Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0005793

Physical Location & Seq

Genomic Coordinates Reverse (-)

49430309 .. 49430931

Gene Structure 623 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG274400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 519 bp

ATGAACTTCGTTTCGGAGAAACAGTTGGAAGAAGCCAAGAAAAGAAGGGGTGAACGAGTAGATGATGGCACTGCCCACAGGGATAGACCCCTTTACGAGGTTCTGAAAGAAAACAAGGAGAGGAAGGATGCAGAGTTCAACGAACAGGATGGGGAAGCACAACAGCTTCTGAGTTTCAAGGCAGCCCTAGCAGCCAAGGCCAGCGTCGTGCATGAGCTTAAGGAAGCACCTAGTTGTCTTCCTCTAGGAGTCCAGGGACAGTTATCTGCAGCTGAAAAGAAGAAGAATCCTACTCCTGGTTTATTGGGTATGATTATCAAAGTGAAGGAGCCACAAGCAAAGAAACCTAAAATTGAAGACGCTAACAACATAGTGAAAACTCCTCATGTTGATAGTAAAGATCATAGTTTAGAGGTAGTGAAGACTCCCAATGATGATAATACTGATAATTTCAGTGTTGTTGCTAAGACTGCCCTTGTTTCATATAGTGATACTGATGATGATAGTGAAGATGACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Nefa_Nip30_N

Protein Analysis

172

Amino Acids

19.05

Weight (kDa)

5.23

Isoelectric Point (pI)

