Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0008163

Physical Location & Seq

Genomic Coordinates Forward (+)

6544656 .. 6549438

Gene Structure 4783 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00285110.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGGTTCTGTTGTTGTTGAAGATTAGAGGGATTGAGCTGGGTCGGGGTCTGCGGACAAAAGTAAAACAGATGGCTGCTTTCGCTCTTAGTTCCATTCAATGTGATGATAGTGGAGATCTTTTGGATAAAGTACGGTGGTACAATCGATACGATGAGCTTAATTCAAGGAGGATTTACTTTGGAAGCACTACATACGAGTCAAGTTGCCGAGCGGTTAGGTTATCCTGTGATATTTTGGTTGAGAGACTAGCTCCTCTTAAGCAAATATTGCAGGAGCAAATGGGTTCTATTAAATTGGGAGAAGTTGATGTCCCGGTGTCCAAAGCCATTGTTGGAGTTGGATTGCAGCTTGGATGGAGTTGGTTCCCGTGTTGGAGAAGAAGAGATGAACAAGCAGATGAAGATAGAAAAGCAAAGGAGAAAGCAGCTGCATTGGTTGAACAGATTGCTACCACTCAACAAAGCAAGAAGGCTACAAAGGTTTCCAAAGTTTCAAAGGCTAGTGATACTTCAAAAAGTTCAAAGGCTGGAAACAACAAAAAGAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0004029 GO:0004031 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006066 GO:0006082 GO:0006629 GO:0006714 GO:0006720 GO:0006721 GO:0006790 GO:0006807 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0009058 GO:0009687 GO:0009688 GO:0009850 GO:0009851 GO:0009987 GO:0010293 GO:0010817 GO:0016053 GO:0016106 GO:0016114 GO:0016143 GO:0016491 GO:0016620 GO:0016623 GO:0016903 GO:0018479 GO:0018488 GO:0019748 GO:0019752 GO:0019757 GO:0019760 GO:0019899 GO:0031625 GO:0032787 GO:0036094 GO:0042445 GO:0042446 GO:0043167 GO:0043168 GO:0043288 GO:0043289 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044283 GO:0044389 GO:0044424 GO:0044444 GO:0044464 GO:0046165 GO:0046394 GO:0048037 GO:0050302 GO:0050660 GO:0050662 GO:0055114 GO:0065007 GO:0065008 GO:0071704 GO:0072330 GO:0097159 GO:1901135 GO:1901265 GO:1901363 GO:1901564 GO:1901576 GO:1901615 GO:1901617 GO:1901657 GO:1902644 GO:1902645

KEGG Pathways

Metabolic & Signaling

ko00380 ko00906 ko01100 ko01110 map00380 map00906 map01100 map01110

Pfam Domains

Protein Families

Ald_Xan_dh_C Ald_Xan_dh_C2 CO_deh_flav_C FAD_binding_5 Fer2 Fer2_2

Protein Analysis

182

Amino Acids

20.43

Weight (kDa)

9.74

Isoelectric Point (pI)

51.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MoCoBD_2	PF20256	6 - 102	1.8e-07	Molybdopterin cofactor-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0008163)

