Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0003967

Physical Location & Seq

Genomic Coordinates Reverse (-)

11843349 .. 11847927

Gene Structure 4579 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00009390.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGTTTCATTCACTCTCTTTTCAGTTTTTAGTTGTAATAGAAAAAAGGAAAGAAACTGGAGCTGAAAACAGATTCGATCTGTTTCGATTCGGTGGAGGCGGCGGTGACTATTTGAGTGAGGTTATACGATCAGAGCTATTGTTTTGTACTCTGGACTTTGGCAATGGTGTACCTGTGAAAACTTCGGTGGAGCCTAAAGTATCTGAGGAAGGGCTTCTTGATGCTATTCAGCAGGATTACTTCTCATCTGCCTCCATAGAGAGTTTTGAATTACCTCTTACGGAATCAAAGGGGGTTGGGTCTGAAGGAAAGCCACTAGTCATCATTGATGATTACATAGGCTGCAGTAAGTGTCTCGAGACAAGGAAACAGAGCAAATACGATGGTGAAAATTTGTTTTTGGAGTACTTTATGTTTTTGCTACTACTGCTTATGTTATTGCTGGACGCCATTCTAAGATTTGATACGGCTTTCAGGGGTGAGGATGTTATCATAAGGAAGACCAATCTCATTTCTCCTGAGGAGGCTCAGCGGCAAGCTGCTTTGTGGTACTCGCAATGTGACCATTGTATAAGCTTACGGCATAGTGAAACGGGATTATGGACCAGATTAAGCAACTGCAAACCTACAAGATGTATAGCTGCACCAGCTCCAGGACAGGCGCATCTTTTACTTCCTGCTAATTCTCCTCAATTCACCAGCAGTTCGATAAGTGGTAAATCAGAAAGGTCACATCTTGAGGTGATCCTTAGATTGCAGCAGGACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0005829 GO:0005911 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016441 GO:0016458 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0030054 GO:0030880 GO:0031047 GO:0031050 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043331 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0055029 GO:0055044 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_4 RNA_pol_Rpb2_5 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

255

Amino Acids

28.6

Weight (kDa)

5.25

Isoelectric Point (pI)

