(s)	652, 792
BmrI	ACTGGG	1 cut(s)	531
BmsI	GCATC	1 cut(s)	139
BmuI	ACTGGG	1 cut(s)	531
BplI	GAGNNNNNCTC	2 cut(s)	491, 523
BpmI	CTGGAG	1 cut(s)	75
BsaAI	YACGTR	1 cut(s)	454
BsaXI	ACNNNNNCTCC	2 cut(s)	569, 599
Bsc4I	CCNNNNNNNGG	1 cut(s)	800
Bse118I	RCCGGY	1 cut(s)	62
Bse1I	ACTGG	3 cut(s)	58, 284, 537
Bse3DI	GCAATG	2 cut(s)	316, 642
BseGI	GGATG	2 cut(s)	385, 523
BseLI	CCNNNNNNNGG	1 cut(s)	800
BseMI	GCAATG	2 cut(s)	316, 642
BseMII	CTCAG	1 cut(s)	179
BseNI	ACTGG	3 cut(s)	58, 284, 537
BseRI	GAGGAG	1 cut(s)	496
BseXI	GCAGC	1 cut(s)	350
BsgI	GTGCAG	1 cut(s)	225
BshFI	GGCC	1 cut(s)	679
BshNI	GGYRCC	1 cut(s)	650
BsiSI	CCGG	1 cut(s)	63
BslI	CCNNNNNNNGG	1 cut(s)	800
BsmI	GAATGC	1 cut(s)	15
BsnI	GGCC	1 cut(s)	679
Bsp143I	GATC	2 cut(s)	268, 807
BspACI	CCGC	1 cut(s)	654
BspANI	GGCC	1 cut(s)	679
BspCNI	CTCAG	1 cut(s)	180
BspLI	GGNNCC	2 cut(s)	652, 792
BspMAI	CTGCAG	1 cut(s)	340
BspPI	GGATC	1 cut(s)	815
BspT107I	GGYRCC	1 cut(s)	650
BsrDI	GCAATG	2 cut(s)	316, 642
BsrFI	RCCGGY	1 cut(s)	62
BsrI	ACTGG	3 cut(s)	58, 284, 537
BssAI	RCCGGY	1 cut(s)	62
BssMI	GATC	2 cut(s)	268, 807
Bst6I	CTCTTC	2 cut(s)	294, 514
BstBAI	YACGTR	1 cut(s)	454
BstC8I	GCNNGC	1 cut(s)	173
BstDEI	CTNAG	4 cut(s)	188, 348, 646, 663
BstF5I	GGATG	2 cut(s)	385, 523
BstKTI	GATC	2 cut(s)	271, 810
BstMBI	GATC	2 cut(s)	268, 807
BstMWI	GCNNNNNNNGC	3 cut(s)	149, 158, 608
BstNSI	RCATGY	2 cut(s)	175, 731
BstSFI	CTRYAG	1 cut(s)	336
BstV1I	GCAGC	1 cut(s)	350
BstX2I	RGATCY	1 cut(s)	268
BstYI	RGATCY	1 cut(s)	268
BsuI	GTATCC	1 cut(s)	17
BsuRI	GGCC	1 cut(s)	679
BtrI	CACGTC	1 cut(s)	115
BtsCI	GGATG	2 cut(s)	385, 523
BtsIMutI	CAGTG	1 cut(s)	51
Cac8I	GCNNGC	1 cut(s)	173
Cfr10I	RCCGGY	1 cut(s)	62
Csp6I	GTAC	3 cut(s)	317, 670, 780
CviAII	CATG	2 cut(s)	172, 728
CviQI	GTAC	3 cut(s)	317, 670, 780
DdeI	CTNAG	4 cut(s)	188, 348, 646, 663
DpnI	GATC	2 cut(s)	270, 809
DpnII	GATC	2 cut(s)	268, 807
EaeI	YGGCCR	1 cut(s)	677
Eam1104I	CTCTTC	2 cut(s)	294, 514
EarI	CTCTTC	2 cut(s)	294, 514
Eco57I	CTGAAG	1 cut(s)	50
Eco72I	CACGTG	1 cut(s)	454
EcoT22I	ATGCAT	1 cut(s)	177
FaeI	CATG	2 cut(s)	175, 731
FalI	AAGNNNNNCTT	2 cut(s)	29, 61
FatI	CATG	2 cut(s)	171, 727
Fnu4HI	GCNGC	1 cut(s)	339
FokI	GGATG	2 cut(s)	392, 530
Fsp4HI	GCNGC	1 cut(s)	339
FspBI	CTAG	3 cut(s)	272, 497, 722
GluI	GCNGC	1 cut(s)	339
GsuI	CTGGAG	1 cut(s)	75
HaeIII	GGCC	1 cut(s)	679
HapII	CCGG	1 cut(s)	63
Hin1II	CATG	2 cut(s)	175, 731
HincII	GTYRAC	1 cut(s)	459
HindII	GTYRAC	1 cut(s)	459
HinfI	GANTC	2 cut(s)	215, 503
HpaII	CCGG	1 cut(s)	63
HphI	GGTGA	2 cut(s)	488, 715
Hpy166II	GTNNAC	2 cut(s)	451, 459
