Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0004646

Physical Location & Seq

Genomic Coordinates Forward (+)

20604057 .. 20605201

Gene Structure 1145 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00016650.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 543 bp

ATGGGGCGTCGTGATGACAGGGAGAGAGCTTGCTGCTGCGTCCGTGATGAGAGGGAGACAGATTGCTGCGACATCAACTATCAAGAGGGTTTCATGGCACTCAAGGTTCGGGCTTCGCTTTTGGGCGAGAAGCCACGGCAGCCTTCGGAGGAAGCCGATGAGAAGTTGGCTTACCAAACACTTACGGGTCTTAGACAAATTAAAGACAAAGAAGATAGATCAGAGCCGGAGAGCATGAAGGGCATCCCGGCGGAGGAGGATATGACCGGCCTATGCTTCAAGGACGAGGTTTGGCTGCAAACATTCCCTCTGGATCGCAATATGCTGATTTCATCCCAAGAAAAGAGGGATGCTCCTGAAACAATTACTCTTGTGGCGTCTTACTACGTCTTGGATGGCTCGATCTACCAAGCACCGTCGCTTCGCAATGTGTTGGAAGGTAAAATGGGATGTGTAGTGCACCATATATCTAATGCTTTCAAGACAACTGCCTCAAATTTGGAGAAGATTGGATACGTTGGCTCGAAAGTGGACTGCGGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001128 GO:0003674 GO:0003712 GO:0003713 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0016043 GO:0016070 GO:0016591 GO:0016592 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022607 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051123 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065004 GO:0065007 GO:0070013 GO:0070847 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Med6

Protein Analysis

180

Amino Acids

20.32

Weight (kDa)

5.02

Isoelectric Point (pI)

45.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med6	PF04934	108 - 165	3.3e-11	MED6 mediator sub complex component

