Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0011614

Physical Location & Seq

Genomic Coordinates Forward (+)

23584970 .. 23586947

Gene Structure 1978 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG245300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 342 bp

ATGAAAAATAAACACGAGTTTGGCAACAAGATGATTGAAATGGCTACAGCAACCTACCCACCTCCACCACCGTATTATAAGCTATACAAAGATTACTTGCAAGATCCCAAATCAGCTCCTGAGCAGTGGCCACCAATTGAAGGGACATACATTTGCTATGGTGCTAATTACATTATGCTGGGCAAGGATCTTTTGGTGGTTGTTTGGGATTCCGGGAAGCTCTTGGTTCTCTCTTTCTGCAACGAAATGCACAGATTTTTTCCTGTGACACCGGGTCAACTTTCTAATCCTGGAAACTCAAGGAATCAGCTTGCAAGAATGCTAGCAATTGATTCAAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000151 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003684 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006281 GO:0006289 GO:0006508 GO:0006511 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010498 GO:0019538 GO:0019941 GO:0022414 GO:0030163 GO:0031461 GO:0032501 GO:0032502 GO:0032991 GO:0033554 GO:0034641 GO:0043161 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0051603 GO:0051716 GO:0061458 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901564 GO:1901565 GO:1901575 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

CPSF_A MMS1_N

Protein Analysis

113

Amino Acids

12.96

Weight (kDa)

8.53

Isoelectric Point (pI)

54.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_RSE1_1st	PF10433	61 - 112	3.5e-07	RSE1/DDB1/CPSF1 first beta-propeller

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

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Orthologous Genes (Group: OG0011614)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr3g0478521
rosa_laevigata	RLG00000023641
rosa_multiflora	Rmu_sc0001262.1_g000010 Rmu_sc0008105.1_g000006
rosa_roxburghii	Rroxscaffold_6G00403490
rosa_rugosa	Rorug03G0165800 Rorug03G0166100
rosa_samantha	Rh3AG216300 Rh3AG216700 Rh3AG216800 Rh3AG216900 Rh3AG218000 Rh3AG256500 Rh3BG249500 Rh3CG245300 Rh3CG246900 Rh3CG291400 Rh3DG243400 Rh3DG296000 Rh7CG431200

