Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001693

Physical Location & Seq

Genomic Coordinates Forward (+)

10491462 .. 10503555

Gene Structure 12094 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG058900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 399 bp

ATGCTAGATCATGACCTTGTTGGGGGCGTAGAGGGGGTTGGGGTCGTCGCCGACGATGGTGAGGATGTTGTAATGGAAGAGCATCTGGACCAATCCAACAGCGCCGCGTGGGCCGAAGTCGCGGCGGAAGATCTCACGGAAGGGGTTGCATTTGTAGATGCGGAAGTCGAGGATGAGATGGAAATGGCAAAGGCTGGTGGGGAAGTTGTGGTGGAGAAGTCTAATACATATGAAGAATGTGGTGCTAGTTTTAAGAAACCTGCGTATCTCAAGAAGCATATGCAAAGCCATTCTCCTGAGGAAACTCTAGAAGCTGAGATCAAGATGCTCAGGAAGAAGTTGACCTTTAAAGCAATTACAATGCCTAACGCTGATCCTCCTCCTAATACCTCTAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000182 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006355 GO:0008097 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0019843 GO:0022613 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0042254 GO:0042273 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0070013 GO:0071840 GO:0080084 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR zf-C2H2

Protein Analysis

132

Amino Acids

14.32

Weight (kDa)

4.41

Isoelectric Point (pI)

40.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPX2	PF06886	95 - 128	1e-05	Targeting protein for Xklp2 (TPX2) domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0001693)

