Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0023113

Physical Location & Seq

Genomic Coordinates Reverse (-)

34351964 .. 34361785

Gene Structure 9822 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG200200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 390 bp

ATGAAAATCAACAGGTTCCAGGACGACTTAACCTTGACTTTTGTTTTATTTTATTTGCTTCGACTAGGAATCAATGGAACCATAAACCATGTCTCGTCATCCTCTTTTGATGTGGGAGTTGTTCTCGACGGAAATTCATCTATTGTCCGGCATTTCATATCTGTTCATCCGAAATGTGAACCACAACGGCGTGGAATCCAGCTAACCACTGCTTCGGCAACGGCGACTCAGCTGAGCAGAGGGGATTGCGAGGTGATGAGGTACAGAGAGAAGAGGAAGAAGCACAAGTTCCAGAGGACAATTCGATATGCCTCCCGGAAAGCCTATGCCGAAACCCGGTCGAGAATCAAAGGCTGGTTGGCAAAATCACCGAGACCTAAATGGAGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009889 GO:0009909 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048580 GO:0048831 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051239 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000026 GO:2000112 GO:2000241 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CCT zf-B_box

Protein Analysis

129

Amino Acids

14.98

Weight (kDa)

10.97

Isoelectric Point (pI)

41.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CCT	PF06203	84 - 119	2.4e-13	CCT motif

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)

Image

Tree File

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Orthologous Genes (Group: OG0023113)

