Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0002850

Physical Location & Seq

Genomic Coordinates Forward (+)

66802276 .. 66804583

Gene Structure 2308 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00275330.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 480 bp

ATGGAGGCTTTCATGGGTAGTTACAAGGAGAAAGAAAACCAAGAAGAAAATCAAGATGATGATCATCATGAGATCCTCAAAACTAGAATCTCTAGCCATCCTTTATATGGGCTCTTGGTTGAAACTCACCTAGACTGTCTGAAGGTAGGTGGTAATGAAGATGACCTAGAGGAAAGTGATGCCCTCAGGGATTATATGAAGCAGCTTGACAATCACAAGACCAGTACTTTAGGAGAATCAGAGCTCGATCACTTCATGGAAGCATATTGCTTGGCACTTAGGAAGCTGAAGGAAGCAATGGAGGAACCTCACCAAAAGTCCATGACTTTCATAACTAACATGCACCATCAACTCAAGGAGCTAACCACCACCAGGTCTCATCTTGAACTACCTGAATCACCTGCCAGCTTCCACCACCACCGCCACACTTCTGGTGAAAGAAAACCAGAGATGATTGACTGTGCCAGAAGATCGATCTAG

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

KNOX1 KNOX2

Protein Analysis

159

Amino Acids

18.57

Weight (kDa)

5.46

Isoelectric Point (pI)

53.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	26 - 50	7.5e-08	KNOX1 domain
KNOX2	PF03791	80 - 122	1.1e-10	KNOX2 domain