Species	Orthologous Gene IDs
malus_domestica	MD15G1186700.v1.1
prunus_persica	Prupe.4G066100_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0336331 RchiOBHm_Chr6g0290001 RchiOBHm_Chr7g0227531
rosa_laevigata	RLG00000002888 RLG00000019365
rosa_multiflora	Rmu_sc0000565.1_g000023 Rmu_sc0000776.1_g000047 Rmu_sc0002131.1_g000031 Rmu_sc0002701.1_g000052 Rmu_sc0003318.1_g000004 Rmu_sc0004517.1_g000008 Rmu_sc0004877.1_g000002 Rmu_sc0039095.1_g000001
rosa_roxburghii	Rroxscaffold_1G00033520 Rroxscaffold_1G00040810 Rroxscaffold_1G00040820 Rroxscaffold_2G00107400 Rroxscaffold_2G00116610 Rroxscaffold_3G00224610 Rroxscaffold_4G00304390 Rroxscaffold_4G00304400 Rroxscaffold_4G00315830 Rroxscaffold_5G00346140 Rroxscaffold_5G00380560 Rroxscaffold_6G00389400 Rroxscaffold_7G00183550 Rroxscaffold_7G00205640
rosa_rugosa	Rorug06G0035900
rosa_samantha	Rh1AG116800 Rh2BG425100 Rh2CG611600 Rh2DG432400 Rh3CG233600 Rh4AG247700 Rh4BG058900 Rh4CG156400 Rh5AG268300 Rh5AG485100 Rh5BG239200 Rh5BG398300 Rh6CG191700 Rh7AG359900 Rh7AG382100 Rh7AG403900 Rh7CG188000 Rh7CG378300 Rh7DG395000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	268
AccII	CGCG	2 cut(s)	107, 122
AciI	CCGC	4 cut(s)	105, 122, 125, 161
AclWI	GGATC	1 cut(s)	368
AfiI	CCNNNNNNNGG	1 cut(s)	22
AluBI	AGCT	1 cut(s)	314
AluI	AGCT	1 cut(s)	314
AlwI	GGATC	1 cut(s)	368
AoxI	GGCC	1 cut(s)	111
AspLEI	GCGC	1 cut(s)	104
AspS9I	GGNCC	2 cut(s)	88, 111
AsuHPI	GGTGA	1 cut(s)	71
AvaII	GGWCC	1 cut(s)	88
AxyI	CCTNAGG	1 cut(s)	297
BaeI	ACNNNNGTAYC	2 cut(s)	248, 281
BccI	CCATC	2 cut(s)	50, 172
BfaI	CTAG	3 cut(s)	5, 246, 308
BfoI	RGCGCY	1 cut(s)	105
BfuAI	ACCTGC	1 cut(s)	268
BglI	GCCNNNNNGGC	1 cut(s)	110
BglII	AGATCT	1 cut(s)	130
BisI	GCNGC	2 cut(s)	105, 123
BlsI	GCNGC	2 cut(s)	106, 124
Bme18I	GGWCC	1 cut(s)	88
BmgT120I	GGNCC	2 cut(s)	88, 111
BmsI	GCATC	3 cut(s)	91, 148, 315
Bpu10I	CCTNAGC	1 cut(s)	329
BpuEI	CTTGAG	1 cut(s)	254
Bsc4I	CCNNNNNNNGG	1 cut(s)	22
Bse21I	CCTNAGG	1 cut(s)	297
BseGI	GGATG	2 cut(s)	70, 178
BseLI	CCNNNNNNNGG	1 cut(s)	22
BseMII	CTCAG	3 cut(s)	288, 306, 343
BseRI	GAGGAG	1 cut(s)	369
Bsh1236I	CGCG	2 cut(s)	107, 122
BshFI	GGCC	1 cut(s)	113
BslI	CCNNNNNNNGG	1 cut(s)	22
BsnI	GGCC	1 cut(s)	113
Bsp143I	GATC	4 cut(s)	7, 130, 318, 373
BspACI	CCGC	4 cut(s)	105, 122, 125, 161
BspANI	GGCC	1 cut(s)	113
BspCNI	CTCAG	3 cut(s)	289, 307, 342
BspFNI	CGCG	2 cut(s)	107, 122
BspHI	TCATGA	1 cut(s)	10
BspMI	ACCTGC	1 cut(s)	268
BspPI	GGATC	1 cut(s)	368
BspQI	GCTCTTC	1 cut(s)	72
BssMI	GATC	4 cut(s)	7, 130, 318, 373
Bst6I	CTCTTC	1 cut(s)	72
BstDEI	CTNAG	4 cut(s)	297, 315, 329, 393
BstF5I	GGATG	2 cut(s)	70, 178
BstFNI	CGCG	2 cut(s)	107, 122
BstH2I	RGCGCY	1 cut(s)	105
BstHHI	GCGC	1 cut(s)	104
BstKTI	GATC	4 cut(s)	10, 133, 321, 376
BstMBI	GATC	4 cut(s)	7, 130, 318, 373
BstMWI	GCNNNNNNNGC	2 cut(s)	110, 119
BstUI	CGCG	2 cut(s)	107, 122
BstX2I	RGATCY	1 cut(s)	130
BstYI	RGATCY	1 cut(s)	130
Bsu36I	CCTNAGG	1 cut(s)	297