31.69

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005793)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G62140
fragaria_vesca	FvH4_1g26260 FvH4_1g26260 FvH4_1g26260 FvH4_1g26260
malus_domestica	MD17G1284800.v1.1
prunus_persica	Prupe.3G003000_v2.0.a1 Prupe.3G003000_v2.0.a1
pyrus_communis	pycom17g28060
rosa_chinensis	RchiOBHm_Chr3g0485921
rosa_laevigata	RLG00000023122
rosa_multiflora	Rmu_sc0004876.1_g000003 Rmu_sc0008757.1_g000021 Rmu_sc0017529.1_g000001
rosa_roxburghii	Rroxscaffold_4G00297600 Rroxscaffold_6G00396200
rosa_rugosa	Rorug01G0265400 Rorug03G0222500 Rorug03G0222600
rosa_samantha	Rh1CG263400 Rh1DG274400 Rh3AG271800 Rh3BG306900 Rh3CG305500 Rh3DG301500
rosa_wichuraiana	Rw0G015520 Rw1G024840 Rw3G024150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AfiI	CCNNNNNNNGG	2 cut(s)	97, 296
AflII	CTTAAG	1 cut(s)	218
AgsI	TTSAA	3 cut(s)	139, 178, 356
AjnI	CCWGG	2 cut(s)	252, 295
AloI	GAACNNNNNNTCC	2 cut(s)	119, 151
AluBI	AGCT	3 cut(s)	166, 217, 272
AluI	AGCT	3 cut(s)	166, 217, 272
AlwNI	CAGNNNCTG	1 cut(s)	169
AoxI	GGCC	1 cut(s)	198
ApeKI	GCWGC	3 cut(s)	182, 191, 269
AsuHPI	GGTGA	1 cut(s)	62
BbsI	GAAGAC	3 cut(s)	230, 363, 428
BbvI	GCAGC	3 cut(s)	194, 203, 281
BccI	CCATC	2 cut(s)	59, 143
BciT130I	CCWGG	2 cut(s)	254, 297
BfaI	CTAG	4 cut(s)	188, 231, 245, 517
BfmI	CTRYAG	1 cut(s)	267
BfrI	CTTAAG	1 cut(s)	218
BisI	GCNGC	3 cut(s)	183, 192, 270
BlsI	GCNGC	3 cut(s)	184, 193, 271
Bme1390I	CCNGG	2 cut(s)	254, 297
BmiI	GGNNCC	1 cut(s)	330
BmrFI	CCNGG	2 cut(s)	254, 297
BmsI	GCATC	1 cut(s)	118
BpiI	GAAGAC	3 cut(s)	230, 363, 428
BsaJI	CCNNGG	2 cut(s)	195, 253
BsaXI	ACNNNNNCTCC	2 cut(s)	8, 38
Bsc4I	CCNNNNNNNGG	2 cut(s)	97, 296
BseBI	CCWGG	2 cut(s)	254, 297
BseDI	CCNNGG	2 cut(s)	195, 253
BseGI	GGATG	2 cut(s)	133, 154
BseLI	CCNNNNNNNGG	2 cut(s)	97, 296
BseMII	CTCAG	1 cut(s)	161
BseRI	GAGGAG	1 cut(s)	372
BseXI	GCAGC	3 cut(s)	194, 203, 281
BshFI	GGCC	1 cut(s)	200
BslFI	GGGAC	1 cut(s)	270
BslI	CCNNNNNNNGG	2 cut(s)	97, 296
BsmFI	GGGAC	1 cut(s)	270
BsnI	GGCC	1 cut(s)	200
Bsp143I	GATC	1 cut(s)	400
BspANI	GGCC	1 cut(s)	200
BspCNI	CTCAG	1 cut(s)	162
BspLI	GGNNCC	1 cut(s)	330
BspMAI	CTGCAG	1 cut(s)	271
BspTI	CTTAAG	1 cut(s)	218
BssECI	CCNNGG	2 cut(s)	195, 253
BssMI	GATC	1 cut(s)	400
BssT1I	CCWWGG	1 cut(s)	195
Bst2UI	CCWGG	2 cut(s)	254, 297
Bst4CI	ACNGT	2 cut(s)	24, 261
BstAFI	CTTAAG	1 cut(s)	218
BstC8I	GCNNGC	1 cut(s)	202
BstDEI	CTNAG	2 cut(s)	170, 465
BstENI	CCTNNNNNAGG	1 cut(s)	95
BstF5I	GGATG	2 cut(s)	133, 154
BstKTI	GATC	1 cut(s)	403
BstMBI	GATC	1 cut(s)	400
BstMWI	GCNNNNNNNGC	4 cut(s)	188, 191, 197, 470
BstNI	CCWGG	2 cut(s)	254, 297
BstSCI	CCNGG	2 cut(s)	252, 295
BstSFI	CTRYAG	1 cut(s)	267
BstV1I	GCAGC	3 cut(s)	194, 203, 281
BstV2I	GAAGAC	3 cut(s)	230, 363, 428
BsuRI	GGCC	1 cut(s)	200
BtsCI	GGATG	2 cut(s)	133, 154
BtsI	GCAGTG	1 cut(s)	69
BtsIMutI	CAGTG	2 cut(s)	69, 460
Cac8I	GCNNGC	1 cut(s)	202
CaiI	CAGNNNCTG	1 cut(s)	169
CseI	GACGC	2 cut(s)	193, 368