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

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Publication-ready

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Orthologous Genes (Group: OG0002850)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G14760 AT1G14760 AT1G14760
fragaria_vesca	FvH4_4g33370 FvH4_4g33370 FvH4_5g17670 FvH4_5g17670
malus_domestica	MD06G1232400.v1.1 MD13G1018900.v1.1 MD14G1239200.v1.1
prunus_persica	Prupe.1G335000_v2.0.a1 Prupe.1G335000_v2.0.a1 Prupe.5G236700_v2.0.a1
pyrus_communis	pycom06g20660 pycom14g20010
rosa_chinensis	RchiOBHm_Chr4g0442631 RchiOBHm_Chr7g0177981
rosa_laevigata	RLG00000005445 RLG00000005485 RLG00000005997
rosa_multiflora	Rmu_co8272209.1_g000001
rosa_roxburghii	Rroxscaffold_3G00274890 Rroxscaffold_3G00275330 Rroxscaffold_5G00383430
rosa_rugosa	Rorug04G0341500 Rorug04G0341600 Rorug06G0412000 Rorug06G0412100
rosa_samantha	Rh4AG394200 Rh4BG407200 Rh4CG422600 Rh4DG401200 Rh7AG011400 Rh7BG010900 Rh7BG015300 Rh7CG011500 Rh7DG011400
rosa_wichuraiana	Rw4G034060 Rw7G000920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	409
Acc36I	ACCTGC	1 cut(s)	409
AciI	CCGC	1 cut(s)	421
AclWI	GGATC	1 cut(s)	67
AcuI	CTGAAG	2 cut(s)	161, 308
AfaI	GTAC	1 cut(s)	226
AfiI	CCNNNNNNNGG	2 cut(s)	107, 372
AgsI	TTSAA	2 cut(s)	122, 386
AjnI	CCWGG	1 cut(s)	371
AluBI	AGCT	5 cut(s)	205, 244, 286, 361, 408
AluI	AGCT	5 cut(s)	205, 244, 286, 361, 408
Alw21I	GWGCWC	1 cut(s)	246
Alw26I	GTCTC	1 cut(s)	381
AlwI	GGATC	1 cut(s)	67
ApeKI	GCWGC	1 cut(s)	202
AsuHPI	GGTGA	4 cut(s)	119, 302, 390, 446
AxyI	CCTNAGG	1 cut(s)	185
BanII	GRGCYC	2 cut(s)	114, 246
Bbv12I	GWGCWC	1 cut(s)	246
BbvI	GCAGC	1 cut(s)	214
BccI	CCATC	2 cut(s)	105, 354
BciT130I	CCWGG	1 cut(s)	373
BclI	TGATCA	1 cut(s)	61
BcoDI	GTCTC	1 cut(s)	381
BfaI	CTAG	5 cut(s)	84, 93, 131, 167, 478
BfuAI	ACCTGC	1 cut(s)	409
BisI	GCNGC	1 cut(s)	203
BlsI	GCNGC	1 cut(s)	204
BmcAI	AGTACT	1 cut(s)	226
Bme1390I	CCNGG	1 cut(s)	373
BmiI	GGNNCC	1 cut(s)	306
BmrFI	CCNGG	1 cut(s)	373
BmsI	GCATC	1 cut(s)	169
BpuEI	CTTGAG	1 cut(s)	338
Bsa29I	ATCGAT	1 cut(s)	473
BsaBI	GATNNNNATC	2 cut(s)	60, 63
BsaI	GGTCTC	1 cut(s)	381
Bsc4I	CCNNNNNNNGG	2 cut(s)	107, 372
Bse1I	ACTGG	1 cut(s)	222
Bse21I	CCTNAGG	1 cut(s)	185
Bse3DI	GCAATG	1 cut(s)	303
Bse8I	GATNNNNATC	2 cut(s)	60, 63
BseBI	CCWGG	1 cut(s)	373
BseCI	ATCGAT	1 cut(s)	473
BseGI	GGATG	1 cut(s)	97
BseJI	GATNNNNATC	2 cut(s)	60, 63
BseLI	CCNNNNNNNGG	2 cut(s)	107, 372
BseMI	GCAATG	1 cut(s)	303
BseMII	CTCAG	1 cut(s)	199
BseNI	ACTGG	1 cut(s)	222
BseXI	GCAGC	1 cut(s)	214
BshVI	ATCGAT	1 cut(s)	473
BsiHKAI	GWGCWC	1 cut(s)	246
BslI	CCNNNNNNNGG	2 cut(s)	107, 372
BsmAI	GTCTC	1 cut(s)	381
Bso31I	GGTCTC	1 cut(s)	381
Bsp1286I	GDGCHC	2 cut(s)	114, 246
Bsp143I	GATC	5 cut(s)	61, 72, 247, 470, 474
BspACI	CCGC	1 cut(s)	421
BspCNI	CTCAG	1 cut(s)	198
BspDI	ATCGAT	1 cut(s)	473
BspHI	TCATGA	1 cut(s)	67
BspLI	GGNNCC	1 cut(s)	306
BspMI	ACCTGC	1 cut(s)	409
BspPI	GGATC	1 cut(s)	67
BspTNI	GGTCTC	1 cut(s)	381
BsrDI	GCAATG	1 cut(s)	303
BsrI	ACTGG	1 cut(s)	222
BssMI	GATC	5 cut(s)	61, 72, 247, 470, 474
Bst2UI	CCWGG	1 cut(s)	373
Bst4CI	ACNGT	2 cut(s)	137, 461
BstC8I	GCNNGC	1 cut(s)	406
BstDEI	CTNAG	2 cut(s)	185, 278
BstF5I	GGATG	1 cut(s)	97
BstKTI	GATC	5 cut(s)	64, 75, 250, 473, 477
BstMAI	GTCTC	1 cut(s)	381
BstMBI	GATC	5 cut(s)	61, 72, 247, 470, 474
BstNI	CCWGG	1 cut(s)	373
BstNSI	RCATGY	1 cut(s)	343
