Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0000227

Physical Location & Seq

Genomic Coordinates Reverse (-)

28439758 .. 28444292

Gene Structure 4535 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG257500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1158 bp

ATGTGCAATGAAGTACAAATCATACTTAATTCTGCAGCAATCACTAGGTTTGATGAAAGGTATGATGTTGCGTTGGATGTGAATACATTTGGAGTTTTGAATATGTTGGACTTTGCAAAAAAATGCTTGAAATTGGAGATGGTTGTCCACGTGTCAACAGCTTATGTGTGTGGTGAAAGGGCAGGGCTGATACTAGAGGACTCCTCTTCAATGGATGAGATGGCAAAAAAACCCAGTAAATTTGACTTGAAATCGCAGGAAAAGAAAATGGTGGAGAACAAGTTGAAAGAACTACAAGCACAAAACGCTTCAGAAGAAGTTATAACAAGTGCAATGAAGGACTTAGGCACCGCAAGGTCTAAGTTGTACGGGTGGGCAAATACCTATGTGCTTACAAAGGTGATGGGAGAAATGTATCTAGGACATGCAAAAGGTAATCTATCTGTTGCTATTATACGTCCAACTATGATTACAAGTACATACAAGGAGCCATTTTCAGGCTGGATCGAAGGTTTCAGAACATATGATAGTGTAATTGGTGGTTACTGGAAAGGGAAGCTCACAGGCATACCTGTCGATCCTATGTCAGTAGTGGATATGATTCCAGTTGACATGGTGGTAAATTCAATAATTACAGCGATGGTCGTTAATGCAAACAAATCTGGCAAAATCATTTACCACCTGGGAACTTCATTGAGAAATCCCTTAACATTTTCTGATTTTAACAACTTTATGTTCCAATACTGCACCAAAAATCCATGGCTTAACAATGATGGAAGCCCAGTCAAGGTTGGAAAGTTGAAAATGTTGAGGAGTATGGACACTTTTCATTTGTACATGCAAATACCATTACAGGTATTAAAGTTCATGAACAAGGAATTTGACCAATATTTCCAAGACGTATACGTTAACTATAACAGGAAAGTCAAATTAGTGAAACGGTTGGTTGAGTTCTACAGAGCATATTTGCTATTCAAGGGCATCTTTGATGACACCAATGCAGAAGAGTTGCGAAGGATAGCAAGTGAGAACTACACAGATGCAGACAATTTTAATTTTGATCCAAAGTGCATAGATTGGGAAGACTACTATATGCATACTCACATTCCTGGCTTTGCAAAGCATGTTGTCATCAAACACAGCCAAAGTCGACTTTGA

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

385

Amino Acids

44.2

Weight (kDa)

8.36

Isoelectric Point (pI)

