Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0010422

Physical Location & Seq

Genomic Coordinates Forward (+)

25863169 .. 25868264

Gene Structure 5096 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG246500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1398 bp

ATGAACAAGTCTCTAACTACAACACAAGATCCAGGCAGTCATTACAATCGCAGTGATCAACTTCAAGACCAAAGCATTGTGATTCCCGCCAAACTCATCAATCTCGCTAATAGCTTCGAAAAGAAAGAACACTCCTGGTTCATCACTTCTCATGTCCCAACGGACCTTACAATTCGAGTTCAAGAAATCACCTTCAATGTTCACAAGTATCCTGTGGTAGCAAAATGTGGCTACATAGGTCAATTGGAATTTCAGCCTTCGATCTCAAATTTTGGCAATGACTTGAAGCTTGAAAACTTCCCAGGTGGACCAGAAACCTTTGAAATGATTCTAAAATTCTGTTATGGTCTCCCACTGGATTTAAACCCTAACAATATAGCTCCACTAAGATGCGGATCAGAATTTCTAGAAATGACTGAAGAACTTCAAGCTGGAAATCTGATTTCCAAGACTGAATCTTTTCTGACATTGGTAGTCCTTTCTTCTTGGAAAGATACCATCACTGTACTTAAGTCCTGTGAAACTCTATCTCCATGGGCTGAGAATCTTCAAATTGTCAGAAGATGCTGCGACTCAATTGCATGGAAGGCTACTAGAGAAAACACCAGTGGGGATGCCGACGGTCAAGAACAATGGTGGTTTCATGAAGTGGCCACCTTTCGAATAGATCATTTCATGAGGGTCATATCGACAATAAAAGCAAAGAATACAAGGCCAGAGTTTATAGGTAAATGTATCATGCACTATGCAGAAAGATGGTTGCCAGGCATGGATGTGGAGTTTGAAGGACTAAGAGGATATGGAATTGCAAGAAATGACCTGCAGTTCAGTATCCTGAGTAACAGGAAAGAGGAAGGCGATTATGGACACAGCCAAGAGCAAAAAGCAATTATTGAAAGCCTCCTAAGCGTGCTTCCTCCCCAAAATGAAGCTGTTCCATGTAAATTCTTATTGCAGATGTTAAAGATGGCAATGATGTACTCGGCATCGCCAGCTTTGATTTCAGAGCTTGAAAAGAGAGTAGGGATGATGTTAGAAGATGCCACAGTCAATGATTTGCTGATTCCAAGTTATAATATTGCAGACCAAGGGAAACTGGTGAAATCTCCAGAAGAACGCACGATGCACGACATTGATGTTGTTCAAAGGATTGTGGAATATTTCTTGATGCATGAGCATCAACAGCAAGAGAAGACTGGTAAAACCAATATCAGTAAGCTCTTGGACAGCTACCTGGCTGAGATTGCAGGAGACCCAAATCTCTCGATAACCAAGTTTCAAGTATTGGCTGAATTGCTGCCTGAAAATGCTCGAGCATGTGATGATGGTCTTTATAGGGCTATTGACACCTATCTGAAGGTTAACTACCTACCTGTTCCTATAGTTTTTACTTTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003002 GO:0003006 GO:0007275 GO:0007389 GO:0008150 GO:0009653 GO:0009790 GO:0009791 GO:0009793 GO:0009888 GO:0009965 GO:0010016 GO:0010051 GO:0010087 GO:0010154 GO:0010305 GO:0010588 GO:0022414 GO:0022622 GO:0032501 GO:0032502 GO:0048316 GO:0048364 GO:0048366 GO:0048367 GO:0048598 GO:0048608 GO:0048731 GO:0048825 GO:0048826 GO:0048827 GO:0048856 GO:0061458 GO:0080022 GO:0090698 GO:0099402 GO:1905392

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BTB NPH3

Protein Analysis

465

Amino Acids

52.87

Weight (kDa)

5.24

Isoelectric Point (pI)

50.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NPH3	PF03000	211 - 454	1.5e-75	NPH3 family