Species	Orthologous Gene IDs
pyrus_communis	pycom11g15310 pycom11g15370
rosa_laevigata	RLG00000006965
rosa_multiflora	Rmu_co8253563.1_g000001 Rmu_sc0003371.1_g000003 Rmu_sc0013146.1_g000005 Rmu_sc0013284.1_g000001 Rmu_sc0021708.1_g000005
rosa_roxburghii	Rroxscaffold_1G00027810 Rroxscaffold_1G00042300 Rroxscaffold_1G00042310 Rroxscaffold_3G00237790 Rroxscaffold_3G00237800 Rroxscaffold_4G00285110 Rroxscaffold_5G00345700 Rroxscaffold_5G00345710 Rroxscaffold_5G00352780 Rroxscaffold_7G00192560 Rroxscaffold_7G00204520
rosa_rugosa	Rorug05G0196200
rosa_samantha	Rh6BG433000 Rh6CG482800 Rh7AG241200 Rh7DG247200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	212
AciI	CCGC	2 cut(s)	52, 212
AfaI	GTAC	2 cut(s)	132, 140
AflII	CTTAAG	1 cut(s)	257
AgsI	TTSAA	7 cut(s)	19, 98, 165, 440, 495, 513, 522
AluBI	AGCT	5 cut(s)	37, 157, 251, 349, 428
AluI	AGCT	5 cut(s)	37, 157, 251, 349, 428
Alw26I	GTCTC	1 cut(s)	238
ApeKI	GCWGC	4 cut(s)	74, 346, 425, 428
AsuC2I	CCSGG	1 cut(s)	314
BbvI	GCAGC	4 cut(s)	61, 358, 415, 437
BccI	CCATC	2 cut(s)	64, 348
BcnI	CCSGG	1 cut(s)	314
BcoDI	GTCTC	1 cut(s)	238
BfaI	CTAG	2 cut(s)	248, 501
BfrI	CTTAAG	1 cut(s)	257
BglII	AGATCT	1 cut(s)	115
BisI	GCNGC	4 cut(s)	75, 347, 426, 429
BlsI	GCNGC	4 cut(s)	76, 348, 427, 430
Bme1390I	CCNGG	1 cut(s)	314
BmiI	GGNNCC	1 cut(s)	365
BmrFI	CCNGG	1 cut(s)	314
BplI	GAGNNNNNCTC	2 cut(s)	235, 267
BpuMI	CCSGG	1 cut(s)	314
Bsa29I	ATCGAT	1 cut(s)	145
BseCI	ATCGAT	1 cut(s)	145
BseGI	GGATG	1 cut(s)	359
BseRI	GAGGAG	1 cut(s)	243
BseXI	GCAGC	4 cut(s)	61, 358, 415, 437
BseYI	CCCAGC	1 cut(s)	37
BshVI	ATCGAT	1 cut(s)	145
BsiSI	CCGG	1 cut(s)	314
BslFI	GGGAC	1 cut(s)	296
BsmAI	GTCTC	1 cut(s)	238
BsmFI	GGGAC	1 cut(s)	296
Bsp143I	GATC	1 cut(s)	115
BspACI	CCGC	2 cut(s)	52, 212
BspDI	ATCGAT	1 cut(s)	145
BspLI	GGNNCC	1 cut(s)	365
BspTI	CTTAAG	1 cut(s)	257
BsrBI	CCGCTC	1 cut(s)	212
BssMI	GATC	1 cut(s)	115
Bst4CI	ACNGT	1 cut(s)	135
Bst6I	CTCTTC	1 cut(s)	376
BstAFI	CTTAAG	1 cut(s)	257
BstAPI	GCANNNNNTGC	1 cut(s)	268
BstDEI	CTNAG	1 cut(s)	86
BstF5I	GGATG	1 cut(s)	359
BstKTI	GATC	1 cut(s)	118
BstMAI	GTCTC	1 cut(s)	238
BstMBI	GATC	1 cut(s)	115
BstMWI	GCNNNNNNNGC	2 cut(s)	80, 268
BstSCI	CCNGG	1 cut(s)	312
BstV1I	GCAGC	4 cut(s)	61, 358, 415, 437
BstX2I	RGATCY	1 cut(s)	115
BstYI	RGATCY	1 cut(s)	115
Bsu15I	ATCGAT	1 cut(s)	145
BsuTUI	ATCGAT	1 cut(s)	145
BtsCI	GGATG	1 cut(s)	359