CviAII	CATG	2 cut(s)	212, 386
CviJI	RGCY	8 cut(s)	35, 166, 185, 194, 200, 217, 272, 331
CviKI_1	RGCY	8 cut(s)	35, 166, 185, 194, 200, 217, 272, 331
DdeI	CTNAG	2 cut(s)	170, 465
DpnI	GATC	1 cut(s)	402
DpnII	GATC	1 cut(s)	400
Eco130I	CCWWGG	1 cut(s)	195
EcoNI	CCTNNNNNAGG	1 cut(s)	95
EcoRII	CCWGG	2 cut(s)	252, 295
EcoT14I	CCWWGG	1 cut(s)	195
ErhI	CCWWGG	1 cut(s)	195
FaeI	CATG	2 cut(s)	215, 389
FaiI	YATR	7 cut(s)	213, 311, 371, 387, 405, 484, 486
FaqI	GGGAC	1 cut(s)	270
FatI	CATG	2 cut(s)	211, 385
Fnu4HI	GCNGC	3 cut(s)	183, 192, 270
FokI	GGATG	2 cut(s)	140, 161
Fsp4HI	GCNGC	3 cut(s)	183, 192, 270
FspBI	CTAG	4 cut(s)	188, 231, 245, 517
GluI	GCNGC	3 cut(s)	183, 192, 270
HaeIII	GGCC	1 cut(s)	200
HgaI	GACGC	2 cut(s)	193, 368
Hin1II	CATG	2 cut(s)	215, 389
HinfI	GANTC	3 cut(s)	249, 286, 424
HphI	GGTGA	1 cut(s)	62
Hpy166II	GTNNAC	1 cut(s)	53
Hpy188I	TCNGA	3 cut(s)	16, 105, 171
Hpy8I	GTNNAC	1 cut(s)	53
Hpy99I	CGWCG	1 cut(s)	209
HpyAV	CCTTC	3 cut(s)	39, 118, 319
HpyCH4III	ACNGT	2 cut(s)	24, 261
HpyCH4V	TGCA	3 cut(s)	131, 211, 269
HpyF10VI	GCNNNNNNNGC	4 cut(s)	188, 191, 197, 470
HpyF3I	CTNAG	2 cut(s)	170, 465
Hsp92II	CATG	2 cut(s)	215, 389
Kzo9I	GATC	1 cut(s)	400
LmnI	GCTCC	1 cut(s)	328
LpnPI	CCDG	7 cut(s)	64, 131, 214, 239, 266, 282, 309
Lsp1109I	GCAGC	3 cut(s)	194, 203, 281
LweI	GCATC	1 cut(s)	118
MaeI	CTAG	4 cut(s)	188, 231, 245, 517
MalI	GATC	1 cut(s)	402
MboI	GATC	1 cut(s)	400
MboII	GAAGA	6 cut(s)	41, 230, 292, 295, 368, 433
MluCI	AATT	2 cut(s)	351, 448
MlyI	GAGTC	2 cut(s)	258, 418
MmeI	TCCRAC	1 cut(s)	6
MnlI	CCTC	5 cut(s)	91, 114, 252, 393, 406
MseI	TTAA	1 cut(s)	219
MspA1I	CMGCKG	1 cut(s)	272
MspCI	CTTAAG	1 cut(s)	218
MspR9I	CCNGG	2 cut(s)	254, 297
MvaI	CCWGG	2 cut(s)	254, 297
MwoI	GCNNNNNNNGC	4 cut(s)	188, 191, 197, 470
NdeII	GATC	1 cut(s)	400
NlaIII	CATG	2 cut(s)	215, 389
NlaIV	GGNNCC	1 cut(s)	330
PfeI	GAWTC	1 cut(s)	286
PkrI	GCNGC	3 cut(s)	184, 193, 271
PleI	GAGTC	2 cut(s)	257, 418
PpsI	GAGTC	2 cut(s)	257, 418
Psp6I	CCWGG	2 cut(s)	252, 295
PspGI	CCWGG	2 cut(s)	252, 295
PspN4I	GGNNCC	1 cut(s)	330
PstI	CTGCAG	1 cut(s)	271
PstNI	CAGNNNCTG	1 cut(s)	169
PvuII	CAGCTG	1 cut(s)	272
SaqAI	TTAA	1 cut(s)	219
SatI	GCNGC	3 cut(s)	183, 192, 270
Sau3AI	GATC	1 cut(s)	400
SchI	GAGTC	2 cut(s)	258, 418
ScrFI	CCNGG	2 cut(s)	254, 297
SetI	ASST	7 cut(s)	102, 168, 219, 232, 274, 349, 417
SfaNI	GCATC	1 cut(s)	118
SfcI	CTRYAG	1 cut(s)	267
SmlI	CTYRAG	1 cut(s)	218
SmoI	CTYRAG	1 cut(s)	218
Sse9I	AATT	2 cut(s)	351, 448
SspMI	CTAG	4 cut(s)	188, 231, 245, 517
StyD4I	CCNGG	2 cut(s)	252, 295
StyI	CCWWGG	1 cut(s)	195
TaaI	ACNGT	2 cut(s)	24, 261
TasI	AATT	2 cut(s)	351, 448
TfiI	GAWTC	1 cut(s)	286
Tru1I	TTAA	1 cut(s)	219
Tru9I	TTAA	1 cut(s)	219
TscAI	CASTG	2 cut(s)	76, 460
TseI	GCWGC	3 cut(s)	182, 191, 269
TspDTI	ATGAA	2 cut(s)	17, 471
TspRI	CASTG	2 cut(s)	76, 460
Vha464I	CTTAAG	1 cut(s)	218
XagI	CCTNNNNNAGG	1 cut(s)	95
XspI	CTAG	4 cut(s)	188, 231, 245, 517

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