55.05

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003967)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0101351 RchiOBHm_Chr4g0387901 RchiOBHm_Chr7g0182321 RchiOBHm_Chr7g0194411
rosa_laevigata	RLG00000004201 RLG00000004202 RLG00000022917
rosa_multiflora	Rmu_sc0002837.1_g000001 Rmu_sc0013203.1_g000002
rosa_roxburghii	Rroxscaffold_1G00009390 Rroxscaffold_1G00019360 Rroxscaffold_1G00050800 Rroxscaffold_2G00084810 Rroxscaffold_2G00130580 Rroxscaffold_2G00141360 Rroxscaffold_3G00222730 Rroxscaffold_3G00261360
rosa_rugosa	Rorug07G0015700
rosa_samantha	Rh2AG146200 Rh2AG296300 Rh2BG151600 Rh2CG152200 Rh2DG151700 Rh4AG019200 Rh5BG284100 Rh5BG303900 Rh6AG185400 Rh6AG328900 Rh7AG049900 Rh7AG142900 Rh7BG143400 Rh7CG147200 Rh7DG144800
rosa_wichuraiana	Rw7G012230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	99, 102, 532
AclWI	GGATC	1 cut(s)	739
AcsI	RAATTY	1 cut(s)	391
AcuI	CTGAAG	1 cut(s)	324
AcyI	GRCGYC	1 cut(s)	447
AfaI	GTAC	4 cut(s)	148, 171, 407, 551
AfiI	CCNNNNNNNGG	1 cut(s)	653
AgsI	TTSAA	1 cut(s)	269
AhlI	ACTAGT	1 cut(s)	316
AjnI	CCWGG	1 cut(s)	652
AluBI	AGCT	6 cut(s)	62, 136, 539, 576, 641, 650
AluI	AGCT	6 cut(s)	62, 136, 539, 576, 641, 650
Alw26I	GTCTC	2 cut(s)	353, 359
AlwI	GGATC	1 cut(s)	739
Ama87I	CYCGRG	1 cut(s)	356
ApeKI	GCWGC	4 cut(s)	342, 539, 641, 757
ApoI	RAATTY	1 cut(s)	391
Asp700I	GAANNNNTTC	1 cut(s)	213
AspLEI	GCGC	1 cut(s)	664
AspS9I	GGNCC	1 cut(s)	603
AsuHPI	GGTGA	5 cut(s)	116, 398, 491, 688, 754
AvaI	CYCGRG	1 cut(s)	356
AvaII	GGWCC	1 cut(s)	603
AxyI	CCTNAGG	1 cut(s)	519
BbsI	GAAGAC	1 cut(s)	506
BbvI	GCAGC	3 cut(s)	329, 526, 628
BccI	CCATC	1 cut(s)	377
BceAI	ACGGC	2 cut(s)	483, 596
BciT130I	CCWGG	1 cut(s)	654
BcoDI	GTCTC	2 cut(s)	353, 359
BcuI	ACTAGT	1 cut(s)	316
BfaI	CTAG	1 cut(s)	317
BfmI	CTRYAG	1 cut(s)	343
BisI	GCNGC	6 cut(s)	100, 343, 533, 540, 642, 758
BlpI	GCTNAGC	1 cut(s)	528
BlsI	GCNGC	6 cut(s)	101, 344, 534, 541, 643, 759
BmcAI	AGTACT	1 cut(s)	407
Bme1390I	CCNGG	1 cut(s)	654
Bme18I	GGWCC	1 cut(s)	603
BmeT110I	CYCGRG	1 cut(s)	356
BmgT120I	GGNCC	1 cut(s)	603
BmiI	GGNNCC	1 cut(s)	192
BmrFI	CCNGG	1 cut(s)	654
BmsI	GCATC	2 cut(s)	211, 673
BpiI	GAAGAC	1 cut(s)	506
BpmI	CTGGAG	2 cut(s)	78, 636
Bpu1102I	GCTNAGC	1 cut(s)	528
BpuEI	CTTGAG	1 cut(s)	758
BsaHI	GRCGYC	1 cut(s)	447
Bsc4I	CCNNNNNNNGG	1 cut(s)	653
Bse1I	ACTGG	1 cut(s)	61
Bse21I	CCTNAGG	1 cut(s)	519
Bse3DI	GCAATG	2 cut(s)	169, 563
BseBI	CCWGG	1 cut(s)	654
BseGI	GGATG	1 cut(s)	490
BseLI	CCNNNNNNNGG	1 cut(s)	653
BseMI	GCAATG	2 cut(s)	169, 563
BseMII	CTCAG	3 cut(s)	195, 510, 542
BseNI	ACTGG	1 cut(s)	61
BseRI	GAGGAG	2 cut(s)	536, 678
BseXI	GCAGC	3 cut(s)	329, 526, 628
BsgI	GTGCAG	1 cut(s)	627
BsiHKCI	CYCGRG	1 cut(s)	356
BslI	CCNNNNNNNGG	1 cut(s)	653
BsmAI	GTCTC	2 cut(s)	353, 359
BsoBI	CYCGRG	1 cut(s)	356
Bsp143I	GATC	3 cut(s)	76, 128, 744
Bsp1720I	GCTNAGC	1 cut(s)	528
BspACI	CCGC	3 cut(s)	99, 102, 532
BspCNI	CTCAG	3 cut(s)	196, 511, 541
BspLI	GGNNCC	1 cut(s)	192
BspMAI	CTGCAG	1 cut(s)	347
BspPI	GGATC	1 cut(s)	739
BsrDI	GCAATG	2 cut(s)	169, 563
BsrI	ACTGG	1 cut(s)	61
BssMI	GATC	3 cut(s)	76, 128, 744
BssNI	GRCGYC	1 cut(s)	447
Bst2UI	CCWGG	1 cut(s)	654
BstACI	GRCGYC	1 cut(s)	447
BstC8I	GCNNGC	1 cut(s)	537
