Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0000643

Physical Location & Seq

Genomic Coordinates Reverse (-)

21780707 .. 21790440

Gene Structure 9734 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG129500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 453 bp

ATGGTGAAGAAGAATAAGTGGGAGCATGGAGGATTTGGTAAGTACCAAACCCTGCATTTCAATTGGCATGATGTTTCTGAGCTGGATCAAAGGCTTGCAGAACAATCAAAGATACTCTCAAGTCTTCAACAACAGCATGCTTACAACCCAGATGAGGAGTATGCAGAGGTAGAATCCAGATTGCGTTCACATTTGGAATCTTTTCTAGAAACTGCAAGATCATTCAATATGATTTACACCAAGGAAATACGTCCCTGGACACACATGATGGAGGTAACCCAGCTCCATGGGTTCGGGCCAGCTGCCATTCCCTTGTTGGAGGCATATAAGATGCTTTTGAAGTTCTTGTGTAACTTGAGGAATCTTAGAGACTCACATGCTGCTCTTGCTGTTGGATCATCTGACTCAGTTGCTGGTGAGCCCTCCTGTCACAAGAATATTCTCAGATTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005819 GO:0005856 GO:0005874 GO:0005876 GO:0008017 GO:0008092 GO:0009524 GO:0015630 GO:0015631 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044422 GO:0044424 GO:0044430 GO:0044444 GO:0044446 GO:0044464 GO:0051011 GO:0099080 GO:0099081 GO:0099512 GO:0099513

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Plant_NMP1

Protein Analysis

150

Amino Acids

17.34

Weight (kDa)

6.75

Isoelectric Point (pI)

58.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	20 - 147	6.3e-56	Plant nuclear matrix protein 1 (NMP1)

