Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0005793

Physical Location & Seq

Genomic Coordinates Forward (+)

17492797 .. 17496004

Gene Structure 3208 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00297600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 777 bp

ATGCCCCTGCACTATCCAAGGTACAAGAAATCCGACTATGAGACCATGCCGGAGTGGAAGCTTGACTGTTTGCTTAGATCTTATGGGCTACCGATCACTGGAGATGTTGAAGAGAGGAGGAAGTCAGCCATGGGAAACTTTCTGTGCTTTGTGTTCATTATGGAGAAACAGTTGGAAGAAGCCAAGAAAAGAAGGGGTGAACGAGTAGATGATGGCACTGCCCACAGGGATAGACCCCTTTACGAGGTTCTGAAAGAAAACAAGGAGAGGAAGGATGCAGAGTTCAACGAACGTTTCAAGCACAGACCACCTAAAGCTTTGGACGATGAGGAGACTGACTTTCTTGATAGAATGCAGAGGGAGAGAAAGGAATACGAACGGCGACTAGAGGATGAGAAAGCACAACAGCTTTTGAGTTTCAAGGCAGCCCTGGCAGCCAAGGCCAGCGCCGTGCATGAGCTTAAGGAAGCACCTAGTTGTCTTCCTCTAGGAGTCCAGGGACAATTAATATCTGCAGCTGAAAAGAAGAAGAATCCTACTCCTGGTTTATTGGGTATGATTATCAAAGTGAAGGAGCCACAAGCAAAGAAACCAAAAATTGAAGACGCTAACAACACAGTGAATTATAAAACTCTTCATGTTGATAGTAAAGATCATAGTTTAGAGGTAGTGGTAGTGAAGACTCCCAATGATGATAATACTGATAATTTCAGTGTTGTTGCTAAGACTGCTCTTGTTTCATATAGTGATACTGATGATGATAGTGAAGATGACTAG

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

258

Amino Acids

29.71

Weight (kDa)

5.83

Isoelectric Point (pI)

35.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF7722	PF24847	5 - 48	4.6e-24	Domain of unknown function (DUF7722)
FAM192A_Fyv6_N	PF10187	56 - 141	9.6e-15	FAM192A/Fyv6, N-terminal domain

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)

