Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0001341

Physical Location & Seq

Genomic Coordinates Forward (+)

29240217 .. 29240963

Gene Structure 747 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG272000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 747 bp

ATGGCAACTCTTTCGGCGGATCTCAACGGTAATGTTTCATTTCCTTCTTCTTTTCAGGTTTCAAATTGTTCTTCTAACCCTAATTTTGCCAGAGCACTGAGTTTGAATTCCAACTCCAGAAAGCTCCACTTGGTTCTTGATCTGGATCACACACTCCTCCACACCACTAAACTCTGTAATCTGACACCTGAAGAAGACTATCTCAAGATCGGAACCCATCCTCATCGAGATGTTTTCGTGCTTGAAACTGTGATCACCAAGCTCAGGCCGTTTGTCTGGAGATTCTTGGATGAAGCCAGCAAGATGTTTGAGCTGTACATATACACAAAGGGTAACCGGTACTATGCGGGTCTAATGGCTGCCCTGGTTGATCCTAGGAAGGAGTATTTCCCTTCCAGTTCTAGAGTCATATCGTGCGAGGATCACGGAATCGTGGGGCGATATAAGAGTCTGGATGCTGTGGTTGGCTGCAATTATTCTAATGTTTTGATCCTTGATGATACAGAAGAGGCATGGACAAAGGAAAGCCGGGACAATCTAATCGTTGTCGACAAGTATTGTTTCTTTAGGCACAAAATGGGCCTAGCTAAGTCTTATGCTGAGTTAAAGACTGATGAATGTGGATATCTTGCAGCACTTCTTGAAGTGCTTAAGGTAATCAACCGTGTCTTCTGTGATGAACTAGCCAGAAATCCTTCTGGTGTAGATGTGAGGGATGTGTTACAACTGTTTGAAAACAATTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0004721 GO:0004722 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006355 GO:0006357 GO:0006464 GO:0006470 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006970 GO:0008022 GO:0008150 GO:0008152 GO:0008420 GO:0009628 GO:0009651 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016311 GO:0016591 GO:0016787 GO:0016788 GO:0016791 GO:0019219 GO:0019222 GO:0019538 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0036211 GO:0042578 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070940 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BRCT NIF PTCB-BRCT

Protein Analysis

248

Amino Acids

28.19

Weight (kDa)

5.99

Isoelectric Point (pI)

28.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	43 - 188	1.8e-22	NLI interacting factor-like phosphatase