Species	Orthologous Gene IDs
rosa_multiflora	Rmu_sc0005454.1_g000019
rosa_roxburghii	Rroxscaffold_3G00248600
rosa_samantha	Rh4BG200200 Rh6AG421600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	1 cut(s)	133
AfaI	GTAC	1 cut(s)	263
AfiI	CCNNNNNNNGG	1 cut(s)	336
AjnI	CCWGG	1 cut(s)	18
AluBI	AGCT	2 cut(s)	202, 232
AluI	AGCT	2 cut(s)	202, 232
Alw26I	GTCTC	2 cut(s)	97, 367
ApoI	RAATTY	1 cut(s)	133
AsuC2I	CCSGG	2 cut(s)	316, 337
AsuHPI	GGTGA	2 cut(s)	265, 360
BceAI	ACGGC	2 cut(s)	203, 237
BciT130I	CCWGG	1 cut(s)	20
BcnI	CCSGG	2 cut(s)	316, 337
BcoDI	GTCTC	2 cut(s)	97, 367
BfaI	CTAG	1 cut(s)	65
BlpI	GCTNAGC	1 cut(s)	233
Bme1390I	CCNGG	3 cut(s)	20, 316, 337
BmiI	GGNNCC	2 cut(s)	17, 79
BmrFI	CCNGG	3 cut(s)	20, 316, 337
BplI	GAGNNNNNCTC	2 cut(s)	108, 140
Bpu1102I	GCTNAGC	1 cut(s)	233
BpuMI	CCSGG	2 cut(s)	316, 337
BsaI	GGTCTC	1 cut(s)	367
Bsc4I	CCNNNNNNNGG	1 cut(s)	336
BseBI	CCWGG	1 cut(s)	20
BseGI	GGATG	2 cut(s)	98, 166
BseLI	CCNNNNNNNGG	1 cut(s)	336
BseMII	CTCAG	2 cut(s)	224, 242
Bsh1285I	CGRYCG	1 cut(s)	341
BsiEI	CGRYCG	1 cut(s)	341
BsiSI	CCGG	3 cut(s)	148, 316, 337
BslI	CCNNNNNNNGG	1 cut(s)	336
BsmAI	GTCTC	2 cut(s)	97, 367
Bso31I	GGTCTC	1 cut(s)	367
Bsp1720I	GCTNAGC	1 cut(s)	233
BspCNI	CTCAG	2 cut(s)	225, 241
BspLI	GGNNCC	2 cut(s)	17, 79
BspTNI	GGTCTC	1 cut(s)	367
Bst2UI	CCWGG	1 cut(s)	20
Bst6I	CTCTTC	1 cut(s)	266
BstDEI	CTNAG	2 cut(s)	228, 233
BstF5I	GGATG	2 cut(s)	98, 166
BstMAI	GTCTC	2 cut(s)	97, 367
BstMCI	CGRYCG	1 cut(s)	341
BstNI	CCWGG	1 cut(s)	20
BstSCI	CCNGG	3 cut(s)	18, 314, 335
BtsCI	GGATG	2 cut(s)	98, 166
BtsI	GCAGTG	1 cut(s)	207
BtsIMutI	CAGTG	1 cut(s)	207
Csp6I	GTAC	1 cut(s)	262
CviAII	CATG	1 cut(s)	89
CviJI	RGCY	4 cut(s)	202, 232, 323, 354
CviKI_1	RGCY	4 cut(s)	202, 232, 323, 354
CviQI	GTAC	1 cut(s)	262
DdeI	CTNAG	2 cut(s)	228, 233
Eam1104I	CTCTTC	1 cut(s)	266
EarI	CTCTTC	1 cut(s)	266
Eco31I	GGTCTC	1 cut(s)	367
EcoRII	CCWGG	1 cut(s)	18
FaeI	CATG	1 cut(s)	92
FaiI	YATR	5 cut(s)	83, 90, 158, 309, 327
FatI	CATG	1 cut(s)	88
FokI	GGATG	2 cut(s)	85, 153
FspBI	CTAG	1 cut(s)	65
HapII	CCGG	3 cut(s)	148, 316, 337
Hin1II	CATG	1 cut(s)	92
HinfI	GANTC	4 cut(s)	69, 195, 226, 345
HpaII	CCGG	3 cut(s)	148, 316, 337
HphI	GGTGA	2 cut(s)	265, 360
Hpy166II	GTNNAC	1 cut(s)	179
Hpy188I	TCNGA	1 cut(s)	171
Hpy188III	TCNNGA	3 cut(s)	125, 292, 342
Hpy8I	GTNNAC	1 cut(s)	179
Hpy99I	CGWCG	1 cut(s)	131
HpyF3I	CTNAG	2 cut(s)	228, 233
Hsp92II	CATG	1 cut(s)	92
LpnPI	CCDG	8 cut(s)	5, 32, 161, 212, 305, 329, 340, 350
MaeI	CTAG	1 cut(s)	65
MboII	GAAGA	2 cut(s)	283, 289
MluCI	AATT	2 cut(s)	133, 300
MlyI	GAGTC	1 cut(s)	220
MnlI	CCTC	8 cut(s)	112, 233, 244, 252, 267, 288, 322, 378
MseI	TTAA	1 cut(s)	29
MspA1I	CMGCKG	1 cut(s)	232
MspI	CCGG	3 cut(s)	148, 316, 337
MspR9I	CCNGG	3 cut(s)	20, 316, 337
MvaI	CCWGG	1 cut(s)	20
NciI	CCSGG	2 cut(s)	316, 337
NlaIII	CATG	1 cut(s)	92
NlaIV	GGNNCC	2 cut(s)	17, 79
PcsI	WCGNNNNNNNCGW	1 cut(s)	221
PfeI	GAWTC	3 cut(s)	69, 195, 345
PfoI	TCCNGGA	2 cut(s)	18, 314
PleI	GAGTC	1 cut(s)	220
PpsI	GAGTC	1 cut(s)	220
Psp6I	CCWGG	1 cut(s)	18
PspGI	CCWGG	1 cut(s)	18
PspN4I	GGNNCC	2 cut(s)	17, 79
PvuII	CAGCTG	1 cut(s)	232
RsaI	GTAC	1 cut(s)	263
RsaNI	GTAC	1 cut(s)	262
SaqAI	TTAA	1 cut(s)	29
SchI	GAGTC	1 cut(s)	220
ScrFI	CCNGG	3 cut(s)	20, 316, 337
SetI	ASST	8 cut(s)	17, 35, 204, 234, 255, 263, 379, 389
Sse9I	AATT	2 cut(s)	133, 300
SspMI	CTAG	1 cut(s)	65
StyD4I	CCNGG	3 cut(s)	18, 314, 335
TaqI	TCGA	4 cut(s)	61, 126, 304, 341
TasI	AATT	2 cut(s)	133, 300
TfiI	GAWTC	3 cut(s)	69, 195, 345
Tru1I	TTAA	1 cut(s)	29
Tru9I	TTAA	1 cut(s)	29
TscAI	CASTG	1 cut(s)	214
TspDTI	ATGAA	4 cut(s)	17, 126, 145, 155
TspGWI	ACGGA	1 cut(s)	144
TspRI	CASTG	1 cut(s)	214
XapI	RAATTY	1 cut(s)	133
XspI	CTAG	1 cut(s)	65

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