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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)
AanI	TTATAA	1 cut(s)	627
AclI	AACGTT	1 cut(s)	292
AfaI	GTAC	1 cut(s)	23
AfiI	CCNNNNNNNGG	3 cut(s)	98, 244, 542
AflII	CTTAAG	1 cut(s)	461
AgsI	TTSAA	5 cut(s)	110, 286, 298, 421, 602
AjnI	CCWGG	3 cut(s)	429, 495, 541
AloI	GAACNNNNNNTCC	2 cut(s)	266, 298
AluBI	AGCT	5 cut(s)	61, 317, 409, 460, 518
AluI	AGCT	5 cut(s)	61, 317, 409, 460, 518
Alw26I	GTCTC	2 cut(s)	35, 326
AoxI	GGCC	1 cut(s)	441
ApeKI	GCWGC	3 cut(s)	425, 434, 515
AseI	ATTAAT	1 cut(s)	506
AspLEI	GCGC	1 cut(s)	449
AsuHPI	GGTGA	1 cut(s)	209
BbsI	GAAGAC	3 cut(s)	473, 609, 686
BbvI	GCAGC	3 cut(s)	437, 446, 527
BccI	CCATC	1 cut(s)	206
BceAI	ACGGC	2 cut(s)	395, 434
BciT130I	CCWGG	3 cut(s)	431, 497, 543
BcoDI	GTCTC	2 cut(s)	35, 326
BfaI	CTAG	4 cut(s)	386, 474, 488, 775
BfmI	CTRYAG	1 cut(s)	513
BfoI	RGCGCY	1 cut(s)	450
BfrI	CTTAAG	1 cut(s)	461
BglII	AGATCT	1 cut(s)	77
BisI	GCNGC	3 cut(s)	426, 435, 516
BlsI	GCNGC	3 cut(s)	427, 436, 517
Bme1390I	CCNGG	3 cut(s)	431, 497, 543
BmiI	GGNNCC	1 cut(s)	576
BmrFI	CCNGG	3 cut(s)	431, 497, 543
BmsI	GCATC	1 cut(s)	265
BpiI	GAAGAC	3 cut(s)	473, 609, 686
BpmI	CTGGAG	1 cut(s)	120
BsaI	GGTCTC	1 cut(s)	35
BsaJI	CCNNGG	5 cut(s)	17, 129, 429, 438, 496
BsaXI	ACNNNNNCTCC	2 cut(s)	155, 185
Bsc4I	CCNNNNNNNGG	3 cut(s)	98, 244, 542
Bse1I	ACTGG	1 cut(s)	103
BseBI	CCWGG	3 cut(s)	431, 497, 543
BseDI	CCNNGG	5 cut(s)	17, 129, 429, 438, 496
BseGI	GGATG	2 cut(s)	280, 397
BseLI	CCNNNNNNNGG	3 cut(s)	98, 244, 542
BseNI	ACTGG	1 cut(s)	103
BseRI	GAGGAG	2 cut(s)	130, 344
BseXI	GCAGC	3 cut(s)	437, 446, 527
BshFI	GGCC	1 cut(s)	443
BsiSI	CCGG	1 cut(s)	50
BslFI	GGGAC	1 cut(s)	513
BslI	CCNNNNNNNGG	3 cut(s)	98, 244, 542
BsmAI	GTCTC	2 cut(s)	35, 326
BsmFI	GGGAC	1 cut(s)	513
BsmI	GAATGC	1 cut(s)	357
BsnI	GGCC	1 cut(s)	443
Bso31I	GGTCTC	1 cut(s)	35
Bsp143I	GATC	3 cut(s)	77, 93, 652
Bsp19I	CCATGG	1 cut(s)	129
BspANI	GGCC	1 cut(s)	443
BspLI	GGNNCC	1 cut(s)	576
BspMAI	CTGCAG	1 cut(s)	517
BspTI	CTTAAG	1 cut(s)	461
BspTNI	GGTCTC	1 cut(s)	35
BsrI	ACTGG	1 cut(s)	103
BssECI	CCNNGG	5 cut(s)	17, 129, 429, 438, 496
BssMI	GATC	3 cut(s)	77, 93, 652
BssT1I	CCWWGG	3 cut(s)	17, 129, 438
Bst2UI	CCWGG	3 cut(s)	431, 497, 543
Bst4CI	ACNGT	3 cut(s)	68, 171, 619
Bst6I	CTCTTC	2 cut(s)	105, 639