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: OG0004646)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G21350 AT3G21350
fragaria_vesca	FvH4_6g32730
malus_domestica	MD14G1079700.v1.1
prunus_persica	Prupe.3G054900_v2.0.a1
pyrus_communis	pycom14g06830
rosa_chinensis	RchiOBHm_Chr2g0141751 RchiOBHm_Chr5g0064381
rosa_laevigata	RLG00000019933 RLG00000035719
rosa_roxburghii	Rroxscaffold_1G00016640 Rroxscaffold_1G00016650 Rroxscaffold_2G00103900
rosa_rugosa	Rorug02G0368600 Rorug02G0368800 Rorug05G0364200
rosa_samantha	Rh2AG420200 Rh2BG429600 Rh2BG430900 Rh2CG407400 Rh2DG439500 Rh2DG440600 Rh5AG422400 Rh5BG438300 Rh5CG460800 Rh5CG460900 Rh5CG461000 Rh5DG451200 Rh5DG451300 Rh5DG451400
rosa_wichuraiana	Rw2G034460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	251, 537
AclWI	GGATC	1 cut(s)	321
AcsI	RAATTY	1 cut(s)	496
AcyI	GRCGYC	2 cut(s)	7, 377
AfiI	CCNNNNNNNGG	1 cut(s)	253
AgsI	TTSAA	2 cut(s)	280, 481
AluBI	AGCT	1 cut(s)	29
AluI	AGCT	1 cut(s)	29
Alw21I	GWGCWC	1 cut(s)	462
Alw26I	GTCTC	1 cut(s)	50
Alw44I	GTGCAC	1 cut(s)	458
AlwI	GGATC	1 cut(s)	321
AoxI	GGCC	1 cut(s)	268
ApaLI	GTGCAC	1 cut(s)	458
ApeKI	GCWGC	5 cut(s)	33, 36, 66, 139, 295
ApoI	RAATTY	1 cut(s)	496
AsuC2I	CCSGG	1 cut(s)	248
BaeGI	GKGCMC	1 cut(s)	462
BarI	GAAGNNNNNNTAC	4 cut(s)	155, 187, 497, 529
Bbv12I	GWGCWC	1 cut(s)	462
BbvI	GCAGC	5 cut(s)	20, 23, 53, 151, 282
BccI	CCATC	1 cut(s)	389
BceAI	ACGGC	1 cut(s)	152
BciVI	GTATCC	1 cut(s)	506
BcnI	CCSGG	1 cut(s)	248
BcoDI	GTCTC	1 cut(s)	50
BfuI	GTATCC	1 cut(s)	506
BisI	GCNGC	6 cut(s)	34, 37, 67, 140, 296, 538
BlsI	GCNGC	6 cut(s)	35, 38, 68, 141, 297, 539
Bme1390I	CCNGG	1 cut(s)	248
BmrFI	CCNGG	1 cut(s)	248
BmsI	GCATC	2 cut(s)	252, 340
BplI	GAGNNNNNCTC	2 cut(s)	337, 369
BpuEI	CTTGAG	1 cut(s)	86
BpuMI	CCSGG	1 cut(s)	248
BsaHI	GRCGYC	2 cut(s)	7, 377
BsaJI	CCNNGG	1 cut(s)	134
Bsc4I	CCNNNNNNNGG	1 cut(s)	253
Bse118I	RCCGGY	1 cut(s)	266
Bse3DI	GCAATG	1 cut(s)	433
BseDI	CCNNGG	1 cut(s)	134
BseGI	GGATG	5 cut(s)	243, 332, 355, 400, 455
BseLI	CCNNNNNNNGG	1 cut(s)	253
BseMI	GCAATG	1 cut(s)	433
BseRI	GAGGAG	1 cut(s)	269
BseSI	GKGCMC	1 cut(s)	462
BseXI	GCAGC	5 cut(s)	20, 23, 53, 151, 282
BshFI	GGCC	1 cut(s)	270
BsiHKAI	GWGCWC	1 cut(s)	462
BsiSI	CCGG	3 cut(s)	227, 248, 267
BslI	CCNNNNNNNGG	1 cut(s)	253
BsmAI	GTCTC	1 cut(s)	50
BsnI	GGCC	1 cut(s)	270
Bsp1286I	GDGCHC	1 cut(s)	462
Bsp143I	GATC	3 cut(s)	218, 313, 402
BspACI	CCGC	2 cut(s)	251, 537
BspANI	GGCC	1 cut(s)	270
BspPI	GGATC	1 cut(s)	321
BsrDI	GCAATG	1 cut(s)	433
BsrFI	RCCGGY	1 cut(s)	266
BssAI	RCCGGY	1 cut(s)	266
BssECI	CCNNGG	1 cut(s)	134
BssMI	GATC	3 cut(s)	218, 313, 402
BssNI	GRCGYC	2 cut(s)	7, 377
Bst4CI	ACNGT	1 cut(s)	417
BstACI	GRCGYC	2 cut(s)	7, 377
BstC8I	GCNNGC	1 cut(s)	31
BstDEI	CTNAG	1 cut(s)	191
BstDSI	CCRYGG	1 cut(s)	134
BstF5I	GGATG	5 cut(s)	243, 332, 355, 400, 455
BstKTI	GATC	3 cut(s)	221, 316, 405
BstMAI	GTCTC	1 cut(s)	50
BstMBI	GATC	3 cut(s)	218, 313, 402