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: OG0001341)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g10330
rosa_chinensis	RchiOBHm_Chr2g0124471 RchiOBHm_Chr2g0128771 RchiOBHm_Chr3g0488911 RchiOBHm_Chr7g0210561 RchiOBHm_Chr7g0211191 RchiOBHm_Chr7g0211371 RchiOBHm_Chr7g0211471 RchiOBHm_Chr7g0211491
rosa_laevigata	RLG00000003001 RLG00000018803 RLG00000022902
rosa_multiflora	Rmu_co8429473.1_g000001 Rmu_sc0001208.1_g000002 Rmu_sc0001303.1_g000009 Rmu_sc0002283.1_g000067 Rmu_sc0005514.1_g000010 Rmu_sc0007204.1_g000013 Rmu_sc0018619.1_g000009
rosa_roxburghii	Rroxscaffold_1G00018290 Rroxscaffold_2G00115300 Rroxscaffold_2G00115330 Rroxscaffold_2G00118520 Rroxscaffold_2G00118830 Rroxscaffold_2G00119890 Rroxscaffold_3G00247870 Rroxscaffold_7G00186360 Rroxscaffold_7G00207860
rosa_rugosa	Rorug02G0280300 Rorug02G0280400 Rorug07G0125400
rosa_samantha	Rh2AG309500 Rh2AG309600 Rh2BG318300 Rh2BG341600 Rh2CG296400 Rh2CG301400 Rh2DG333500 Rh2DG358300 Rh3AG290600 Rh3DG323500 Rh7AG256900 Rh7AG257900 Rh7BG252000 Rh7CG273400 Rh7CG274500 Rh7CG274600 Rh7DG263300 Rh7DG263400 Rh7DG263900 Rh7DG265100 Rh7DG272000
rosa_wichuraiana	Rw2G025010 Rw7G022690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	549
AciI	CCGC	2 cut(s)	17, 347
AclWI	GGATC	5 cut(s)	27, 153, 365, 429, 484
AcsI	RAATTY	1 cut(s)	106
AcuI	CTGAAG	1 cut(s)	210
AfaI	GTAC	2 cut(s)	317, 341
AfiI	CCNNNNNNNGG	1 cut(s)	264
AflII	CTTAAG	1 cut(s)	650
AgeI	ACCGGT	1 cut(s)	336
AgsI	TTSAA	5 cut(s)	63, 106, 245, 644, 734
AjnI	CCWGG	1 cut(s)	363
AluBI	AGCT	4 cut(s)	124, 262, 313, 587
AluI	AGCT	4 cut(s)	124, 262, 313, 587
Alw21I	GWGCWC	1 cut(s)	97
AlwI	GGATC	5 cut(s)	27, 153, 365, 429, 484
AoxI	GGCC	2 cut(s)	266, 580
ApeKI	GCWGC	3 cut(s)	359, 468, 632
ApoI	RAATTY	1 cut(s)	106
AsiGI	ACCGGT	1 cut(s)	336
Asp700I	GAANNNNTTC	1 cut(s)	694
AspA2I	CCTAGG	1 cut(s)	374
AspS9I	GGNCC	1 cut(s)	580
AsuC2I	CCSGG	1 cut(s)	530
AsuHPI	GGTGA	1 cut(s)	247
AvrII	CCTAGG	1 cut(s)	374
BbsI	GAAGAC	2 cut(s)	201, 661
Bbv12I	GWGCWC	1 cut(s)	97
BbvI	GCAGC	3 cut(s)	346, 455, 644
BccI	CCATC	1 cut(s)	225
BceAI	ACGGC	1 cut(s)	253
BcgI	CGANNNNNNTGC	1 cut(s)	28
BciT130I	CCWGG	1 cut(s)	365
BclI	TGATCA	1 cut(s)	252
BcnI	CCSGG	1 cut(s)	530
BfaI	CTAG	4 cut(s)	375, 402, 584, 683