BstAFI	CTTAAG	1 cut(s)	461
BstC8I	GCNNGC	1 cut(s)	445
BstDEI	CTNAG	2 cut(s)	74, 723
BstDSI	CCRYGG	1 cut(s)	129
BstENI	CCTNNNNNAGG	1 cut(s)	242
BstF5I	GGATG	2 cut(s)	280, 397
BstH2I	RGCGCY	1 cut(s)	450
BstHHI	GCGC	1 cut(s)	449
BstKTI	GATC	3 cut(s)	80, 96, 655
BstMAI	GTCTC	2 cut(s)	35, 326
BstMBI	GATC	3 cut(s)	77, 93, 652
BstMWI	GCNNNNNNNGC	4 cut(s)	431, 434, 440, 728
BstNI	CCWGG	3 cut(s)	431, 497, 543
BstSCI	CCNGG	3 cut(s)	429, 495, 541
BstSFI	CTRYAG	1 cut(s)	513
BstV1I	GCAGC	3 cut(s)	437, 446, 527
BstV2I	GAAGAC	3 cut(s)	473, 609, 686
BstX2I	RGATCY	1 cut(s)	77
BstYI	RGATCY	1 cut(s)	77
BsuRI	GGCC	1 cut(s)	443
BtgI	CCRYGG	1 cut(s)	129
BtsCI	GGATG	2 cut(s)	280, 397
BtsI	GCAGTG	1 cut(s)	216
BtsIMutI	CAGTG	4 cut(s)	96, 216, 624, 718
Cac8I	GCNNGC	1 cut(s)	445
CfoI	GCGC	1 cut(s)	449
CseI	GACGC	1 cut(s)	614
Csp6I	GTAC	1 cut(s)	22
CviAII	CATG	4 cut(s)	46, 130, 455, 638
CviQI	GTAC	1 cut(s)	22
DdeI	CTNAG	2 cut(s)	74, 723
DpnI	GATC	3 cut(s)	79, 95, 654
DpnII	GATC	3 cut(s)	77, 93, 652
Eam1104I	CTCTTC	2 cut(s)	105, 639
EarI	CTCTTC	2 cut(s)	105, 639
Eco130I	CCWWGG	3 cut(s)	17, 129, 438
Eco31I	GGTCTC	1 cut(s)	35
EcoNI	CCTNNNNNAGG	1 cut(s)	242
EcoRII	CCWGG	3 cut(s)	429, 495, 541
EcoT14I	CCWWGG	3 cut(s)	17, 129, 438
ErhI	CCWWGG	3 cut(s)	17, 129, 438
FaeI	CATG	4 cut(s)	49, 133, 458, 641
FaqI	GGGAC	1 cut(s)	513
FatI	CATG	4 cut(s)	45, 129, 454, 637
Fnu4HI	GCNGC	3 cut(s)	426, 435, 516
FokI	GGATG	2 cut(s)	287, 404
Fsp4HI	GCNGC	3 cut(s)	426, 435, 516
FspBI	CTAG	4 cut(s)	386, 474, 488, 775
GlaI	GCGC	1 cut(s)	448
GluI	GCNGC	3 cut(s)	426, 435, 516
GsuI	CTGGAG	1 cut(s)	120
HaeII	RGCGCY	1 cut(s)	450
HaeIII	GGCC	1 cut(s)	443
HapII	CCGG	1 cut(s)	50
HgaI	GACGC	1 cut(s)	614
HhaI	GCGC	1 cut(s)	449
Hin1II	CATG	4 cut(s)	49, 133, 458, 641
Hin6I	GCGC	1 cut(s)	447
HinP1I	GCGC	1 cut(s)	447
HindIII	AAGCTT	2 cut(s)	59, 315
HinfI	GANTC	3 cut(s)	492, 532, 682
HpaII	CCGG	1 cut(s)	50
HphI	GGTGA	1 cut(s)	209
Hpy166II	GTNNAC	1 cut(s)	200
Hpy188I	TCNGA	2 cut(s)	34, 252
Hpy188III	TCNNGA	1 cut(s)	344
Hpy8I	GTNNAC	1 cut(s)	200
HpyAV	CCTTC	3 cut(s)	186, 265, 565
HpyCH4III	ACNGT	3 cut(s)	68, 171, 619
HpyCH4IV	ACGT	1 cut(s)	292
HpyCH4V	TGCA	5 cut(s)	10, 278, 355, 454, 515
HpyF10VI	GCNNNNNNNGC	4 cut(s)	431, 434, 440, 728
HpyF3I	CTNAG	2 cut(s)	74, 723
HpySE526I	ACGT	1 cut(s)	292