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: OG0000643)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G28230
fragaria_vesca	FvH4_3g16300 FvH4_6g12751 FvH4_6g44570 FvH4_6g44594 FvH4_7g07660
malus_domestica	MD09G1096400.v1.1 MD17G1084500.v1.1
prunus_persica	Prupe.3G231100_v2.0.a1
pyrus_communis	pycom09g02090 pycom17g08160
rosa_chinensis	RchiOBHm_Chr1g0342751 RchiOBHm_Chr2g0157591 RchiOBHm_Chr2g0161781 RchiOBHm_Chr3g0469881
rosa_laevigata	RLG00000007135 RLG00000010298 RLG00000021299 RLG00000021302 RLG00000029173 RLG00000029192
rosa_multiflora	Rmu_sc0000173.1_g000045 Rmu_sc0001403.1_g000033 Rmu_sc0001403.1_g000034 Rmu_sc0001993.1_g000002 Rmu_sc0001993.1_g000020 Rmu_sc0003662.1_g000014 Rmu_sc0011563.1_g000010 Rmu_sc0012276.1_g000010 Rmu_sc0026352.1_g000003
rosa_roxburghii	Rroxscaffold_1G00038970 Rroxscaffold_2G00088610 Rroxscaffold_3G00231870 Rroxscaffold_4G00288710 Rroxscaffold_4G00313230 Rroxscaffold_6G00396080 Rroxscaffold_7G00184860
rosa_rugosa	Rorug01G0146100.1 Rorug02G0491800 Rorug02G0492600 Rorug03G0291200 Rorug05G0303900 Rorug05G0335100 Rorug05G0335200
rosa_samantha	Rh1AG028300 Rh1AG137400 Rh1AG162800 Rh1AG163600 Rh1AG163700 Rh1AG164400 Rh1AG164500 Rh1BG129500 Rh1BG129600 Rh1CG025800 Rh1CG129600 Rh1CG151800 Rh1CG152300 Rh1CG152800 Rh1CG153300 Rh1DG044700 Rh1DG133100 Rh2AG558000 Rh2BG571600 Rh2CG541700 Rh2DG549600 Rh2DG580500 Rh3BG178200 Rh3CG168900 Rh3DG076100 Rh3DG260000 Rh5AG515900 Rh6BG166400 Rh6DG108300 Rh7AG194200 Rh7DG200800 Rh7DG369800
rosa_wichuraiana	Rw2G046170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	2 cut(s)	93, 403
AfaI	GTAC	1 cut(s)	44
AfiI	CCNNNNNNNGG	1 cut(s)	154
AgsI	TTSAA	4 cut(s)	61, 128, 226, 340
AjnI	CCWGG	1 cut(s)	254
AluBI	AGCT	3 cut(s)	82, 283, 302
AluI	AGCT	3 cut(s)	82, 283, 302
Alw26I	GTCTC	1 cut(s)	363
AlwI	GGATC	2 cut(s)	93, 403
AlwNI	CAGNNNCTG	1 cut(s)	413
AoxI	GGCC	1 cut(s)	296
ApeKI	GCWGC	2 cut(s)	302, 380
Asp700I	GAANNNNTTC	1 cut(s)	201
AspS9I	GGNCC	1 cut(s)	296
AsuHPI	GGTGA	2 cut(s)	16, 428
BanII	GRGCYC	1 cut(s)	423
BbsI	GAAGAC	1 cut(s)	116
BbvI	GCAGC	2 cut(s)	289, 367
BccI	CCATC	1 cut(s)	262
BciT130I	CCWGG	1 cut(s)	256
BcoDI	GTCTC	1 cut(s)	363
BfaI	CTAG	1 cut(s)	206
BisI	GCNGC	2 cut(s)	303, 381
BlsI	GCNGC	2 cut(s)	304, 382
Bme1390I	CCNGG	1 cut(s)	256
BmgT120I	GGNCC	1 cut(s)	296
BmrFI	CCNGG	1 cut(s)	256
BmsI	GCATC	1 cut(s)	321
BpiI	GAAGAC	1 cut(s)	116
BpuEI	CTTGAG	2 cut(s)	103, 376
BsaJI	CCNNGG	3 cut(s)	240, 254, 286
Bsc4I	CCNNNNNNNGG	1 cut(s)	154
BseBI	CCWGG	1 cut(s)	256
BseDI	CCNNGG	3 cut(s)	240, 254, 286
BseLI	CCNNNNNNNGG	1 cut(s)	154
BseMII	CTCAG	2 cut(s)	69, 420
BseRI	GAGGAG	1 cut(s)	170
BseXI	GCAGC	2 cut(s)	289, 367
BseYI	CCCAGC	1 cut(s)	279
BshFI	GGCC	1 cut(s)	298
BslFI	GGGAC	1 cut(s)	237
BslI	CCNNNNNNNGG	1 cut(s)	154
BsmAI	GTCTC	1 cut(s)	363
BsmFI	GGGAC	1 cut(s)	237
BsnI	GGCC	1 cut(s)	298
Bsp1286I	GDGCHC	1 cut(s)	423
Bsp143I	GATC	3 cut(s)	85, 218, 395
Bsp19I	CCATGG	1 cut(s)	286
BspANI	GGCC	1 cut(s)	298
BspCNI	CTCAG	2 cut(s)	70, 419
BspPI	GGATC	2 cut(s)	93, 403
BssECI	CCNNGG	3 cut(s)	240, 254, 286
BssMI	GATC	3 cut(s)	85, 218, 395
BssT1I	CCWWGG	2 cut(s)	240, 286
Bst2UI	CCWGG	1 cut(s)	256
BstC8I	GCNNGC	3 cut(s)	96, 138, 300
BstDEI	CTNAG	4 cut(s)	78, 365, 406, 443
BstDSI	CCRYGG	1 cut(s)	286
BstEII	GGTNACC	1 cut(s)	274
BstKTI	GATC	3 cut(s)	88, 221, 398
BstMAI	GTCTC	1 cut(s)	363
BstMBI	GATC	3 cut(s)	85, 218, 395
BstMWI	GCNNNNNNNGC	1 cut(s)	386
BstNI	CCWGG	1 cut(s)	256
BstNSI	RCATGY	2 cut(s)	140, 380
BstPI	GGTNACC	1 cut(s)	274
BstSCI	CCNGG	1 cut(s)	254
BstV1I	GCAGC	2 cut(s)	289, 367