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: OG0010422)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G10250 AT5G10250
malus_domestica	MD01G1030300.v1.1 MD15G1323900.v1.1
prunus_persica	Prupe.6G187200_v2.0.a1
pyrus_communis	pycom01g05810 pycom15g28570 pycom15g28590
rosa_chinensis	RchiOBHm_Chr2g0113481
rosa_laevigata	RLG00000018068
rosa_multiflora	Rmu_sc0000929.1_g000050 Rmu_sc0007415.1_g000020
rosa_roxburghii	Rroxscaffold_2G00129210
rosa_rugosa	Rorug02G0187800 Rorug02G0187800
rosa_samantha	Rh2AG242300 Rh2BG256300 Rh2CG246500 Rh2DG250300
rosa_wichuraiana	Rw0G018880 Rw2G018940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1074
Acc36I	ACCTGC	1 cut(s)	828
AciI	CCGC	2 cut(s)	87, 393
AclWI	GGATC	2 cut(s)	23, 403
AcoI	YGGCCR	1 cut(s)	651
AcsI	RAATTY	5 cut(s)	248, 268, 335, 401, 944
AcuI	CTGAAG	2 cut(s)	438, 1376
AfaI	GTAC	2 cut(s)	507, 980
AflII	CTTAAG	1 cut(s)	509
AjnI	CCWGG	5 cut(s)	31, 134, 301, 763, 1233
AluBI	AGCT	9 cut(s)	114, 289, 380, 431, 932, 995, 1009, 1219, 1230
AluI	AGCT	9 cut(s)	114, 289, 380, 431, 932, 995, 1009, 1219, 1230
Alw26I	GTCTC	3 cut(s)	15, 353, 1245
AlwI	GGATC	2 cut(s)	23, 403
Ama87I	CYCGRG	1 cut(s)	1311
AoxI	GGCC	2 cut(s)	651, 713
ApeKI	GCWGC	2 cut(s)	567, 1297
ApoI	RAATTY	5 cut(s)	248, 268, 335, 401, 944
Asp700I	GAANNNNTTC	4 cut(s)	327, 423, 459, 933
AspS9I	GGNCC	2 cut(s)	163, 308
AsuHPI	GGTGA	2 cut(s)	181, 1111
AsuII	TTCGAA	2 cut(s)	117, 661
AvaI	CYCGRG	1 cut(s)	1311
AvaII	GGWCC	2 cut(s)	163, 308
BalI	TGGCCA	1 cut(s)	653
BarI	GAAGNNNNNNTAC	2 cut(s)	1349, 1381
BbsI	GAAGAC	1 cut(s)	1199
BbvI	GCAGC	2 cut(s)	554, 1284
BccI	CCATC	4 cut(s)	506, 750, 961, 1319
BcgI	CGANNNNNNTGC	2 cut(s)	560, 594
BciT130I	CCWGG	5 cut(s)	33, 136, 303, 765, 1235
BciVI	GTATCC	2 cut(s)	219, 842
BclI	TGATCA	1 cut(s)	55
BcoDI	GTCTC	3 cut(s)	15, 353, 1245
BfaI	CTAG	2 cut(s)	407, 594
BfmI	CTRYAG	2 cut(s)	821, 1380
BfrI	CTTAAG	1 cut(s)	509
BfuAI	ACCTGC	1 cut(s)	828
BfuI	GTATCC	2 cut(s)	219, 842
BisI	GCNGC	2 cut(s)	568, 1298
BlsI	GCNGC	2 cut(s)	569, 1299
Bme1390I	CCNGG	5 cut(s)	33, 136, 303, 765, 1235
Bme18I	GGWCC	2 cut(s)	163, 308
BmeT110I	CYCGRG	1 cut(s)	1311
BmgT120I	GGNCC	2 cut(s)	163, 308
BmrFI	CCNGG	5 cut(s)	33, 136, 303, 765, 1235
BmsI	GCATC	8 cut(s)	380, 554, 604, 995, 1030, 1113, 1158, 1186
BpiI	GAAGAC	1 cut(s)	1199
BpmI	CTGGAG	1 cut(s)	1092
Bpu10I	CCTNAGC	1 cut(s)	905
