Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0004744

Physical Location & Seq

Genomic Coordinates Reverse (-)

56277829 .. 56281079

Gene Structure 3251 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ58999

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGCAAGTTCACCCAAATGGCATTAGGCATATTAGGGAAGGTGGACATATCAATGAATGGAGAACTCCTGGAAAGAGAACGATTATAATGGTTGGCTCTAATAGACTTCAGGTGGTCATTGCTTTGAGTGGAGGAGAACTTATATACTTTGATGTTGATATGACTGGTCAACTGGTGGAGGTTGAGAAGCATGAATTGTCTGGAGATGTAGCTTGTCTGGACATTGCCCCAGTACCTGAAGGGAGACAAAGATCTCGTTTCCTTGCAGTTGGCTCATATGACAACACGATTTGTATTTTGTCTTTGGATCCTGATGACTGTATGCAGATTCTGAGTGTTCAAAGTGTCTCTTCAATTCCAGAATCTCTCCTCTTTCTTGAGGCTCAGGCATCAGTTAGTGGTGAGGATGGTGCGGATCATCCTGCCAACCTTTTCCTTTATGCCGGTCTACGAACTGGGATTTTGTTCAGAACAGTGGTGGATATGGTGACAGGTCAATTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005689 GO:0005730 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009555 GO:0009791 GO:0009846 GO:0009856 GO:0009892 GO:0009894 GO:0009895 GO:0009908 GO:0009987 GO:0010467 GO:0010605 GO:0016070 GO:0016071 GO:0019222 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0035670 GO:0042176 GO:0042177 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044706 GO:0044877 GO:0046483 GO:0048229 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048481 GO:0048519 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051704 GO:0055046 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0071005 GO:0071011 GO:0071013 GO:0071704 GO:0080090 GO:0090304 GO:0090567 GO:0097159 GO:0099402 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

CPSF_A MMS1_N

Protein Analysis

167

Amino Acids

18.25

Weight (kDa)

4.86

Isoelectric Point (pI)

39.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_RSE1_2nd	PF23726	2 - 166	8.3e-33	RSE1/DDB1/CPSF1 second beta-propeller