BsuRI	GGCC	1 cut(s)	113
BtsCI	GGATG	2 cut(s)	70, 178
BveI	ACCTGC	1 cut(s)	268
CciI	TCATGA	1 cut(s)	10
CfoI	GCGC	1 cut(s)	104
Cfr13I	GGNCC	2 cut(s)	88, 111
CviAII	CATG	1 cut(s)	11
CviJI	RGCY	4 cut(s)	113, 194, 288, 314
CviKI_1	RGCY	4 cut(s)	113, 194, 288, 314
DdeI	CTNAG	4 cut(s)	297, 315, 329, 393
DpnI	GATC	4 cut(s)	9, 132, 320, 375
DpnII	GATC	4 cut(s)	7, 130, 318, 373
DraI	TTTAAA	1 cut(s)	349
Eam1104I	CTCTTC	1 cut(s)	72
EarI	CTCTTC	1 cut(s)	72
EciI	GGCGGA	1 cut(s)	140
Eco47I	GGWCC	1 cut(s)	88
Eco81I	CCTNAGG	1 cut(s)	297
FaeI	CATG	1 cut(s)	14
FaiI	YATR	5 cut(s)	12, 229, 231, 279, 281
FalI	AAGNNNNNCTT	2 cut(s)	329, 361
FatI	CATG	1 cut(s)	10
FauNDI	CATATG	2 cut(s)	229, 279
Fnu4HI	GCNGC	2 cut(s)	105, 123
FokI	GGATG	2 cut(s)	77, 185
Fsp4HI	GCNGC	2 cut(s)	105, 123
FspBI	CTAG	3 cut(s)	5, 246, 308
GlaI	GCGC	1 cut(s)	103
GluI	GCNGC	2 cut(s)	105, 123
HaeII	RGCGCY	1 cut(s)	105
HaeIII	GGCC	1 cut(s)	113
HhaI	GCGC	1 cut(s)	104
Hin1II	CATG	1 cut(s)	14
Hin6I	GCGC	1 cut(s)	102
HinP1I	GCGC	1 cut(s)	102
HincII	GTYRAC	1 cut(s)	342
HindII	GTYRAC	1 cut(s)	342
HphI	GGTGA	1 cut(s)	71
Hpy166II	GTNNAC	1 cut(s)	342
Hpy188III	TCNNGA	7 cut(s)	11, 86, 271, 296, 308, 322, 331
Hpy8I	GTNNAC	1 cut(s)	342
Hpy99I	CGWCG	2 cut(s)	50, 56
HpyAV	CCTTC	1 cut(s)	134
HpyCH4V	TGCA	2 cut(s)	149, 283
HpyF10VI	GCNNNNNNNGC	2 cut(s)	110, 119
HpyF3I	CTNAG	4 cut(s)	297, 315, 329, 393
Hsp92II	CATG	1 cut(s)	14
HspAI	GCGC	1 cut(s)	102
Kzo9I	GATC	4 cut(s)	7, 130, 318, 373
LguI	GCTCTTC	1 cut(s)	72
LpnPI	CCDG	5 cut(s)	71, 180, 273, 309, 316
LweI	GCATC	3 cut(s)	91, 148, 315
MaeI	CTAG	3 cut(s)	5, 246, 308
MalI	GATC	4 cut(s)	9, 132, 320, 375
MboI	GATC	4 cut(s)	7, 130, 318, 373
MboII	GAAGA	4 cut(s)	89, 140, 245, 346
MflI	RGATCY	1 cut(s)	130
MluCI	AATT	1 cut(s)	354
MmeI	TCCRAC	1 cut(s)	120
MnlI	CCTC	6 cut(s)	25, 55, 163, 292, 387, 390
MseI	TTAA	2 cut(s)	252, 348
MvnI	CGCG	2 cut(s)	107, 122
MwoI	GCNNNNNNNGC	2 cut(s)	110, 119
NdeI	CATATG	2 cut(s)	229, 279
NdeII	GATC	4 cut(s)	7, 130, 318, 373
NlaIII	CATG	1 cut(s)	14
PagI	TCATGA	1 cut(s)	10
PciSI	GCTCTTC	1 cut(s)	72
PcsI	WCGNNNNNNNCGW	1 cut(s)	51
PkrI	GCNGC	2 cut(s)	106, 124
PspPI	GGNCC	2 cut(s)	88, 111
PsuI	RGATCY	1 cut(s)	130
SapI	GCTCTTC	1 cut(s)	72
SaqAI	TTAA	2 cut(s)	252, 348
SatI	GCNGC	2 cut(s)	105, 123
Sau3AI	GATC	4 cut(s)	7, 130, 318, 373
Sau96I	GGNCC	2 cut(s)	88, 111
SetI	ASST	5 cut(s)	18, 262, 316, 347, 392
SfaNI	GCATC	3 cut(s)	91, 148, 315
SinI	GGWCC	1 cut(s)	88
SmlI	CTYRAG	1 cut(s)	269
SmoI	CTYRAG	1 cut(s)	269
Sse9I	AATT	1 cut(s)	354
SsiI	CCGC	4 cut(s)	105, 122, 125, 161
SspMI	CTAG	3 cut(s)	5, 246, 308
TaqI	TCGA	1 cut(s)	168
TasI	AATT	1 cut(s)	354
TauI	GCSGC	2 cut(s)	107, 125
Tru1I	TTAA	2 cut(s)	252, 348
Tru9I	TTAA	2 cut(s)	252, 348
TspDTI	ATGAA	1 cut(s)	246
TspGWI	ACGGA	1 cut(s)	152
VpaK11BI	GGWCC	1 cut(s)	88
XbaI	TCTAGA	1 cut(s)	307
XspI	CTAG	3 cut(s)	5, 246, 308

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