Bpu14I	TTCGAA	2 cut(s)	117, 661
BsaBI	GATNNNNATC	1 cut(s)	394
BsaI	GGTCTC	2 cut(s)	353, 1245
BsaJI	CCNNGG	3 cut(s)	301, 533, 1087
BsaXI	ACNNNNNCTCC	2 cut(s)	514, 544
Bse1I	ACTGG	4 cut(s)	360, 606, 1101, 1201
Bse3DI	GCAATG	2 cut(s)	283, 978
Bse8I	GATNNNNATC	1 cut(s)	394
BseBI	CCWGG	5 cut(s)	33, 136, 303, 765, 1235
BseDI	CCNNGG	3 cut(s)	301, 533, 1087
BseGI	GGATG	3 cut(s)	619, 778, 1032
BseJI	GATNNNNATC	1 cut(s)	394
BseMI	GCAATG	2 cut(s)	283, 978
BseMII	CTCAG	3 cut(s)	531, 827, 1230
BseNI	ACTGG	4 cut(s)	360, 606, 1101, 1201
BseXI	GCAGC	2 cut(s)	554, 1284
BshFI	GGCC	2 cut(s)	653, 715
BsiHKCI	CYCGRG	1 cut(s)	1311
BslFI	GGGAC	1 cut(s)	140
BsmAI	GTCTC	3 cut(s)	15, 353, 1245
BsmFI	GGGAC	1 cut(s)	140
BsnI	GGCC	2 cut(s)	653, 715
Bso31I	GGTCTC	2 cut(s)	353, 1245
BsoBI	CYCGRG	1 cut(s)	1311
Bsp119I	TTCGAA	2 cut(s)	117, 661
Bsp143I	GATC	5 cut(s)	28, 55, 261, 395, 667
Bsp19I	CCATGG	1 cut(s)	533
BspACI	CCGC	2 cut(s)	87, 393
BspANI	GGCC	2 cut(s)	653, 715
BspCNI	CTCAG	3 cut(s)	532, 828, 1231
BspHI	TCATGA	2 cut(s)	643, 675
BspMAI	CTGCAG	1 cut(s)	825
BspMI	ACCTGC	1 cut(s)	828
BspPI	GGATC	2 cut(s)	23, 403
BspT104I	TTCGAA	2 cut(s)	117, 661
BspTI	CTTAAG	1 cut(s)	509
BspTNI	GGTCTC	2 cut(s)	353, 1245
BsrDI	GCAATG	2 cut(s)	283, 978
BsrI	ACTGG	4 cut(s)	360, 606, 1101, 1201
BssECI	CCNNGG	3 cut(s)	301, 533, 1087
BssMI	GATC	5 cut(s)	28, 55, 261, 395, 667
BssT1I	CCWWGG	2 cut(s)	533, 1087
Bst2UI	CCWGG	5 cut(s)	33, 136, 303, 765, 1235
Bst4CI	ACNGT	3 cut(s)	505, 623, 1048
BstAFI	CTTAAG	1 cut(s)	509
BstBI	TTCGAA	2 cut(s)	117, 661
BstC8I	GCNNGC	2 cut(s)	911, 993
BstDEI	CTNAG	6 cut(s)	386, 540, 791, 836, 905, 1239
BstDSI	CCRYGG	1 cut(s)	533
BstF5I	GGATG	3 cut(s)	619, 778, 1032
BstKTI	GATC	5 cut(s)	31, 58, 264, 398, 670
BstMAI	GTCTC	3 cut(s)	15, 353, 1245
BstMBI	GATC	5 cut(s)	28, 55, 261, 395, 667
BstMWI	GCNNNNNNNGC	5 cut(s)	587, 906, 992, 1183, 1244
BstNI	CCWGG	5 cut(s)	33, 136, 303, 765, 1235
BstNSI	RCATGY	1 cut(s)	1320
BstSCI	CCNGG	5 cut(s)	31, 134, 301, 763, 1233
BstSFI	CTRYAG	2 cut(s)	821, 1380
BstV1I	GCAGC	2 cut(s)	554, 1284
BstV2I	GAAGAC	1 cut(s)	1199
BstX2I	RGATCY	1 cut(s)	28
BstYI	RGATCY	1 cut(s)	28
BsuI	GTATCC	2 cut(s)	219, 842
BsuRI	GGCC	2 cut(s)	653, 715
BtgI	CCRYGG	1 cut(s)	533
BtgZI	GCGATG	1 cut(s)	972
BtsCI	GGATG	3 cut(s)	619, 778, 1032
BtsI	GCAGTG	1 cut(s)	58
BtsIMutI	CAGTG	4 cut(s)	58, 353, 501, 613
