Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002603

Physical Location & Seq

Genomic Coordinates Reverse (-)

18205915 .. 18207043

Gene Structure 1129 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG115200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 333 bp

ATGGCGATTACGCAAACAGAGCAAATTCCTCTGTCTTATGCTGAGGACATTATTGGGGTTGAAGGGAGGAGTATTGAATTTATTCGTCATAGTAGTGGAGCCTTGTTAACTGTACAAGAGAGCAGGGGACTACCTGATGAAATTACAGTGGAAATAAAAGGCACCTCATCACAGGTTCAGGCGGCTCAACAACTGATTCAGGAAGTTATAGCAACTAGCAACAAGGATCAAATTCCAAGCAGCTATGGCAGGATGGATACCGGATTGAGCTCATCCTACTCTCAGTTAGATTCTATATCTTACCCTTCCTCTTCAGTATCCTCGCTACCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006351 GO:0006396 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009299 GO:0009791 GO:0009908 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0018130 GO:0019438 GO:0022414 GO:0032501 GO:0032502 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0046483 GO:0048367 GO:0048438 GO:0048467 GO:0048519 GO:0048577 GO:0048579 GO:0048580 GO:0048581 GO:0048583 GO:0048585 GO:0048586 GO:0048587 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0051093 GO:0051239 GO:0051241 GO:0061458 GO:0065007 GO:0071704 GO:0090304 GO:0090567 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:2000026 GO:2000028 GO:2000241 GO:2000242

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

KH_1

Protein Analysis

110

Amino Acids

11.81

Weight (kDa)

4.38

Isoelectric Point (pI)