Hsp92II	CATG	4 cut(s)	49, 133, 458, 641
HspAI	GCGC	1 cut(s)	447
Kzo9I	GATC	3 cut(s)	77, 93, 652
LmnI	GCTCC	1 cut(s)	574
Lsp1109I	GCAGC	3 cut(s)	437, 446, 527
LweI	GCATC	1 cut(s)	265
MaeI	CTAG	4 cut(s)	386, 474, 488, 775
MaeII	ACGT	1 cut(s)	292
MalI	GATC	3 cut(s)	79, 95, 654
MboI	GATC	3 cut(s)	77, 93, 652
MboII	GAAGA	8 cut(s)	122, 188, 473, 538, 541, 614, 626, 691
MflI	RGATCY	1 cut(s)	77
MluCI	AATT	4 cut(s)	503, 597, 622, 706
MlyI	GAGTC	2 cut(s)	501, 676
MmeI	TCCRAC	2 cut(s)	57, 153
MnlI	CCTC	9 cut(s)	108, 111, 238, 261, 322, 351, 382, 495, 658
MseI	TTAA	2 cut(s)	462, 506
MspA1I	CMGCKG	1 cut(s)	518
MspCI	CTTAAG	1 cut(s)	461
MspI	CCGG	1 cut(s)	50
MspR9I	CCNGG	3 cut(s)	431, 497, 543
Mva1269I	GAATGC	1 cut(s)	357
MvaI	CCWGG	3 cut(s)	431, 497, 543
MwoI	GCNNNNNNNGC	4 cut(s)	431, 434, 440, 728
NcoI	CCATGG	1 cut(s)	129
NdeII	GATC	3 cut(s)	77, 93, 652
NlaIII	CATG	4 cut(s)	49, 133, 458, 641
NlaIV	GGNNCC	1 cut(s)	576
PctI	GAATGC	1 cut(s)	357
PfeI	GAWTC	1 cut(s)	532
PkrI	GCNGC	3 cut(s)	427, 436, 517
PleI	GAGTC	2 cut(s)	500, 676
PpsI	GAGTC	2 cut(s)	500, 676
PshBI	ATTAAT	1 cut(s)	506
PsiI	TTATAA	1 cut(s)	627
Psp1406I	AACGTT	1 cut(s)	292
Psp6I	CCWGG	3 cut(s)	429, 495, 541
PspGI	CCWGG	3 cut(s)	429, 495, 541
PspN4I	GGNNCC	1 cut(s)	576
PstI	CTGCAG	1 cut(s)	517
PsuI	RGATCY	1 cut(s)	77
PvuII	CAGCTG	1 cut(s)	518
RsaI	GTAC	1 cut(s)	23
RsaNI	GTAC	1 cut(s)	22
SaqAI	TTAA	2 cut(s)	462, 506
SatI	GCNGC	3 cut(s)	426, 435, 516
Sau3AI	GATC	3 cut(s)	77, 93, 652
SchI	GAGTC	2 cut(s)	501, 676
ScrFI	CCNGG	3 cut(s)	431, 497, 543
SfaNI	GCATC	1 cut(s)	265
SfcI	CTRYAG	1 cut(s)	513
SmlI	CTYRAG	1 cut(s)	461
SmoI	CTYRAG	1 cut(s)	461
Sse9I	AATT	4 cut(s)	503, 597, 622, 706
SspMI	CTAG	4 cut(s)	386, 474, 488, 775
StyD4I	CCNGG	3 cut(s)	429, 495, 541
StyI	CCWWGG	3 cut(s)	17, 129, 438
TaaI	ACNGT	3 cut(s)	68, 171, 619
TaiI	ACGT	1 cut(s)	295
TasI	AATT	4 cut(s)	503, 597, 622, 706
TfiI	GAWTC	1 cut(s)	532
Tru1I	TTAA	2 cut(s)	462, 506
Tru9I	TTAA	2 cut(s)	462, 506
TscAI	CASTG	4 cut(s)	103, 223, 624, 718
TseI	GCWGC	3 cut(s)	425, 434, 515
TspDTI	ATGAA	3 cut(s)	145, 626, 729
TspRI	CASTG	4 cut(s)	103, 223, 624, 718
Vha464I	CTTAAG	1 cut(s)	461
VspI	ATTAAT	1 cut(s)	506
XagI	CCTNNNNNAGG	1 cut(s)	242
XspI	CTAG	4 cut(s)	386, 474, 488, 775

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