BfrI	CTTAAG	1 cut(s)	650
BisI	GCNGC	3 cut(s)	360, 469, 633
BlnI	CCTAGG	1 cut(s)	374
BlsI	GCNGC	3 cut(s)	361, 470, 634
Bme1390I	CCNGG	2 cut(s)	365, 530
BmgT120I	GGNCC	1 cut(s)	580
BmiI	GGNNCC	1 cut(s)	214
BmrFI	CCNGG	2 cut(s)	365, 530
BmsI	GCATC	1 cut(s)	445
BpiI	GAAGAC	2 cut(s)	201, 661
BpmI	CTGGAG	2 cut(s)	100, 298
Bpu10I	CCTNAGC	1 cut(s)	263
BpuEI	CTTGAG	1 cut(s)	188
BpuMI	CCSGG	1 cut(s)	530
BsaBI	GATNNNNATC	1 cut(s)	144
BsaJI	CCNNGG	2 cut(s)	363, 374
BsaWI	WCCGGW	1 cut(s)	336
Bsc4I	CCNNNNNNNGG	1 cut(s)	264
Bse118I	RCCGGY	1 cut(s)	336
Bse1I	ACTGG	1 cut(s)	396
Bse8I	GATNNNNATC	1 cut(s)	144
BseBI	CCWGG	1 cut(s)	365
BseDI	CCNNGG	2 cut(s)	363, 374
BseGI	GGATG	4 cut(s)	217, 295, 460, 721
BseJI	GATNNNNATC	1 cut(s)	144
BseLI	CCNNNNNNNGG	1 cut(s)	264
BseMII	CTCAG	3 cut(s)	89, 277, 591
BseNI	ACTGG	1 cut(s)	396
BseRI	GAGGAG	1 cut(s)	146
BseXI	GCAGC	3 cut(s)	346, 455, 644
BshFI	GGCC	2 cut(s)	268, 582
BshTI	ACCGGT	1 cut(s)	336
BsiHKAI	GWGCWC	1 cut(s)	97
BsiSI	CCGG	2 cut(s)	337, 529
BslFI	GGGAC	1 cut(s)	545
BslI	CCNNNNNNNGG	1 cut(s)	264
BsmFI	GGGAC	1 cut(s)	545
BsnI	GGCC	2 cut(s)	268, 582
Bsp1286I	GDGCHC	1 cut(s)	97
Bsp1407I	TGTACA	1 cut(s)	315
Bsp143I	GATC	8 cut(s)	19, 139, 145, 207, 252, 370, 421, 489
BspACI	CCGC	2 cut(s)	17, 347
BspANI	GGCC	2 cut(s)	268, 582
BspCNI	CTCAG	3 cut(s)	90, 276, 592
BspLI	GGNNCC	1 cut(s)	214
BspPI	GGATC	5 cut(s)	27, 153, 365, 429, 484
BspTI	CTTAAG	1 cut(s)	650
BsrFI	RCCGGY	1 cut(s)	336
BsrGI	TGTACA	1 cut(s)	315
BsrI	ACTGG	1 cut(s)	396
BssAI	RCCGGY	1 cut(s)	336
BssECI	CCNNGG	2 cut(s)	363, 374
BssMI	GATC	8 cut(s)	19, 139, 145, 207, 252, 370, 421, 489
BssT1I	CCWWGG	1 cut(s)	374
Bst2UI	CCWGG	1 cut(s)	365
Bst4CI	ACNGT	4 cut(s)	29, 250, 665, 729
Bst6I	CTCTTC	1 cut(s)	501
BstAFI	CTTAAG	1 cut(s)	650
BstAUI	TGTACA	1 cut(s)	315
BstC8I	GCNNGC	1 cut(s)	298
BstDEI	CTNAG	4 cut(s)	98, 263, 588, 600
BstEII	GGTNACC	1 cut(s)	332
BstF5I	GGATG	4 cut(s)	217, 295, 460, 721
BstKTI	GATC	8 cut(s)	22, 142, 148, 210, 255, 373, 424, 492
BstMBI	GATC	8 cut(s)	19, 139, 145, 207, 252, 370, 421, 489
BstNI	CCWGG	1 cut(s)	365
BstPI	GGTNACC	1 cut(s)	332
BstSCI	CCNGG	2 cut(s)	363, 528
BstV1I	GCAGC	3 cut(s)	346, 455, 644
BstV2I	GAAGAC	2 cut(s)	201, 661
BstX2I	RGATCY	1 cut(s)	19