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0004744)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G55200 AT3G55200 AT3G55200 AT3G55220
fragaria_vesca	FvH4_1g28630
malus_domestica	MD01G1119800.v1.1 MD07G1189000.v1.1
prunus_persica	Prupe.2G226500_v2.0.a1 Prupe.2G226500_v2.0.a1
pyrus_communis	pycom07g17890
rosa_chinensis	RchiOBHm_Chr1g0365341 RchiOBHm_Chr3g0492631
rosa_laevigata	RLG00000022753 RLG00000027428
rosa_multiflora	Rmu_sc0000831.1_g000021 Rmu_sc0008527.1_g000001 Rmu_sc0010918.1_g000001
rosa_roxburghii	Rroxscaffold_4G00291290 Rroxscaffold_6G00392170
rosa_rugosa	Rorug01G0321300 Rorug03G0255200
rosa_samantha	Rh1AG330200 Rh1BG291700 Rh1CG308300 Rh1DG323400 Rh3AG305400 Rh3BG341900 Rh3CG339300 Rh3DG341200
rosa_wichuraiana	Rw1G029280 Rw3G026890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	86
AccI	GTMKAC	1 cut(s)	448
AciI	CCGC	1 cut(s)	413
AclWI	GGATC	3 cut(s)	302, 315, 423
AcuI	CTGAAG	2 cut(s)	92, 258
AfaI	GTAC	1 cut(s)	234
AgsI	TTSAA	2 cut(s)	341, 354
AjnI	CCWGG	1 cut(s)	67
AluBI	AGCT	1 cut(s)	212
AluI	AGCT	1 cut(s)	212
Alw26I	GTCTC	2 cut(s)	238, 352
AlwI	GGATC	3 cut(s)	302, 315, 423
AlwNI	CAGNNNCTG	2 cut(s)	236, 331
AsuHPI	GGTGA	2 cut(s)	413, 499
BamHI	GGATCC	1 cut(s)	307
BccI	CCATC	1 cut(s)	401
BciT130I	CCWGG	1 cut(s)	69
BcoDI	GTCTC	2 cut(s)	238, 352
BglII	AGATCT	1 cut(s)	251
Bme1390I	CCNGG	1 cut(s)	69
BmiI	GGNNCC	1 cut(s)	309
BmrFI	CCNGG	1 cut(s)	69
BmrI	ACTGGG	2 cut(s)	224, 465
BmsI	GCATC	1 cut(s)	398
BmuI	ACTGGG	2 cut(s)	224, 465
BpmI	CTGGAG	1 cut(s)	222
Bpu10I	CCTNAGC	1 cut(s)	384
BpuEI	CTTGAG	1 cut(s)	398
Bse118I	RCCGGY	1 cut(s)	443
Bse1I	ACTGG	4 cut(s)	169, 177, 230, 460
Bse3DI	GCAATG	2 cut(s)	117, 222
BseBI	CCWGG	1 cut(s)	69
BseGI	GGATG	2 cut(s)	412, 418
BseMI	GCAATG	2 cut(s)	117, 222
BseMII	CTCAG	2 cut(s)	323, 398
BseNI	ACTGG	4 cut(s)	169, 177, 230, 460
BseRI	GAGGAG	2 cut(s)	147, 359
BsiSI	CCGG	1 cut(s)	444
BsmAI	GTCTC	2 cut(s)	238, 352
Bsp143I	GATC	3 cut(s)	251, 307, 415
BspACI	CCGC	1 cut(s)	413
BspCNI	CTCAG	2 cut(s)	324, 397
BspLI	GGNNCC	1 cut(s)	309
BspPI	GGATC	3 cut(s)	302, 315, 423
BsrDI	GCAATG	2 cut(s)	117, 222
BsrFI	RCCGGY	1 cut(s)	443
BsrI	ACTGG	4 cut(s)	169, 177, 230, 460
BssAI	RCCGGY	1 cut(s)	443
BssMI	GATC	3 cut(s)	251, 307, 415
Bst2UI	CCWGG	1 cut(s)	69
Bst4CI	ACNGT	2 cut(s)	320, 475
Bst6I	CTCTTC	1 cut(s)	355
BstDEI	CTNAG	2 cut(s)	332, 384
BstF5I	GGATG	2 cut(s)	412, 418
BstKTI	GATC	3 cut(s)	254, 310, 418
BstMAI	GTCTC	2 cut(s)	238, 352
BstMBI	GATC	3 cut(s)	251, 307, 415
BstNI	CCWGG	1 cut(s)	69
BstSCI	CCNGG	1 cut(s)	67
BstX2I	RGATCY	2 cut(s)	251, 307
BstYI	RGATCY	2 cut(s)	251, 307