Hpy188I	TCNGA	3 cut(s)	148, 189, 616
Hpy188III	TCNNGA	2 cut(s)	249, 266
Hpy8I	GTNNAC	2 cut(s)	451, 459
HpyAV	CCTTC	1 cut(s)	806
HpyCH4IV	ACGT	3 cut(s)	114, 453, 760
HpyCH4V	TGCA	6 cut(s)	175, 206, 309, 338, 635, 731
HpyF10VI	GCNNNNNNNGC	3 cut(s)	149, 158, 608
HpyF3I	CTNAG	4 cut(s)	188, 348, 646, 663
HpySE526I	ACGT	3 cut(s)	114, 453, 760
Hsp92II	CATG	2 cut(s)	175, 731
Kzo9I	GATC	2 cut(s)	268, 807
LmnI	GCTCC	2 cut(s)	56, 790
Lsp1109I	GCAGC	1 cut(s)	350
LweI	GCATC	1 cut(s)	139
MaeI	CTAG	3 cut(s)	272, 497, 722
MaeII	ACGT	3 cut(s)	114, 453, 760
MalI	GATC	2 cut(s)	270, 809
MboI	GATC	2 cut(s)	268, 807
MboII	GAAGA	6 cut(s)	43, 122, 311, 501, 629, 652
MflI	RGATCY	1 cut(s)	268
MlsI	TGGCCA	1 cut(s)	679
MluCI	AATT	6 cut(s)	5, 197, 258, 331, 434, 542
MluNI	TGGCCA	1 cut(s)	679
MlyI	GAGTC	1 cut(s)	497
MmeI	TCCRAC	3 cut(s)	357, 390, 788
MnlI	CCTC	4 cut(s)	175, 183, 493, 517
Mox20I	TGGCCA	1 cut(s)	679
Mph1103I	ATGCAT	1 cut(s)	177
MscI	TGGCCA	1 cut(s)	679
MseI	TTAA	4 cut(s)	47, 98, 137, 330
Msp20I	TGGCCA	1 cut(s)	679
MspI	CCGG	1 cut(s)	63
Mva1269I	GAATGC	1 cut(s)	15
MwoI	GCNNNNNNNGC	3 cut(s)	149, 158, 608
NdeII	GATC	2 cut(s)	268, 807
NlaIII	CATG	2 cut(s)	175, 731
NlaIV	GGNNCC	2 cut(s)	652, 792
NsiI	ATGCAT	1 cut(s)	177
NspI	RCATGY	2 cut(s)	175, 731
PaeI	GCATGC	1 cut(s)	175
PctI	GAATGC	1 cut(s)	15
PfeI	GAWTC	1 cut(s)	215
PkrI	GCNGC	1 cut(s)	340
PleI	GAGTC	1 cut(s)	497
PmaCI	CACGTG	1 cut(s)	454
PmlI	CACGTG	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	497
Ppu21I	YACGTR	1 cut(s)	454
PsiI	TTATAA	1 cut(s)	626
PspCI	CACGTG	1 cut(s)	454
PspN4I	GGNNCC	2 cut(s)	652, 792
PstI	CTGCAG	1 cut(s)	340
PsuI	RGATCY	1 cut(s)	268
RsaI	GTAC	3 cut(s)	318, 671, 781
RsaNI	GTAC	3 cut(s)	317, 670, 780
SaqAI	TTAA	4 cut(s)	47, 98, 137, 330
SatI	GCNGC	1 cut(s)	339
Sau3AI	GATC	2 cut(s)	268, 807
SchI	GAGTC	1 cut(s)	497
SfaNI	GCATC	1 cut(s)	139
SfcI	CTRYAG	1 cut(s)	336
SphI	GCATGC	1 cut(s)	175
Sse9I	AATT	6 cut(s)	5, 197, 258, 331, 434, 542
SsiI	CCGC	1 cut(s)	654
SspI	AATATT	1 cut(s)	96
SspMI	CTAG	3 cut(s)	272, 497, 722
TaiI	ACGT	3 cut(s)	117, 456, 763
TaqI	TCGA	1 cut(s)	810
TasI	AATT	6 cut(s)	5, 197, 258, 331, 434, 542
TatI	WGTACW	2 cut(s)	316, 779
TfiI	GAWTC	1 cut(s)	215
Tru1I	TTAA	4 cut(s)	47, 98, 137, 330
Tru9I	TTAA	4 cut(s)	47, 98, 137, 330
TscAI	CASTG	1 cut(s)	58
TseI	GCWGC	1 cut(s)	338
TspDTI	ATGAA	3 cut(s)	327, 372, 653
TspRI	CASTG	1 cut(s)	58
XapI	RAATTY	1 cut(s)	542
XceI	RCATGY	2 cut(s)	175, 731
XcmI	CCANNNNNNNNNTGG	1 cut(s)	801
XspI	CTAG	3 cut(s)	272, 497, 722
Zsp2I	ATGCAT	1 cut(s)	177

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