BstYI	RGATCY	1 cut(s)	19
BsuRI	GGCC	2 cut(s)	268, 582
BtsCI	GGATG	4 cut(s)	217, 295, 460, 721
BtsIMutI	CAGTG	1 cut(s)	95
Cac8I	GCNNGC	1 cut(s)	298
Cfr10I	RCCGGY	1 cut(s)	336
Cfr13I	GGNCC	1 cut(s)	580
Csp6I	GTAC	2 cut(s)	316, 340
CspAI	ACCGGT	1 cut(s)	336
CviAII	CATG	1 cut(s)	513
CviQI	GTAC	2 cut(s)	316, 340
DdeI	CTNAG	4 cut(s)	98, 263, 588, 600
DpnI	GATC	8 cut(s)	21, 141, 147, 209, 254, 372, 423, 491
DpnII	GATC	8 cut(s)	19, 139, 145, 207, 252, 370, 421, 489
Eam1104I	CTCTTC	1 cut(s)	501
EarI	CTCTTC	1 cut(s)	501
EciI	GGCGGA	1 cut(s)	32
Eco130I	CCWWGG	1 cut(s)	374
Eco32I	GATATC	1 cut(s)	626
Eco57I	CTGAAG	1 cut(s)	210
Eco91I	GGTNACC	1 cut(s)	332
EcoO65I	GGTNACC	1 cut(s)	332
EcoRI	GAATTC	1 cut(s)	106
EcoRII	CCWGG	1 cut(s)	363
EcoRV	GATATC	1 cut(s)	626
EcoT14I	CCWWGG	1 cut(s)	374
ErhI	CCWWGG	1 cut(s)	374
FaeI	CATG	1 cut(s)	516
FaiI	YATR	7 cut(s)	320, 322, 345, 410, 444, 514, 597
FalI	AAGNNNNNCTT	2 cut(s)	113, 145
FaqI	GGGAC	1 cut(s)	545
FatI	CATG	1 cut(s)	512
FauI	CCCGC	1 cut(s)	340
FbaI	TGATCA	1 cut(s)	252
FblI	GTMKAC	1 cut(s)	549
Fnu4HI	GCNGC	3 cut(s)	360, 469, 633
FokI	GGATG	4 cut(s)	204, 302, 467, 728
Fsp4HI	GCNGC	3 cut(s)	360, 469, 633
FspBI	CTAG	4 cut(s)	375, 402, 584, 683
GluI	GCNGC	3 cut(s)	360, 469, 633
GsuI	CTGGAG	2 cut(s)	100, 298
HaeIII	GGCC	2 cut(s)	268, 582
HapII	CCGG	2 cut(s)	337, 529
Hin1II	CATG	1 cut(s)	516
HincII	GTYRAC	1 cut(s)	550
HindII	GTYRAC	1 cut(s)	550
HinfI	GANTC	4 cut(s)	282, 405, 429, 448
HpaII	CCGG	2 cut(s)	337, 529
HphI	GGTGA	1 cut(s)	247
Hpy166II	GTNNAC	1 cut(s)	550
Hpy188I	TCNGA	2 cut(s)	183, 212
Hpy188III	TCNNGA	9 cut(s)	117, 137, 143, 205, 227, 277, 402, 452, 641
Hpy8I	GTNNAC	1 cut(s)	550
HpyAV	CCTTC	4 cut(s)	54, 373, 402, 705
HpyCH4III	ACNGT	4 cut(s)	29, 250, 665, 729
HpyCH4V	TGCA	2 cut(s)	471, 632
HpyF3I	CTNAG	4 cut(s)	98, 263, 588, 600
Hsp92II	CATG	1 cut(s)	516
Ksp22I	TGATCA	1 cut(s)	252
Kzo9I	GATC	8 cut(s)	19, 139, 145, 207, 252, 370, 421, 489
LmnI	GCTCC	1 cut(s)	129
Lsp1109I	GCAGC	3 cut(s)	346, 455, 644
LweI	GCATC	1 cut(s)	445
MaeI	CTAG	4 cut(s)	375, 402, 584, 683
MaeIII	GTNAC	2 cut(s)	332, 720
MalI	GATC	8 cut(s)	21, 141, 147, 209, 254, 372, 423, 491
MboI	GATC	8 cut(s)	19, 139, 145, 207, 252, 370, 421, 489
MboII	GAAGA	6 cut(s)	39, 63, 203, 206, 518, 661