BtsCI	GGATG	2 cut(s)	412, 418
BtsIMutI	CAGTG	1 cut(s)	480
CaiI	CAGNNNCTG	2 cut(s)	236, 331
Cfr10I	RCCGGY	1 cut(s)	443
Csp6I	GTAC	1 cut(s)	233
CviAII	CATG	1 cut(s)	191
CviJI	RGCY	4 cut(s)	96, 212, 273, 383
CviKI_1	RGCY	4 cut(s)	96, 212, 273, 383
CviQI	GTAC	1 cut(s)	233
DdeI	CTNAG	2 cut(s)	332, 384
DpnI	GATC	3 cut(s)	253, 309, 417
DpnII	GATC	3 cut(s)	251, 307, 415
Eam1104I	CTCTTC	1 cut(s)	355
EarI	CTCTTC	1 cut(s)	355
Eco57I	CTGAAG	2 cut(s)	92, 258
EcoRII	CCWGG	1 cut(s)	67
FaeI	CATG	1 cut(s)	194
FalI	AAGNNNNNCTT	2 cut(s)	334, 366
FatI	CATG	1 cut(s)	190
FauNDI	CATATG	1 cut(s)	277
FblI	GTMKAC	1 cut(s)	448
FokI	GGATG	2 cut(s)	405, 419
GsuI	CTGGAG	1 cut(s)	222
HapII	CCGG	1 cut(s)	444
Hin1II	CATG	1 cut(s)	194
HincII	GTYRAC	1 cut(s)	170
HindII	GTYRAC	1 cut(s)	170
HinfI	GANTC	2 cut(s)	328, 362
HpaII	CCGG	1 cut(s)	444
HphI	GGTGA	2 cut(s)	413, 499
Hpy166II	GTNNAC	4 cut(s)	10, 44, 170, 449
Hpy188I	TCNGA	2 cut(s)	333, 470
Hpy188III	TCNNGA	5 cut(s)	201, 218, 311, 359, 377
Hpy8I	GTNNAC	4 cut(s)	10, 44, 170, 449
HpyAV	CCTTC	2 cut(s)	32, 233
HpyCH4III	ACNGT	2 cut(s)	320, 475
HpyCH4V	TGCA	3 cut(s)	4, 266, 325
HpyF3I	CTNAG	2 cut(s)	332, 384
Hsp92II	CATG	1 cut(s)	194
Kzo9I	GATC	3 cut(s)	251, 307, 415
LweI	GCATC	1 cut(s)	398
MaeIII	GTNAC	1 cut(s)	487
MalI	GATC	3 cut(s)	253, 309, 417
MboI	GATC	3 cut(s)	251, 307, 415
MboII	GAAGA	1 cut(s)	342
MflI	RGATCY	2 cut(s)	251, 307
MluCI	AATT	3 cut(s)	194, 354, 497
MnlI	CCTC	5 cut(s)	125, 172, 373, 380, 397
MslI	CAYNNNNRTG	2 cut(s)	15, 51
MspI	CCGG	1 cut(s)	444
MspR9I	CCNGG	1 cut(s)	69
MvaI	CCWGG	1 cut(s)	69
NdeI	CATATG	1 cut(s)	277
NdeII	GATC	3 cut(s)	251, 307, 415
NlaIII	CATG	1 cut(s)	194
NlaIV	GGNNCC	1 cut(s)	309
NmuCI	GTSAC	1 cut(s)	487
PfeI	GAWTC	2 cut(s)	328, 362
PfoI	TCCNGGA	1 cut(s)	67
PsiI	TTATAA	1 cut(s)	86
Psp6I	CCWGG	1 cut(s)	67
PspGI	CCWGG	1 cut(s)	67
PspN4I	GGNNCC	1 cut(s)	309
PstNI	CAGNNNCTG	2 cut(s)	236, 331
PsuI	RGATCY	2 cut(s)	251, 307
RsaI	GTAC	1 cut(s)	234
RsaNI	GTAC	1 cut(s)	233
RseI	CAYNNNNRTG	2 cut(s)	15, 51
Sau3AI	GATC	3 cut(s)	251, 307, 415
ScrFI	CCNGG	1 cut(s)	69
SetI	ASST	7 cut(s)	43, 114, 183, 214, 238, 432, 496
SfaNI	GCATC	1 cut(s)	398
SmiMI	CAYNNNNRTG	2 cut(s)	15, 51
SmlI	CTYRAG	1 cut(s)	377
SmoI	CTYRAG	1 cut(s)	377
Sse9I	AATT	3 cut(s)	194, 354, 497
SsiI	CCGC	1 cut(s)	413
StyD4I	CCNGG	1 cut(s)	67
TaaI	ACNGT	2 cut(s)	320, 475
TasI	AATT	3 cut(s)	194, 354, 497
TfiI	GAWTC	2 cut(s)	328, 362
TscAI	CASTG	1 cut(s)	480
TseFI	GTSAC	1 cut(s)	487
Tsp45I	GTSAC	1 cut(s)	487
TspDTI	ATGAA	2 cut(s)	69, 207
TspRI	CASTG	1 cut(s)	480
XmiI	GTMKAC	1 cut(s)	448

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