36.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NAD_binding_4	PF07993	2 - 210	3.7e-45	Male sterility protein
Sterile	PF03015	282 - 377	1.5e-13	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)	323
AccB1I	GGYRCC	1 cut(s)	347
AccI	GTMKAC	2 cut(s)	903, 1150
AciI	CCGC	1 cut(s)	351
AclWI	GGATC	3 cut(s)	512, 572, 1055
AcsI	RAATTY	3 cut(s)	239, 622, 878
AcuI	CTGAAG	1 cut(s)	294
AcvI	CACGTG	1 cut(s)	151
AfaI	GTAC	4 cut(s)	15, 368, 478, 836
AfiI	CCNNNNNNNGG	2 cut(s)	497, 787
AflIII	ACRYGT	1 cut(s)	150
AgsI	TTSAA	8 cut(s)	100, 130, 210, 250, 286, 627, 802, 976
AjnI	CCWGG	2 cut(s)	681, 1108
AluBI	AGCT	2 cut(s)	161, 559
AluI	AGCT	2 cut(s)	161, 559
AlwI	GGATC	3 cut(s)	512, 572, 1055
ApeKI	GCWGC	1 cut(s)	35
ApoI	RAATTY	3 cut(s)	239, 622, 878
AsuHPI	GGTGA	2 cut(s)	185, 412
BanI	GGYRCC	1 cut(s)	347
BbrPI	CACGTG	1 cut(s)	151
BbsI	GAAGAC	1 cut(s)	1089
BbvI	GCAGC	1 cut(s)	47
BccI	CCATC	5 cut(s)	133, 214, 397, 634, 767
BcgI	CGANNNNNNTGC	2 cut(s)	556, 590
BciT130I	CCWGG	2 cut(s)	683, 1110
BfaI	CTAG	3 cut(s)	45, 194, 419
BfmI	CTRYAG	2 cut(s)	33, 955
BisI	GCNGC	1 cut(s)	36
BlsI	GCNGC	1 cut(s)	37
Bme1390I	CCNGG	2 cut(s)	683, 1110
BmiI	GGNNCC	2 cut(s)	349, 489
BmrFI	CCNGG	2 cut(s)	683, 1110
BmrI	ACTGGG	2 cut(s)	228, 776
BmsI	GCATC	2 cut(s)	990, 1030
BmuI	ACTGGG	2 cut(s)	228, 776
BpiI	GAAGAC	1 cut(s)	1089
BplI	GAGNNNNNCTC	2 cut(s)	188, 220
BsaAI	YACGTR	1 cut(s)	151
BsaJI	CCNNGG	2 cut(s)	682, 758
BsaXI	ACNNNNNCTCC	2 cut(s)	266, 296
Bsc4I	CCNNNNNNNGG	2 cut(s)	497, 787
Bse1I	ACTGG	4 cut(s)	234, 551, 605, 782
Bse3DI	GCAATG	2 cut(s)	13, 339
BseBI	CCWGG	2 cut(s)	683, 1110
BseDI	CCNNGG	2 cut(s)	682, 758
BseGI	GGATG	2 cut(s)	82, 220
BseLI	CCNNNNNNNGG	2 cut(s)	497, 787
BseMI	GCAATG	2 cut(s)	13, 339
BseNI	ACTGG	4 cut(s)	234, 551, 605, 782
BseRI	GAGGAG	2 cut(s)	193, 826
BseXI	GCAGC	1 cut(s)	47
BsgI	GTGCAG	1 cut(s)	730
BshNI	GGYRCC	1 cut(s)	347
BslI	CCNNNNNNNGG	2 cut(s)	497, 787
Bsp1407I	TGTACA	1 cut(s)	834
Bsp143I	GATC	3 cut(s)	504, 577, 1060
Bsp19I	CCATGG	1 cut(s)	758
BspACI	CCGC	1 cut(s)	351
BspHI	TCATGA	1 cut(s)	867
BspLI	GGNNCC	2 cut(s)	349, 489
BspMAI	CTGCAG	1 cut(s)	37
BspPI	GGATC	3 cut(s)	512, 572, 1055
BspT107I	GGYRCC	1 cut(s)	347
BsrDI	GCAATG	2 cut(s)	13, 339
BsrGI	TGTACA	1 cut(s)	834
BsrI	ACTGG	4 cut(s)	234, 551, 605, 782
BssECI	CCNNGG	2 cut(s)	682, 758
BssMI	GATC	3 cut(s)	504, 577, 1060