ClaI	ATCGAT	1 cut(s)	145
Csp6I	GTAC	2 cut(s)	131, 139
CviQI	GTAC	2 cut(s)	131, 139
DdeI	CTNAG	1 cut(s)	86
DpnI	GATC	1 cut(s)	117
DpnII	GATC	1 cut(s)	115
Eam1104I	CTCTTC	1 cut(s)	376
EarI	CTCTTC	1 cut(s)	376
FaiI	YATR	1 cut(s)	193
FaqI	GGGAC	1 cut(s)	296
Fnu4HI	GCNGC	4 cut(s)	75, 347, 426, 429
FokI	GGATG	1 cut(s)	366
Fsp4HI	GCNGC	4 cut(s)	75, 347, 426, 429
FspBI	CTAG	2 cut(s)	248, 501
GluI	GCNGC	4 cut(s)	75, 347, 426, 429
GsaI	CCCAGC	1 cut(s)	41
HapII	CCGG	1 cut(s)	314
HinfI	GANTC	1 cut(s)	197
HpaII	CCGG	1 cut(s)	314
HpyAV	CCTTC	1 cut(s)	463
HpyCH4III	ACNGT	1 cut(s)	135
HpyCH4V	TGCA	3 cut(s)	271, 346, 431
HpyF10VI	GCNNNNNNNGC	2 cut(s)	80, 268
HpyF3I	CTNAG	1 cut(s)	86
Kzo9I	GATC	1 cut(s)	115
LmnI	GCTCC	2 cut(s)	256, 274
LpnPI	CCDG	5 cut(s)	23, 238, 257, 327, 513
Lsp1109I	GCAGC	4 cut(s)	61, 358, 415, 437
MaeI	CTAG	2 cut(s)	248, 501
MalI	GATC	1 cut(s)	117
MbiI	CCGCTC	1 cut(s)	212
MboI	GATC	1 cut(s)	115
MboII	GAAGA	4 cut(s)	31, 390, 393, 413
MflI	RGATCY	1 cut(s)	115
MluCI	AATT	2 cut(s)	160, 293
MlyI	GAGTC	1 cut(s)	206
MmeI	TCCRAC	3 cut(s)	313, 319, 353
MnlI	CCTC	3 cut(s)	20, 162, 264
MseI	TTAA	3 cut(s)	159, 258, 291
MspA1I	CMGCKG	1 cut(s)	428
MspCI	CTTAAG	1 cut(s)	257
MspI	CCGG	1 cut(s)	314
MspR9I	CCNGG	1 cut(s)	314
MwoI	GCNNNNNNNGC	2 cut(s)	80, 268
NciI	CCSGG	1 cut(s)	314
NdeII	GATC	1 cut(s)	115
NlaIV	GGNNCC	1 cut(s)	365
NmeAIII	GCCGAG	1 cut(s)	233
PkrI	GCNGC	4 cut(s)	76, 348, 427, 430
PleI	GAGTC	1 cut(s)	205
PpsI	GAGTC	1 cut(s)	205
PspFI	CCCAGC	1 cut(s)	37
PspN4I	GGNNCC	1 cut(s)	365
PsuI	RGATCY	1 cut(s)	115
PvuII	CAGCTG	1 cut(s)	428
RsaI	GTAC	2 cut(s)	132, 140
RsaNI	GTAC	2 cut(s)	131, 139
SaqAI	TTAA	3 cut(s)	159, 258, 291
SatI	GCNGC	4 cut(s)	75, 347, 426, 429
Sau3AI	GATC	1 cut(s)	115
SchI	GAGTC	1 cut(s)	206
ScrFI	CCNGG	1 cut(s)	314
SetI	ASST	7 cut(s)	39, 159, 221, 253, 351, 430, 483
SmlI	CTYRAG	1 cut(s)	257
SmoI	CTYRAG	1 cut(s)	257
Sse9I	AATT	2 cut(s)	160, 293
SsiI	CCGC	2 cut(s)	52, 212
SspI	AATATT	1 cut(s)	267
SspMI	CTAG	2 cut(s)	248, 501
StyD4I	CCNGG	1 cut(s)	312
TaaI	ACNGT	1 cut(s)	135
TaqI	TCGA	1 cut(s)	145
TasI	AATT	2 cut(s)	160, 293
Tru1I	TTAA	3 cut(s)	159, 258, 291
Tru9I	TTAA	3 cut(s)	159, 258, 291
TseI	GCWGC	4 cut(s)	74, 346, 425, 428
TspDTI	ATGAA	2 cut(s)	402, 414
Vha464I	CTTAAG	1 cut(s)	257
XspI	CTAG	2 cut(s)	248, 501

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