BveI	ACCTGC	1 cut(s)	828
Cac8I	GCNNGC	2 cut(s)	911, 993
CciI	TCATGA	2 cut(s)	643, 675
Cfr13I	GGNCC	2 cut(s)	163, 308
Csp6I	GTAC	2 cut(s)	506, 979
CviQI	GTAC	2 cut(s)	506, 979
DdeI	CTNAG	6 cut(s)	386, 540, 791, 836, 905, 1239
DpnI	GATC	5 cut(s)	30, 57, 263, 397, 669
DpnII	GATC	5 cut(s)	28, 55, 261, 395, 667
DraI	TTTAAA	1 cut(s)	363
EaeI	YGGCCR	1 cut(s)	651
Eco130I	CCWWGG	2 cut(s)	533, 1087
Eco31I	GGTCTC	2 cut(s)	353, 1245
Eco47I	GGWCC	2 cut(s)	163, 308
Eco57I	CTGAAG	2 cut(s)	438, 1376
Eco88I	CYCGRG	1 cut(s)	1311
EcoRII	CCWGG	5 cut(s)	31, 134, 301, 763, 1233
EcoT14I	CCWWGG	2 cut(s)	533, 1087
EcoT22I	ATGCAT	1 cut(s)	1173
ErhI	CCWWGG	2 cut(s)	533, 1087
FaqI	GGGAC	1 cut(s)	140
FauI	CCCGC	1 cut(s)	94
FbaI	TGATCA	1 cut(s)	55
Fnu4HI	GCNGC	2 cut(s)	568, 1298
FokI	GGATG	3 cut(s)	626, 785, 1039
Fsp4HI	GCNGC	2 cut(s)	568, 1298
FspBI	CTAG	2 cut(s)	407, 594
GluI	GCNGC	2 cut(s)	568, 1298
GsuI	CTGGAG	1 cut(s)	1092
HaeIII	GGCC	2 cut(s)	653, 715
HincII	GTYRAC	1 cut(s)	1363
HindII	GTYRAC	1 cut(s)	1363
HindIII	AAGCTT	1 cut(s)	287
HinfI	GANTC	6 cut(s)	82, 328, 455, 544, 572, 1063
HpaI	GTTAAC	1 cut(s)	1363
HphI	GGTGA	2 cut(s)	181, 1111
Hpy166II	GTNNAC	3 cut(s)	202, 308, 1363
Hpy188I	TCNGA	6 cut(s)	400, 441, 465, 560, 1006, 1356
Hpy8I	GTNNAC	3 cut(s)	202, 308, 1363
Hpy99I	CGWCG	1 cut(s)	623
HpyAV	CCTTC	6 cut(s)	202, 267, 580, 779, 848, 1351
HpyCH4III	ACNGT	3 cut(s)	505, 623, 1048
HpyF10VI	GCNNNNNNNGC	5 cut(s)	587, 906, 992, 1183, 1244
HpyF3I	CTNAG	6 cut(s)	386, 540, 791, 836, 905, 1239
Ksp22I	TGATCA	1 cut(s)	55
KspAI	GTTAAC	1 cut(s)	1363
Kzo9I	GATC	5 cut(s)	28, 55, 261, 395, 667
LmnI	GCTCC	1 cut(s)	385
Lsp1109I	GCAGC	2 cut(s)	554, 1284
LweI	GCATC	8 cut(s)	380, 554, 604, 995, 1030, 1113, 1158, 1186
MaeI	CTAG	2 cut(s)	407, 594
MaeIII	GTNAC	1 cut(s)	839
MalI	GATC	5 cut(s)	30, 57, 263, 397, 669
MboI	GATC	5 cut(s)	28, 55, 261, 395, 667
MboII	GAAGA	7 cut(s)	431, 474, 539, 573, 1049, 1124, 1204
MfeI	CAATTG	2 cut(s)	242, 576
MflI	RGATCY	1 cut(s)	28
MlsI	TGGCCA	1 cut(s)	653
MluNI	TGGCCA	1 cut(s)	653
MlyI	GAGTC	1 cut(s)	566
MnlI	CCTC	5 cut(s)	672, 788, 844, 911, 927
Mox20I	TGGCCA	1 cut(s)	653
Mph1103I	ATGCAT	1 cut(s)	1173
MroXI	GAANNNNTTC	4 cut(s)	327, 423, 459, 933
MscI	TGGCCA	1 cut(s)	653
MseI	TTAA	4 cut(s)	362, 510, 962, 1362
MslI	CAYNNNNRTG	2 cut(s)	388, 773
Msp20I	TGGCCA	1 cut(s)	653
MspCI	CTTAAG	1 cut(s)	509