BssNAI	GTATAC	1 cut(s)	904
BssT1I	CCWWGG	1 cut(s)	758
Bst1107I	GTATAC	1 cut(s)	904
Bst2UI	CCWGG	2 cut(s)	683, 1110
Bst4CI	ACNGT	1 cut(s)	942
Bst6I	CTCTTC	2 cut(s)	211, 999
BstAUI	TGTACA	1 cut(s)	834
BstBAI	YACGTR	1 cut(s)	151
BstDEI	CTNAG	2 cut(s)	343, 360
BstDSI	CCRYGG	1 cut(s)	758
BstF5I	GGATG	2 cut(s)	82, 220
BstKTI	GATC	3 cut(s)	507, 580, 1063
BstMBI	GATC	3 cut(s)	504, 577, 1060
BstMWI	GCNNNNNNNGC	1 cut(s)	305
BstNI	CCWGG	2 cut(s)	683, 1110
BstNSI	RCATGY	3 cut(s)	428, 841, 1127
BstSCI	CCNGG	2 cut(s)	681, 1108
BstSFI	CTRYAG	2 cut(s)	33, 955
BstV1I	GCAGC	1 cut(s)	47
BstV2I	GAAGAC	1 cut(s)	1089
BstZ17I	GTATAC	1 cut(s)	904
BtgI	CCRYGG	1 cut(s)	758
BtgZI	GCGATG	1 cut(s)	653
BtsCI	GGATG	2 cut(s)	82, 220
CciI	TCATGA	1 cut(s)	867
Csp6I	GTAC	4 cut(s)	14, 367, 477, 835
CviAII	CATG	6 cut(s)	425, 613, 759, 838, 868, 1124
CviJI	RGCY	9 cut(s)	161, 187, 490, 501, 559, 763, 780, 1113, 1143
CviKI_1	RGCY	9 cut(s)	161, 187, 490, 501, 559, 763, 780, 1113, 1143
CviQI	GTAC	4 cut(s)	14, 367, 477, 835
DdeI	CTNAG	2 cut(s)	343, 360
DpnI	GATC	3 cut(s)	506, 579, 1062
DpnII	GATC	3 cut(s)	504, 577, 1060
Eam1104I	CTCTTC	2 cut(s)	211, 999
EarI	CTCTTC	2 cut(s)	211, 999
Eco130I	CCWWGG	1 cut(s)	758
Eco57I	CTGAAG	1 cut(s)	294
Eco72I	CACGTG	1 cut(s)	151
EcoRII	CCWGG	2 cut(s)	681, 1108
EcoT14I	CCWWGG	1 cut(s)	758
EcoT22I	ATGCAT	1 cut(s)	1098
ErhI	CCWWGG	1 cut(s)	758
FaeI	CATG	6 cut(s)	428, 616, 762, 841, 871, 1127
FalI	AAGNNNNNCTT	2 cut(s)	968, 1000
FatI	CATG	6 cut(s)	424, 612, 758, 837, 867, 1123
FauNDI	CATATG	1 cut(s)	523
FblI	GTMKAC	2 cut(s)	903, 1150
Fnu4HI	GCNGC	1 cut(s)	36
FokI	GGATG	2 cut(s)	89, 227
Fsp4HI	GCNGC	1 cut(s)	36
FspBI	CTAG	3 cut(s)	45, 194, 419
GluI	GCNGC	1 cut(s)	36
Hin1II	CATG	6 cut(s)	428, 616, 762, 841, 871, 1127
HincII	GTYRAC	4 cut(s)	156, 610, 910, 1151
HindII	GTYRAC	4 cut(s)	156, 610, 910, 1151
HinfI	GANTC	2 cut(s)	200, 601
HpaI	GTTAAC	1 cut(s)	910
HphI	GGTGA	2 cut(s)	185, 412
Hpy166II	GTNNAC	6 cut(s)	148, 156, 610, 904, 910, 1151
Hpy188I	TCNGA	3 cut(s)	313, 518, 718
Hpy188III	TCNNGA	1 cut(s)	868
Hpy8I	GTNNAC	6 cut(s)	148, 156, 610, 904, 910, 1151
HpyAV	CCTTC	3 cut(s)	331, 503, 1008
HpyCH4III	ACNGT	1 cut(s)	942
HpyCH4IV	ACGT	4 cut(s)	150, 457, 900, 906
HpyF10VI	GCNNNNNNNGC	1 cut(s)	305
HpyF3I	CTNAG	2 cut(s)	343, 360
HpySE526I	ACGT	4 cut(s)	150, 457, 900, 906