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	78
AclWI	GGATC	2 cut(s)	98, 195
AcoI	YGGCCR	1 cut(s)	128
AfiI	CCNNNNNNNGG	1 cut(s)	140
AgsI	TTSAA	3 cut(s)	38, 140, 336
AhdI	GACNNNNNGTC	1 cut(s)	273
AjnI	CCWGG	1 cut(s)	289
AluBI	AGCT	4 cut(s)	82, 116, 220, 310
AluI	AGCT	4 cut(s)	82, 116, 220, 310
AlwI	GGATC	2 cut(s)	98, 195
AlwNI	CAGNNNCTG	1 cut(s)	119
AoxI	GGCC	1 cut(s)	128
AsuC2I	CCSGG	2 cut(s)	214, 273
AsuNHI	GCTAGC	1 cut(s)	322
BalI	TGGCCA	1 cut(s)	130
BauI	CACGAG	1 cut(s)	14
BciT130I	CCWGG	1 cut(s)	291
BcnI	CCSGG	2 cut(s)	214, 273
BfaI	CTAG	1 cut(s)	323
BfmI	CTRYAG	1 cut(s)	45
Bme1390I	CCNGG	3 cut(s)	214, 273, 291
BmeRI	GACNNNNNGTC	1 cut(s)	273
BmrFI	CCNGG	3 cut(s)	214, 273, 291
BmtI	GCTAGC	1 cut(s)	326
Bpu10I	CCTNAGC	1 cut(s)	120
BpuEI	CTTGAG	1 cut(s)	283
BpuMI	CCSGG	2 cut(s)	214, 273
Bsc4I	CCNNNNNNNGG	1 cut(s)	140
BseBI	CCWGG	1 cut(s)	291
BseLI	CCNNNNNNNGG	1 cut(s)	140
BseMII	CTCAG	1 cut(s)	111
BseYI	CCCAGC	1 cut(s)	178
BshFI	GGCC	1 cut(s)	130
BsiSI	CCGG	2 cut(s)	213, 272
BslFI	GGGAC	1 cut(s)	157
BslI	CCNNNNNNNGG	1 cut(s)	140
BsmFI	GGGAC	1 cut(s)	157
BsmI	GAATGC	1 cut(s)	324
BsnI	GGCC	1 cut(s)	130
Bsp143I	GATC	2 cut(s)	103, 187
BspANI	GGCC	1 cut(s)	130
BspCNI	CTCAG	1 cut(s)	112
BspOI	GCTAGC	1 cut(s)	326
BspPI	GGATC	2 cut(s)	98, 195
BssMI	GATC	2 cut(s)	103, 187
BssSI	CACGAG	1 cut(s)	14
Bst2BI	CACGAG	1 cut(s)	14
Bst2UI	CCWGG	1 cut(s)	291
Bst4CI	ACNGT	1 cut(s)	72
BstC8I	GCNNGC	2 cut(s)	312, 324
BstDEI	CTNAG	1 cut(s)	120
BstKTI	GATC	2 cut(s)	106, 190
BstMBI	GATC	2 cut(s)	103, 187
BstNI	CCWGG	1 cut(s)	291
BstSCI	CCNGG	3 cut(s)	212, 271, 289
BstSFI	CTRYAG	1 cut(s)	45
BstX2I	RGATCY	2 cut(s)	103, 187
BstYI	RGATCY	2 cut(s)	103, 187
BsuRI	GGCC	1 cut(s)	130
BtsI	GCAGTG	1 cut(s)	131
BtsIMutI	CAGTG	1 cut(s)	131
Cac8I	GCNNGC	2 cut(s)	312, 324
CaiI	CAGNNNCTG	1 cut(s)	119
CviJI	RGCY	6 cut(s)	44, 82, 116, 130, 220, 310
CviKI_1	RGCY	6 cut(s)	44, 82, 116, 130, 220, 310
DdeI	CTNAG	1 cut(s)	120
DpnI	GATC	2 cut(s)	105, 189
DpnII	GATC	2 cut(s)	103, 187
DriI	GACNNNNNGTC	1 cut(s)	273
EaeI	YGGCCR	1 cut(s)	128
Eam1105I	GACNNNNNGTC	1 cut(s)	273
EcoRII	CCWGG	1 cut(s)	289
FaiI	YATR	5 cut(s)	78, 85, 148, 159, 176
FaqI	GGGAC	1 cut(s)	157
FspBI	CTAG	1 cut(s)	323
GsaI	CCCAGC	1 cut(s)	182
HaeIII	GGCC	1 cut(s)	130
HapII	CCGG	2 cut(s)	213, 272
HincII	GTYRAC	1 cut(s)	278
HindII	GTYRAC	1 cut(s)	278
HinfI	GANTC	3 cut(s)	209, 304, 332
HpaII	CCGG	2 cut(s)	213, 272
Hpy166II	GTNNAC	1 cut(s)	278
Hpy188III	TCNNGA	1 cut(s)	119
Hpy8I	GTNNAC	1 cut(s)	278
HpyAV	CCTTC	1 cut(s)	134
HpyCH4III	ACNGT	1 cut(s)	72
HpyCH4V	TGCA	4 cut(s)	100, 240, 250, 314
HpyF3I	CTNAG	1 cut(s)	120
Kzo9I	GATC	2 cut(s)	103, 187
LmnI	GCTCC	1 cut(s)	121
LpnPI	CCDG	7 cut(s)	132, 164, 226, 276, 276, 285, 303
MaeI	CTAG	1 cut(s)	323
MaeIII	GTNAC	1 cut(s)	265
MalI	GATC	2 cut(s)	105, 189
MboI	GATC	2 cut(s)	103, 187
MfeI	CAATTG	2 cut(s)	135, 327
MflI	RGATCY	2 cut(s)	103, 187
MlsI	TGGCCA	1 cut(s)	130
MluCI	AATT	3 cut(s)	135, 166, 327
MluNI	TGGCCA	1 cut(s)	130
MnlI	CCTC	1 cut(s)	72
Mox20I	TGGCCA	1 cut(s)	130
MscI	TGGCCA	1 cut(s)	130
Msp20I	TGGCCA	1 cut(s)	130
MspI	CCGG	2 cut(s)	213, 272
MspR9I	CCNGG	3 cut(s)	214, 273, 291
MunI	CAATTG	2 cut(s)	135, 327
Mva1269I	GAATGC	1 cut(s)	324
MvaI	CCWGG	1 cut(s)	291
NciI	CCSGG	2 cut(s)	214, 273
NdeII	GATC	2 cut(s)	103, 187
NheI	GCTAGC	1 cut(s)	322
NmuCI	GTSAC	1 cut(s)	265
PctI	GAATGC	1 cut(s)	324
PfeI	GAWTC	3 cut(s)	209, 304, 332
PfoI	TCCNGGA	2 cut(s)	212, 289
PsiI	TTATAA	1 cut(s)	78
Psp6I	CCWGG	1 cut(s)	289
PspFI	CCCAGC	1 cut(s)	178
PspGI	CCWGG	1 cut(s)	289
PstNI	CAGNNNCTG	1 cut(s)	119
PsuI	RGATCY	2 cut(s)	103, 187
Sau3AI	GATC	2 cut(s)	103, 187
ScrFI	CCNGG	3 cut(s)	214, 273, 291
SetI	ASST	7 cut(s)	56, 64, 84, 118, 222, 312, 341
SfcI	CTRYAG	1 cut(s)	45
SmlI	CTYRAG	1 cut(s)	298
SmoI	CTYRAG	1 cut(s)	298
Sse9I	AATT	3 cut(s)	135, 166, 327
SspMI	CTAG	1 cut(s)	323
StyD4I	CCNGG	3 cut(s)	212, 271, 289
TaaI	ACNGT	1 cut(s)	72
TasI	AATT	3 cut(s)	135, 166, 327
TfiI	GAWTC	3 cut(s)	209, 304, 332
TscAI	CASTG	1 cut(s)	131
TseFI	GTSAC	1 cut(s)	265
Tsp45I	GTSAC	1 cut(s)	265
TspDTI	ATGAA	1 cut(s)	17
TspRI	CASTG	1 cut(s)	131
XspI	CTAG	1 cut(s)	323

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