MspR9I	CCNGG	5 cut(s)	33, 136, 303, 765, 1235
MunI	CAATTG	2 cut(s)	242, 576
MvaI	CCWGG	5 cut(s)	33, 136, 303, 765, 1235
MwoI	GCNNNNNNNGC	5 cut(s)	587, 906, 992, 1183, 1244
NcoI	CCATGG	1 cut(s)	533
NdeII	GATC	5 cut(s)	28, 55, 261, 395, 667
NmeAIII	GCCGAG	1 cut(s)	962
NsiI	ATGCAT	1 cut(s)	1173
NspI	RCATGY	1 cut(s)	1320
NspV	TTCGAA	2 cut(s)	117, 661
PaeR7I	CTCGAG	1 cut(s)	1311
PagI	TCATGA	2 cut(s)	643, 675
PdmI	GAANNNNTTC	4 cut(s)	327, 423, 459, 933
PfeI	GAWTC	5 cut(s)	82, 328, 455, 544, 1063
PkrI	GCNGC	2 cut(s)	569, 1299
PleI	GAGTC	1 cut(s)	566
PpsI	GAGTC	1 cut(s)	566
PsiI	TTATAA	1 cut(s)	1074
Psp6I	CCWGG	5 cut(s)	31, 134, 301, 763, 1233
PspGI	CCWGG	5 cut(s)	31, 134, 301, 763, 1233
PspPI	GGNCC	2 cut(s)	163, 308
PspXI	VCTCGAGB	1 cut(s)	1311
PstI	CTGCAG	1 cut(s)	825
PsuI	RGATCY	1 cut(s)	28
RsaI	GTAC	2 cut(s)	507, 980
RsaNI	GTAC	2 cut(s)	506, 979
RseI	CAYNNNNRTG	2 cut(s)	388, 773
SaqAI	TTAA	4 cut(s)	362, 510, 962, 1362
SatI	GCNGC	2 cut(s)	568, 1298
Sau3AI	GATC	5 cut(s)	28, 55, 261, 395, 667
Sau96I	GGNCC	2 cut(s)	163, 308
SchI	GAGTC	1 cut(s)	566
ScrFI	CCNGG	5 cut(s)	33, 136, 303, 765, 1235
SfaNI	GCATC	8 cut(s)	380, 554, 604, 995, 1030, 1113, 1158, 1186
SfcI	CTRYAG	2 cut(s)	821, 1380
Sfr274I	CTCGAG	1 cut(s)	1311
SfuI	TTCGAA	2 cut(s)	117, 661
SinI	GGWCC	2 cut(s)	163, 308
SlaI	CTCGAG	1 cut(s)	1311
SmiMI	CAYNNNNRTG	2 cut(s)	388, 773
SmlI	CTYRAG	2 cut(s)	509, 1311
SmoI	CTYRAG	2 cut(s)	509, 1311
SsiI	CCGC	2 cut(s)	87, 393
SspI	AATATT	2 cut(s)	1078, 1160
SspMI	CTAG	2 cut(s)	407, 594
StyD4I	CCNGG	5 cut(s)	31, 134, 301, 763, 1233
StyI	CCWWGG	2 cut(s)	533, 1087
TaaI	ACNGT	3 cut(s)	505, 623, 1048
TaqI	TCGA	7 cut(s)	117, 175, 260, 661, 689, 1265, 1312
TatI	WGTACW	2 cut(s)	505, 978
TfiI	GAWTC	5 cut(s)	82, 328, 455, 544, 1063
Tru1I	TTAA	4 cut(s)	362, 510, 962, 1362
Tru9I	TTAA	4 cut(s)	362, 510, 962, 1362
TscAI	CASTG	4 cut(s)	58, 360, 508, 613
TseI	GCWGC	2 cut(s)	567, 1297
TspDTI	ATGAA	6 cut(s)	17, 130, 632, 660, 664, 942
TspGWI	ACGGA	1 cut(s)	176
TspRI	CASTG	4 cut(s)	58, 360, 508, 613
Vha464I	CTTAAG	1 cut(s)	509
VpaK11BI	GGWCC	2 cut(s)	163, 308
XapI	RAATTY	5 cut(s)	248, 268, 335, 401, 944
XbaI	TCTAGA	1 cut(s)	406
XceI	RCATGY	1 cut(s)	1320
XhoI	CTCGAG	1 cut(s)	1311
XmnI	GAANNNNTTC	4 cut(s)	327, 423, 459, 933
XspI	CTAG	2 cut(s)	407, 594
Zsp2I	ATGCAT	1 cut(s)	1173

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