60.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KH_1	PF00013	8 - 68	1.7e-10	KH domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002603)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G26000
fragaria_vesca	FvH4_4g07200
malus_domestica	MD13G1239500.v1.1 MD16G1248300.v1.1
prunus_persica	Prupe.1G074800_v2.0.a1
pyrus_communis	pycom16g20810
rosa_chinensis	RchiOBHm_Chr1g0313971 RchiOBHm_Chr2g0148541 RchiOBHm_Chr4g0399461 RchiOBHm_Chr5g0014711 RchiOBHm_Chr6g0261341
rosa_laevigata	RLG00000009266 RLG00000030564 RLG00000030569
rosa_multiflora	Rmu_sc0002255.1_g000002 Rmu_sc0002285.1_g000008 Rmu_sc0039997.1_g000001
rosa_roxburghii	Rroxscaffold_5G00344350
rosa_rugosa	Rorug04G0017100
rosa_samantha	Rh1AG125900 Rh1BG084500 Rh1CG119800 Rh2BG479200 Rh2CG224100 Rh2CG303100 Rh2DG228200 Rh2DG339000 Rh2DG488100 Rh4AG094900 Rh4BG092200 Rh4CG103100 Rh4DG087100 Rh4DG115200 Rh5BG489900 Rh5CG124300 Rh5CG332000 Rh5CG513700 Rh6CG106600
rosa_wichuraiana	Rw1G021120 Rw4G007800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	161
AciI	CCGC	1 cut(s)	182
AclWI	GGATC	1 cut(s)	234
AcsI	RAATTY	3 cut(s)	24, 77, 231
AcuI	CTGAAG	1 cut(s)	297
AfaI	GTAC	1 cut(s)	114
AgsI	TTSAA	2 cut(s)	62, 77
AluBI	AGCT	2 cut(s)	243, 270
AluI	AGCT	2 cut(s)	243, 270
Alw21I	GWGCWC	1 cut(s)	272
AlwI	GGATC	1 cut(s)	234
ApeKI	GCWGC	1 cut(s)	240
ApoI	RAATTY	3 cut(s)	24, 77, 231
Asp700I	GAANNNNTTC	1 cut(s)	81
BanI	GGYRCC	1 cut(s)	161
BanII	GRGCYC	1 cut(s)	272
Bbv12I	GWGCWC	1 cut(s)	272
BbvCI	CCTCAGC	1 cut(s)	42
BbvI	GCAGC	1 cut(s)	252
BccI	CCATC	1 cut(s)	247
BciVI	GTATCC	2 cut(s)	250, 328
BfaI	CTAG	1 cut(s)	216
BfuI	GTATCC	2 cut(s)	250, 328
BisI	GCNGC	2 cut(s)	183, 241
BlsI	GCNGC	2 cut(s)	184, 242
BmiI	GGNNCC	2 cut(s)	100, 163
Bpu10I	CCTNAGC	1 cut(s)	42
BsaWI	WCCGGW	1 cut(s)	260
BseGI	GGATG	2 cut(s)	258, 272
BseMII	CTCAG	2 cut(s)	33, 296
BseRI	GAGGAG	1 cut(s)	82
BseXI	GCAGC	1 cut(s)	252
BshNI	GGYRCC	1 cut(s)	161
BsiHKAI	GWGCWC	1 cut(s)	272
BsiSI	CCGG	1 cut(s)	261
BslFI	GGGAC	1 cut(s)	141
BsmFI	GGGAC	1 cut(s)	141
Bsp1286I	GDGCHC	1 cut(s)	272
Bsp1407I	TGTACA	1 cut(s)	112
Bsp143I	GATC	1 cut(s)	226
BspACI	CCGC	1 cut(s)	182
BspCNI	CTCAG	2 cut(s)	34, 295
BspLI	GGNNCC	2 cut(s)	100, 163
BspPI	GGATC	1 cut(s)	234
BspT107I	GGYRCC	1 cut(s)	161
BsrGI	TGTACA	1 cut(s)	112
BssMI	GATC	1 cut(s)	226
Bst4CI	ACNGT	2 cut(s)	112, 148
Bst6I	CTCTTC	1 cut(s)	316
BstAUI	TGTACA	1 cut(s)	112
BstDEI	CTNAG	2 cut(s)	42, 282
BstF5I	GGATG	2 cut(s)	258, 272
BstKTI	GATC	1 cut(s)	229
BstMBI	GATC	1 cut(s)	226
BstMWI	GCNNNNNNNGC	2 cut(s)	19, 246
BstV1I	GCAGC	1 cut(s)	252
BsuI	GTATCC	2 cut(s)	250, 328
BtsCI	GGATG	2 cut(s)	258, 272
BtsIMutI	CAGTG	1 cut(s)	153
Csp6I	GTAC	1 cut(s)	113
CviJI	RGCY	4 cut(s)	101, 185, 243, 270
CviKI_1	RGCY	4 cut(s)	101, 185, 243, 270
CviQI	GTAC	1 cut(s)	113
DdeI	CTNAG	2 cut(s)	42, 282
DpnI	GATC	1 cut(s)	228
DpnII	GATC	1 cut(s)	226
Eam1104I	CTCTTC	1 cut(s)	316
EarI	CTCTTC	1 cut(s)	316
Ecl136II	GAGCTC	1 cut(s)	270
Eco24I	GRGCYC	1 cut(s)	272
Eco53kI	GAGCTC	1 cut(s)	270
Eco57I	CTGAAG	1 cut(s)	297
EcoICRI	GAGCTC	1 cut(s)	270
EcoT38I	GRGCYC	1 cut(s)	272
FaiI	YATR	5 cut(s)	39, 90, 209, 246, 296
FaqI	GGGAC	1 cut(s)	141
Fnu4HI	GCNGC	2 cut(s)	183, 241
FokI	GGATG	2 cut(s)	259, 265
FriOI	GRGCYC	1 cut(s)	272
Fsp4HI	GCNGC	2 cut(s)	183, 241
FspBI	CTAG	1 cut(s)	216
GluI	GCNGC	2 cut(s)	183, 241
HapII	CCGG	1 cut(s)	261
HincII	GTYRAC	1 cut(s)	108
HindII	GTYRAC	1 cut(s)	108
HinfI	GANTC	2 cut(s)	196, 290
HpaI	GTTAAC	1 cut(s)	108
HpaII	CCGG	1 cut(s)	261
Hpy166II	GTNNAC	1 cut(s)	108
Hpy188III	TCNNGA	1 cut(s)	200
Hpy8I	GTNNAC	1 cut(s)	108
HpyAV	CCTTC	2 cut(s)	56, 315
HpyCH4III	ACNGT	2 cut(s)	112, 148
HpyF10VI	GCNNNNNNNGC	2 cut(s)	19, 246
HpyF3I	CTNAG	2 cut(s)	42, 282
KspAI	GTTAAC	1 cut(s)	108
Kzo9I	GATC	1 cut(s)	226
LmnI	GCTCC	1 cut(s)	98
LpnPI	CCDG	7 cut(s)	109, 147, 158, 164, 185, 235, 274
Lsp1109I	GCAGC	1 cut(s)	252
MaeI	CTAG	1 cut(s)	216
MalI	GATC	1 cut(s)	228
MboI	GATC	1 cut(s)	226
MboII	GAAGA	1 cut(s)	303
MhlI	GDGCHC	1 cut(s)	272
MluCI	AATT	4 cut(s)	24, 77, 141, 231
MnlI	CCTC	6 cut(s)	37, 39, 60, 175, 319, 331
MroXI	GAANNNNTTC	1 cut(s)	81
MseI	TTAA	2 cut(s)	107, 331
MslI	CAYNNNNRTG	1 cut(s)	93
MspI	CCGG	1 cut(s)	261
MwoI	GCNNNNNNNGC	2 cut(s)	19, 246
NdeII	GATC	1 cut(s)	226
NlaIV	GGNNCC	2 cut(s)	100, 163
PdmI	GAANNNNTTC	1 cut(s)	81
PfeI	GAWTC	2 cut(s)	196, 290
PkrI	GCNGC	2 cut(s)	184, 242
Psp124BI	GAGCTC	1 cut(s)	272
PspN4I	GGNNCC	2 cut(s)	100, 163
RsaI	GTAC	1 cut(s)	114
RsaNI	GTAC	1 cut(s)	113
RseI	CAYNNNNRTG	1 cut(s)	93
SacI	GAGCTC	1 cut(s)	272
SaqAI	TTAA	2 cut(s)	107, 331
SatI	GCNGC	2 cut(s)	183, 241
Sau3AI	GATC	1 cut(s)	226
SduI	GDGCHC	1 cut(s)	272
SetI	ASST	6 cut(s)	136, 167, 177, 245, 272, 331
SmiMI	CAYNNNNRTG	1 cut(s)	93
Sse9I	AATT	4 cut(s)	24, 77, 141, 231
SsiI	CCGC	1 cut(s)	182
SspMI	CTAG	1 cut(s)	216
SstI	GAGCTC	1 cut(s)	272
TaaI	ACNGT	2 cut(s)	112, 148
TasI	AATT	4 cut(s)	24, 77, 141, 231
TatI	WGTACW	1 cut(s)	112
TauI	GCSGC	1 cut(s)	185
TfiI	GAWTC	2 cut(s)	196, 290
Tru1I	TTAA	2 cut(s)	107, 331
Tru9I	TTAA	2 cut(s)	107, 331
TscAI	CASTG	1 cut(s)	153
TseI	GCWGC	1 cut(s)	240
TspDTI	ATGAA	1 cut(s)	153
TspRI	CASTG	1 cut(s)	153
XapI	RAATTY	3 cut(s)	24, 77, 231
XmnI	GAANNNNTTC	1 cut(s)	81
XspI	CTAG	1 cut(s)	216

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