BstSCI	CCNGG	1 cut(s)	371
BstV1I	GCAGC	1 cut(s)	214
BstX2I	RGATCY	1 cut(s)	72
BstXI	CCANNNNNNTGG	1 cut(s)	431
BstYI	RGATCY	1 cut(s)	72
Bsu15I	ATCGAT	1 cut(s)	473
Bsu36I	CCTNAGG	1 cut(s)	185
BsuTUI	ATCGAT	1 cut(s)	473
BtsCI	GGATG	1 cut(s)	97
BveI	ACCTGC	1 cut(s)	409
Cac8I	GCNNGC	1 cut(s)	406
CciI	TCATGA	1 cut(s)	67
ClaI	ATCGAT	1 cut(s)	473
CsiI	ACCWGGT	1 cut(s)	371
Csp6I	GTAC	1 cut(s)	225
CviAII	CATG	5 cut(s)	13, 68, 256, 322, 340
CviJI	RGCY	8 cut(s)	8, 96, 112, 205, 244, 286, 361, 408
CviKI_1	RGCY	8 cut(s)	8, 96, 112, 205, 244, 286, 361, 408
CviQI	GTAC	1 cut(s)	225
DdeI	CTNAG	2 cut(s)	185, 278
DpnI	GATC	5 cut(s)	63, 74, 249, 472, 476
DpnII	GATC	5 cut(s)	61, 72, 247, 470, 474
Ecl136II	GAGCTC	1 cut(s)	244
Eco24I	GRGCYC	2 cut(s)	114, 246
Eco31I	GGTCTC	1 cut(s)	381
Eco53kI	GAGCTC	1 cut(s)	244
Eco57I	CTGAAG	2 cut(s)	161, 308
Eco81I	CCTNAGG	1 cut(s)	185
EcoICRI	GAGCTC	1 cut(s)	244
EcoRII	CCWGG	1 cut(s)	371
EcoT38I	GRGCYC	2 cut(s)	114, 246
FaeI	CATG	5 cut(s)	16, 71, 259, 325, 343
FatI	CATG	5 cut(s)	12, 67, 255, 321, 339
FbaI	TGATCA	1 cut(s)	61
Fnu4HI	GCNGC	1 cut(s)	203
FokI	GGATG	1 cut(s)	84
FriOI	GRGCYC	2 cut(s)	114, 246
Fsp4HI	GCNGC	1 cut(s)	203
FspBI	CTAG	5 cut(s)	84, 93, 131, 167, 478
GluI	GCNGC	1 cut(s)	203
Hin1II	CATG	5 cut(s)	16, 71, 259, 325, 343
HinfI	GANTC	3 cut(s)	87, 236, 395
HphI	GGTGA	4 cut(s)	119, 302, 390, 446
Hpy188I	TCNGA	2 cut(s)	141, 241
Hpy188III	TCNNGA	3 cut(s)	53, 68, 383
HpyAV	CCTTC	2 cut(s)	136, 283
HpyCH4III	ACNGT	2 cut(s)	137, 461
HpyCH4V	TGCA	1 cut(s)	343
HpyF3I	CTNAG	2 cut(s)	185, 278
Hsp92II	CATG	5 cut(s)	16, 71, 259, 325, 343
Ksp22I	TGATCA	1 cut(s)	61
Kzo9I	GATC	5 cut(s)	61, 72, 247, 470, 474
LmnI	GCTCC	1 cut(s)	358
LpnPI	CCDG	9 cut(s)	172, 235, 358, 385, 405, 414, 417, 418, 459
Lsp1109I	GCAGC	1 cut(s)	214
LweI	GCATC	1 cut(s)	169
MabI	ACCWGGT	1 cut(s)	371
MaeI	CTAG	5 cut(s)	84, 93, 131, 167, 478
MaeIII	GTNAC	1 cut(s)	20
MalI	GATC	5 cut(s)	63, 74, 249, 472, 476
MboI	GATC	5 cut(s)	61, 72, 247, 470, 474
MboII	GAAGA	3 cut(s)	56, 170, 480
MflI	RGATCY	1 cut(s)	72
MhlI	GDGCHC	2 cut(s)	114, 246
MnlI	CCTC	5 cut(s)	86, 163, 194, 295, 318
MspR9I	CCNGG	1 cut(s)	373
MvaI	CCWGG	1 cut(s)	373
NdeII	GATC	5 cut(s)	61, 72, 247, 470, 474
NlaIII	CATG	5 cut(s)	16, 71, 259, 325, 343
NlaIV	GGNNCC	1 cut(s)	306
NspI	RCATGY	1 cut(s)	343
PagI	TCATGA	1 cut(s)	67
PaqCI	CACCTGC	1 cut(s)	409
PfeI	GAWTC	3 cut(s)	87, 236, 395
PkrI	GCNGC	1 cut(s)	204
Psp124BI	GAGCTC	1 cut(s)	246
Psp6I	CCWGG	1 cut(s)	371
PspGI	CCWGG	1 cut(s)	371
PspN4I	GGNNCC	1 cut(s)	306
PsuI	RGATCY	1 cut(s)	72
RsaI	GTAC	1 cut(s)	226
RsaNI	GTAC	1 cut(s)	225
SacI	GAGCTC	1 cut(s)	246
SatI	GCNGC	1 cut(s)	203
Sau3AI	GATC	5 cut(s)	61, 72, 247, 470, 474
ScaI	AGTACT	1 cut(s)	226
ScrFI	CCNGG	1 cut(s)	373
SduI	GDGCHC	2 cut(s)	114, 246
SexAI	ACCWGGT	1 cut(s)	371
SfaNI	GCATC	1 cut(s)	169
SmlI	CTYRAG	1 cut(s)	353
SmoI	CTYRAG	1 cut(s)	353
SsiI	CCGC	1 cut(s)	421
SspMI	CTAG	5 cut(s)	84, 93, 131, 167, 478
SstI	GAGCTC	1 cut(s)	246
StyD4I	CCNGG	1 cut(s)	371
TaaI	ACNGT	2 cut(s)	137, 461
TaqI	TCGA	2 cut(s)	246, 473
TatI	WGTACW	1 cut(s)	224
TfiI	GAWTC	3 cut(s)	87, 236, 395
TseI	GCWGC	1 cut(s)	202
TspDTI	ATGAA	4 cut(s)	171, 212, 244, 319
XceI	RCATGY	1 cut(s)	343
XcmI	CCANNNNNNNNNTGG	1 cut(s)	104
XspI	CTAG	5 cut(s)	84, 93, 131, 167, 478
ZrmI	AGTACT	1 cut(s)	226

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