BstMWI	GCNNNNNNNGC	2 cut(s)	139, 240
BstSCI	CCNGG	1 cut(s)	246
BstSLI	GKGCMC	1 cut(s)	462
BstV1I	GCAGC	5 cut(s)	20, 23, 53, 151, 282
BsuI	GTATCC	1 cut(s)	506
BsuRI	GGCC	1 cut(s)	270
BtgI	CCRYGG	1 cut(s)	134
BtsCI	GGATG	5 cut(s)	243, 332, 355, 400, 455
Cac8I	GCNNGC	1 cut(s)	31
Cfr10I	RCCGGY	1 cut(s)	266
CseI	GACGC	2 cut(s)	28, 366
CviAII	CATG	2 cut(s)	94, 235
DdeI	CTNAG	1 cut(s)	191
DpnI	GATC	3 cut(s)	220, 315, 404
DpnII	GATC	3 cut(s)	218, 313, 402
EciI	GGCGGA	1 cut(s)	266
FaeI	CATG	2 cut(s)	97, 238
FaiI	YATR	7 cut(s)	95, 236, 263, 274, 323, 465, 467
FatI	CATG	2 cut(s)	93, 234
Fnu4HI	GCNGC	6 cut(s)	34, 37, 67, 140, 296, 538
FokI	GGATG	5 cut(s)	230, 319, 362, 407, 462
Fsp4HI	GCNGC	6 cut(s)	34, 37, 67, 140, 296, 538
GluI	GCNGC	6 cut(s)	34, 37, 67, 140, 296, 538
HaeIII	GGCC	1 cut(s)	270
HapII	CCGG	3 cut(s)	227, 248, 267
HgaI	GACGC	2 cut(s)	28, 366
Hin1I	GRCGYC	2 cut(s)	7, 377
Hin1II	CATG	2 cut(s)	97, 238
HpaII	CCGG	3 cut(s)	227, 248, 267
Hpy166II	GTNNAC	2 cut(s)	460, 532
Hpy188I	TCNGA	2 cut(s)	148, 223
Hpy188III	TCNNGA	5 cut(s)	11, 83, 311, 356, 481
Hpy8I	GTNNAC	2 cut(s)	460, 532
Hpy99I	CGWCG	2 cut(s)	12, 421
HpyAV	CCTTC	3 cut(s)	153, 232, 431
HpyCH4III	ACNGT	1 cut(s)	417
HpyCH4IV	ACGT	2 cut(s)	387, 516
HpyCH4V	TGCA	2 cut(s)	298, 460
HpyF10VI	GCNNNNNNNGC	2 cut(s)	139, 240
HpyF3I	CTNAG	1 cut(s)	191
HpySE526I	ACGT	2 cut(s)	387, 516
Hsp92I	GRCGYC	2 cut(s)	7, 377
Hsp92II	CATG	2 cut(s)	97, 238
Kzo9I	GATC	3 cut(s)	218, 313, 402
LmnI	GCTCC	1 cut(s)	358
LpnPI	CCDG	6 cut(s)	4, 240, 261, 280, 296, 369
Lsp1109I	GCAGC	5 cut(s)	20, 23, 53, 151, 282
LweI	GCATC	2 cut(s)	252, 340
MaeII	ACGT	2 cut(s)	387, 516
MalI	GATC	3 cut(s)	220, 315, 404
MboI	GATC	3 cut(s)	218, 313, 402
MboII	GAAGA	2 cut(s)	224, 517
MhlI	GDGCHC	1 cut(s)	462
MluCI	AATT	3 cut(s)	198, 363, 496
MmeI	TCCRAC	1 cut(s)	414
MnlI	CCTC	9 cut(s)	45, 79, 142, 247, 250, 280, 318, 339, 502
MseI	TTAA	1 cut(s)	201
MspI	CCGG	3 cut(s)	227, 248, 267
MspR9I	CCNGG	1 cut(s)	248
MwoI	GCNNNNNNNGC	2 cut(s)	139, 240
NciI	CCSGG	1 cut(s)	248
NdeII	GATC	3 cut(s)	218, 313, 402
NlaIII	CATG	2 cut(s)	97, 238
PkrI	GCNGC	6 cut(s)	35, 38, 68, 141, 297, 539
SaqAI	TTAA	1 cut(s)	201
SatI	GCNGC	6 cut(s)	34, 37, 67, 140, 296, 538
Sau3AI	GATC	3 cut(s)	218, 313, 402
ScrFI	CCNGG	1 cut(s)	248
SduI	GDGCHC	1 cut(s)	462
SetI	ASST	6 cut(s)	31, 108, 291, 390, 442, 519
SfaNI	GCATC	2 cut(s)	252, 340
SmlI	CTYRAG	1 cut(s)	101
SmoI	CTYRAG	1 cut(s)	101
Sse9I	AATT	3 cut(s)	198, 363, 496
SsiI	CCGC	2 cut(s)	251, 537
StyD4I	CCNGG	1 cut(s)	246
TaaI	ACNGT	1 cut(s)	417
TaiI	ACGT	2 cut(s)	390, 519
TaqI	TCGA	2 cut(s)	401, 524
TasI	AATT	3 cut(s)	198, 363, 496
TauI	GCSGC	1 cut(s)	540
Tru1I	TTAA	1 cut(s)	201
Tru9I	TTAA	1 cut(s)	201
TseI	GCWGC	5 cut(s)	33, 36, 66, 139, 295
TspDTI	ATGAA	3 cut(s)	82, 251, 321
TspGWI	ACGGA	1 cut(s)	32
VneI	GTGCAC	1 cut(s)	458
XapI	RAATTY	1 cut(s)	496

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