Hsp92II	CATG	6 cut(s)	428, 616, 762, 841, 871, 1127
KspAI	GTTAAC	1 cut(s)	910
Kzo9I	GATC	3 cut(s)	504, 577, 1060
LmnI	GCTCC	1 cut(s)	487
Lsp1109I	GCAGC	1 cut(s)	47
LweI	GCATC	2 cut(s)	990, 1030
MaeI	CTAG	3 cut(s)	45, 194, 419
MaeII	ACGT	4 cut(s)	150, 457, 900, 906
MaeIII	GTNAC	1 cut(s)	542
MalI	GATC	3 cut(s)	506, 579, 1062
MboI	GATC	3 cut(s)	504, 577, 1060
MboII	GAAGA	4 cut(s)	198, 326, 1016, 1094
MlyI	GAGTC	1 cut(s)	194
MmeI	TCCRAC	4 cut(s)	54, 87, 485, 772
MnlI	CCTC	3 cut(s)	190, 214, 804
Mph1103I	ATGCAT	1 cut(s)	1098
MseI	TTAA	8 cut(s)	27, 648, 707, 723, 765, 860, 909, 1053
MspR9I	CCNGG	2 cut(s)	683, 1110
MvaI	CCWGG	2 cut(s)	683, 1110
MwoI	GCNNNNNNNGC	1 cut(s)	305
NcoI	CCATGG	1 cut(s)	758
NdeI	CATATG	1 cut(s)	523
NdeII	GATC	3 cut(s)	504, 577, 1060
NlaIII	CATG	6 cut(s)	428, 616, 762, 841, 871, 1127
NlaIV	GGNNCC	2 cut(s)	349, 489
NsiI	ATGCAT	1 cut(s)	1098
NspI	RCATGY	3 cut(s)	428, 841, 1127
PagI	TCATGA	1 cut(s)	867
PfeI	GAWTC	1 cut(s)	601
PkrI	GCNGC	1 cut(s)	37
PleI	GAGTC	1 cut(s)	194
PmaCI	CACGTG	1 cut(s)	151
PmlI	CACGTG	1 cut(s)	151
PpsI	GAGTC	1 cut(s)	194
Ppu21I	YACGTR	1 cut(s)	151
PsiI	TTATAA	1 cut(s)	323
Psp6I	CCWGG	2 cut(s)	681, 1108
PspCI	CACGTG	1 cut(s)	151
PspGI	CCWGG	2 cut(s)	681, 1108
PspN4I	GGNNCC	2 cut(s)	349, 489
PstI	CTGCAG	1 cut(s)	37
RsaI	GTAC	4 cut(s)	15, 368, 478, 836
RsaNI	GTAC	4 cut(s)	14, 367, 477, 835
SalI	GTCGAC	1 cut(s)	1149
SaqAI	TTAA	8 cut(s)	27, 648, 707, 723, 765, 860, 909, 1053
SatI	GCNGC	1 cut(s)	36
Sau3AI	GATC	3 cut(s)	504, 577, 1060
SchI	GAGTC	1 cut(s)	194
ScrFI	CCNGG	2 cut(s)	683, 1110
SfaNI	GCATC	2 cut(s)	990, 1030
SfcI	CTRYAG	2 cut(s)	33, 955
SsiI	CCGC	1 cut(s)	351
SspI	AATATT	1 cut(s)	890
SspMI	CTAG	3 cut(s)	45, 194, 419
StyD4I	CCNGG	2 cut(s)	681, 1108
StyI	CCWWGG	1 cut(s)	758
TaaI	ACNGT	1 cut(s)	942
TaiI	ACGT	4 cut(s)	153, 460, 903, 909
TaqI	TCGA	3 cut(s)	507, 576, 1150
TatI	WGTACW	3 cut(s)	13, 476, 834
TfiI	GAWTC	1 cut(s)	601
Tru1I	TTAA	8 cut(s)	27, 648, 707, 723, 765, 860, 909, 1053
Tru9I	TTAA	8 cut(s)	27, 648, 707, 723, 765, 860, 909, 1053
TseI	GCWGC	1 cut(s)	35
TspDTI	ATGAA	7 cut(s)	24, 69, 350, 681, 818, 856, 884
XapI	RAATTY	3 cut(s)	239, 622, 878
XceI	RCATGY	3 cut(s)	428, 841, 1127
XcmI	CCANNNNNNNNNTGG	1 cut(s)	498
XmiI	GTMKAC	2 cut(s)	903, 1150
XspI	CTAG	3 cut(s)	45, 194, 419
Zsp2I	ATGCAT	1 cut(s)	1098

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