MfeI	CAATTG	1 cut(s)	739
MflI	RGATCY	1 cut(s)	19
MhlI	GDGCHC	1 cut(s)	97
MluCI	AATT	5 cut(s)	64, 82, 106, 472, 739
MlyI	GAGTC	2 cut(s)	414, 457
MmeI	TCCRAC	1 cut(s)	135
MnlI	CCTC	5 cut(s)	167, 231, 412, 502, 705
MroXI	GAANNNNTTC	1 cut(s)	694
MseI	TTAA	2 cut(s)	605, 651
MslI	CAYNNNNRTG	1 cut(s)	228
MspCI	CTTAAG	1 cut(s)	650
MspI	CCGG	2 cut(s)	337, 529
MspR9I	CCNGG	2 cut(s)	365, 530
MunI	CAATTG	1 cut(s)	739
MvaI	CCWGG	1 cut(s)	365
NciI	CCSGG	1 cut(s)	530
NdeII	GATC	8 cut(s)	19, 139, 145, 207, 252, 370, 421, 489
NlaIII	CATG	1 cut(s)	516
NlaIV	GGNNCC	1 cut(s)	214
PdmI	GAANNNNTTC	1 cut(s)	694
PfeI	GAWTC	2 cut(s)	282, 429
PinAI	ACCGGT	1 cut(s)	336
PkrI	GCNGC	3 cut(s)	361, 470, 634
PleI	GAGTC	2 cut(s)	413, 456
PpsI	GAGTC	2 cut(s)	413, 456
Psp6I	CCWGG	1 cut(s)	363
PspEI	GGTNACC	1 cut(s)	332
PspGI	CCWGG	1 cut(s)	363
PspN4I	GGNNCC	1 cut(s)	214
PspPI	GGNCC	1 cut(s)	580
PsuI	RGATCY	1 cut(s)	19
RsaI	GTAC	2 cut(s)	317, 341
RsaNI	GTAC	2 cut(s)	316, 340
RseI	CAYNNNNRTG	1 cut(s)	228
SalI	GTCGAC	1 cut(s)	548
SaqAI	TTAA	2 cut(s)	605, 651
SatI	GCNGC	3 cut(s)	360, 469, 633
Sau3AI	GATC	8 cut(s)	19, 139, 145, 207, 252, 370, 421, 489
Sau96I	GGNCC	1 cut(s)	580
SchI	GAGTC	2 cut(s)	414, 457
ScrFI	CCNGG	2 cut(s)	365, 530
SduI	GDGCHC	1 cut(s)	97
SetI	ASST	7 cut(s)	60, 126, 190, 264, 315, 589, 657
SfaNI	GCATC	1 cut(s)	445
SmiMI	CAYNNNNRTG	1 cut(s)	228
SmlI	CTYRAG	2 cut(s)	203, 650
SmoI	CTYRAG	2 cut(s)	203, 650
Sse9I	AATT	5 cut(s)	64, 82, 106, 472, 739
SsiI	CCGC	2 cut(s)	17, 347
SspMI	CTAG	4 cut(s)	375, 402, 584, 683
StyD4I	CCNGG	2 cut(s)	363, 528
StyI	CCWWGG	1 cut(s)	374
TaaI	ACNGT	4 cut(s)	29, 250, 665, 729
TaqI	TCGA	2 cut(s)	226, 549
TasI	AATT	5 cut(s)	64, 82, 106, 472, 739
TatI	WGTACW	1 cut(s)	315
TfiI	GAWTC	2 cut(s)	282, 429
Tru1I	TTAA	2 cut(s)	605, 651
Tru9I	TTAA	2 cut(s)	605, 651
TscAI	CASTG	1 cut(s)	102
TseI	GCWGC	3 cut(s)	359, 468, 632
TspDTI	ATGAA	4 cut(s)	27, 306, 630, 693
TspGWI	ACGGA	1 cut(s)	441
TspRI	CASTG	1 cut(s)	102
Vha464I	CTTAAG	1 cut(s)	650
XapI	RAATTY	1 cut(s)	106
XbaI	TCTAGA	1 cut(s)	401
XmaJI	CCTAGG	1 cut(s)	374
XmiI	GTMKAC	1 cut(s)	549
XmnI	GAANNNNTTC	1 cut(s)	694
XspI	CTAG	4 cut(s)	375, 402, 584, 683

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