BstV2I	GAAGAC	1 cut(s)	116
BstXI	CCANNNNNNTGG	1 cut(s)	287
BsuRI	GGCC	1 cut(s)	298
BtgI	CCRYGG	1 cut(s)	286
Cac8I	GCNNGC	3 cut(s)	96, 138, 300
CaiI	CAGNNNCTG	1 cut(s)	413
Cfr13I	GGNCC	1 cut(s)	296
Csp6I	GTAC	1 cut(s)	43
CviAII	CATG	6 cut(s)	26, 68, 137, 265, 287, 377
CviJI	RGCY	6 cut(s)	82, 94, 283, 298, 302, 421
CviKI_1	RGCY	6 cut(s)	82, 94, 283, 298, 302, 421
CviQI	GTAC	1 cut(s)	43
DdeI	CTNAG	4 cut(s)	78, 365, 406, 443
DpnI	GATC	3 cut(s)	87, 220, 397
DpnII	GATC	3 cut(s)	85, 218, 395
Eco130I	CCWWGG	2 cut(s)	240, 286
Eco24I	GRGCYC	1 cut(s)	423
Eco91I	GGTNACC	1 cut(s)	274
EcoO65I	GGTNACC	1 cut(s)	274
EcoRII	CCWGG	1 cut(s)	254
EcoT14I	CCWWGG	2 cut(s)	240, 286
EcoT38I	GRGCYC	1 cut(s)	423
ErhI	CCWWGG	2 cut(s)	240, 286
FaeI	CATG	6 cut(s)	29, 71, 140, 268, 290, 380
FaqI	GGGAC	1 cut(s)	237
FatI	CATG	6 cut(s)	25, 67, 136, 264, 286, 376
Fnu4HI	GCNGC	2 cut(s)	303, 381
FriOI	GRGCYC	1 cut(s)	423
Fsp4HI	GCNGC	2 cut(s)	303, 381
FspBI	CTAG	1 cut(s)	206
GluI	GCNGC	2 cut(s)	303, 381
GsaI	CCCAGC	1 cut(s)	283
HaeIII	GGCC	1 cut(s)	298
Hin1II	CATG	6 cut(s)	29, 71, 140, 268, 290, 380
HinfI	GANTC	5 cut(s)	173, 197, 361, 371, 404
HphI	GGTGA	2 cut(s)	16, 428
Hpy166II	GTNNAC	1 cut(s)	188
Hpy188I	TCNGA	3 cut(s)	79, 403, 446
Hpy188III	TCNNGA	2 cut(s)	177, 206
Hpy8I	GTNNAC	1 cut(s)	188
HpyCH4IV	ACGT	1 cut(s)	250
HpyCH4V	TGCA	4 cut(s)	55, 98, 164, 215
HpyF10VI	GCNNNNNNNGC	1 cut(s)	386
HpyF3I	CTNAG	4 cut(s)	78, 365, 406, 443
HpySE526I	ACGT	1 cut(s)	250
Hsp92II	CATG	6 cut(s)	29, 71, 140, 268, 290, 380
Kzo9I	GATC	3 cut(s)	85, 218, 395
LmnI	GCTCC	2 cut(s)	22, 288
Lsp1109I	GCAGC	2 cut(s)	289, 367
LweI	GCATC	1 cut(s)	321
MaeI	CTAG	1 cut(s)	206
MaeII	ACGT	1 cut(s)	250
MaeIII	GTNAC	3 cut(s)	274, 350, 428
MalI	GATC	3 cut(s)	87, 220, 397
MboI	GATC	3 cut(s)	85, 218, 395
MboII	GAAGA	3 cut(s)	19, 22, 116
MfeI	CAATTG	1 cut(s)	61
MhlI	GDGCHC	1 cut(s)	423
MluCI	AATT	1 cut(s)	61
MlyI	GAGTC	2 cut(s)	365, 398
MmeI	TCCRAC	2 cut(s)	297, 373
MnlI	CCTC	7 cut(s)	23, 148, 160, 265, 313, 351, 433
MroXI	GAANNNNTTC	1 cut(s)	201
MspA1I	CMGCKG	1 cut(s)	302
MspR9I	CCNGG	1 cut(s)	256
MunI	CAATTG	1 cut(s)	61
MvaI	CCWGG	1 cut(s)	256
MwoI	GCNNNNNNNGC	1 cut(s)	386
NcoI	CCATGG	1 cut(s)	286
NdeII	GATC	3 cut(s)	85, 218, 395
NlaIII	CATG	6 cut(s)	29, 71, 140, 268, 290, 380
NmuCI	GTSAC	1 cut(s)	428
NspI	RCATGY	2 cut(s)	140, 380
PaeI	GCATGC	1 cut(s)	140
PdmI	GAANNNNTTC	1 cut(s)	201
PfeI	GAWTC	3 cut(s)	173, 197, 361
PkrI	GCNGC	2 cut(s)	304, 382
PleI	GAGTC	2 cut(s)	365, 398
PpsI	GAGTC	2 cut(s)	365, 398
Psp6I	CCWGG	1 cut(s)	254
PspEI	GGTNACC	1 cut(s)	274
PspFI	CCCAGC	1 cut(s)	279
PspGI	CCWGG	1 cut(s)	254
PspPI	GGNCC	1 cut(s)	296
PstNI	CAGNNNCTG	1 cut(s)	413
PvuII	CAGCTG	1 cut(s)	302
RsaI	GTAC	1 cut(s)	44
RsaNI	GTAC	1 cut(s)	43
SatI	GCNGC	2 cut(s)	303, 381
Sau3AI	GATC	3 cut(s)	85, 218, 395
Sau96I	GGNCC	1 cut(s)	296
SchI	GAGTC	2 cut(s)	365, 398
ScrFI	CCNGG	1 cut(s)	256
SduI	GDGCHC	1 cut(s)	423
SetI	ASST	6 cut(s)	84, 171, 253, 276, 285, 304
SfaNI	GCATC	1 cut(s)	321
SmlI	CTYRAG	2 cut(s)	118, 355
SmoI	CTYRAG	2 cut(s)	118, 355
SphI	GCATGC	1 cut(s)	140
Sse9I	AATT	1 cut(s)	61
SspI	AATATT	1 cut(s)	439
SspMI	CTAG	1 cut(s)	206
StyD4I	CCNGG	1 cut(s)	254
StyI	CCWWGG	2 cut(s)	240, 286
TaiI	ACGT	1 cut(s)	253
TasI	AATT	1 cut(s)	61
TfiI	GAWTC	3 cut(s)	173, 197, 361
TseFI	GTSAC	1 cut(s)	428
TseI	GCWGC	2 cut(s)	302, 380
Tsp45I	GTSAC	1 cut(s)	428
XbaI	TCTAGA	1 cut(s)	205
XceI	RCATGY	2 cut(s)	140, 380
XcmI	CCANNNNNNNNNTGG	1 cut(s)	313
XmnI	GAANNNNTTC	1 cut(s)	201
XspI	CTAG	1 cut(s)	206

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