BstDEI	CTNAG	5 cut(s)	204, 455, 519, 528, 749
BstF5I	GGATG	1 cut(s)	490
BstHHI	GCGC	1 cut(s)	664
BstKTI	GATC	3 cut(s)	79, 131, 747
BstMAI	GTCTC	2 cut(s)	353, 359
BstMBI	GATC	3 cut(s)	76, 128, 744
BstMWI	GCNNNNNNNGC	2 cut(s)	427, 647
BstNI	CCWGG	1 cut(s)	654
BstSCI	CCNGG	1 cut(s)	652
BstSFI	CTRYAG	1 cut(s)	343
BstV1I	GCAGC	3 cut(s)	329, 526, 628
BstV2I	GAAGAC	1 cut(s)	506
Bsu36I	CCTNAGG	1 cut(s)	519
BtsCI	GGATG	1 cut(s)	490
Cac8I	GCNNGC	1 cut(s)	537
CfoI	GCGC	1 cut(s)	664
Cfr13I	GGNCC	1 cut(s)	603
CseI	GACGC	1 cut(s)	455
Csp6I	GTAC	4 cut(s)	147, 170, 406, 550
CviQI	GTAC	4 cut(s)	147, 170, 406, 550
DdeI	CTNAG	5 cut(s)	204, 455, 519, 528, 749
DpnI	GATC	3 cut(s)	78, 130, 746
DpnII	GATC	3 cut(s)	76, 128, 744
Eco47I	GGWCC	1 cut(s)	603
Eco57I	CTGAAG	1 cut(s)	324
Eco81I	CCTNAGG	1 cut(s)	519
Eco88I	CYCGRG	1 cut(s)	356
EcoRII	CCWGG	1 cut(s)	652
FalI	AAGNNNNNCTT	2 cut(s)	201, 233
Fnu4HI	GCNGC	6 cut(s)	100, 343, 533, 540, 642, 758
FokI	GGATG	1 cut(s)	497
Fsp4HI	GCNGC	6 cut(s)	100, 343, 533, 540, 642, 758
FspBI	CTAG	1 cut(s)	317
GlaI	GCGC	1 cut(s)	663
GluI	GCNGC	6 cut(s)	100, 343, 533, 540, 642, 758
GsuI	CTGGAG	2 cut(s)	78, 636
HgaI	GACGC	1 cut(s)	455
HhaI	GCGC	1 cut(s)	664
Hin1I	GRCGYC	1 cut(s)	447
Hin6I	GCGC	1 cut(s)	662
HinP1I	GCGC	1 cut(s)	662
HindIII	AAGCTT	1 cut(s)	574
HinfI	GANTC	3 cut(s)	72, 87, 284
HphI	GGTGA	5 cut(s)	116, 398, 491, 688, 754
Hpy166II	GTNNAC	1 cut(s)	170
Hpy188I	TCNGA	4 cut(s)	133, 205, 304, 724
Hpy188III	TCNNGA	6 cut(s)	152, 218, 356, 358, 518, 737
Hpy8I	GTNNAC	1 cut(s)	170
HpyAV	CCTTC	2 cut(s)	203, 299
HpyCH4V	TGCA	4 cut(s)	345, 621, 644, 757
HpyF10VI	GCNNNNNNNGC	2 cut(s)	427, 647
HpyF3I	CTNAG	5 cut(s)	204, 455, 519, 528, 749
Hsp92I	GRCGYC	1 cut(s)	447
HspAI	GCGC	1 cut(s)	662
Kzo9I	GATC	3 cut(s)	76, 128, 744
LmnI	GCTCC	3 cut(s)	59, 190, 655
Lsp1109I	GCAGC	3 cut(s)	329, 526, 628
LweI	GCATC	2 cut(s)	211, 673
MaeI	CTAG	1 cut(s)	317
MaeIII	GTNAC	3 cut(s)	104, 560, 729
MalI	GATC	3 cut(s)	78, 130, 746
MboI	GATC	3 cut(s)	76, 128, 744
MboII	GAAGA	1 cut(s)	511
MluCI	AATT	4 cut(s)	269, 391, 682, 692
MroXI	GAANNNNTTC	1 cut(s)	213
MseI	TTAA	1 cut(s)	611
MspA1I	CMGCKG	1 cut(s)	532
MspR9I	CCNGG	1 cut(s)	654
MvaI	CCWGG	1 cut(s)	654
MwoI	GCNNNNNNNGC	2 cut(s)	427, 647
NdeII	GATC	3 cut(s)	76, 128, 744
NlaIV	GGNNCC	1 cut(s)	192
NmuCI	GTSAC	3 cut(s)	104, 560, 729
PaeR7I	CTCGAG	1 cut(s)	356
PdmI	GAANNNNTTC	1 cut(s)	213
PfeI	GAWTC	3 cut(s)	72, 87, 284
PfoI	TCCNGGA	1 cut(s)	652
PkrI	GCNGC	6 cut(s)	101, 344, 534, 541, 643, 759
Psp6I	CCWGG	1 cut(s)	652
PspGI	CCWGG	1 cut(s)	652
PspN4I	GGNNCC	1 cut(s)	192
PspPI	GGNCC	1 cut(s)	603
PstI	CTGCAG	1 cut(s)	347
RsaI	GTAC	4 cut(s)	148, 171, 407, 551
RsaNI	GTAC	4 cut(s)	147, 170, 406, 550
SaqAI	TTAA	1 cut(s)	611
SatI	GCNGC	6 cut(s)	100, 343, 533, 540, 642, 758
Sau3AI	GATC	3 cut(s)	76, 128, 744
Sau96I	GGNCC	1 cut(s)	603
ScaI	AGTACT	1 cut(s)	407
ScrFI	CCNGG	1 cut(s)	654
SfaNI	GCATC	2 cut(s)	211, 673
SfcI	CTRYAG	1 cut(s)	343
Sfr274I	CTCGAG	1 cut(s)	356
SinI	GGWCC	1 cut(s)	603
SlaI	CTCGAG	1 cut(s)	356
SmlI	CTYRAG	2 cut(s)	356, 737
SmoI	CTYRAG	2 cut(s)	356, 737
SpeI	ACTAGT	1 cut(s)	316
Sse9I	AATT	4 cut(s)	269, 391, 682, 692
SsiI	CCGC	3 cut(s)	99, 102, 532
SspMI	CTAG	1 cut(s)	317
StyD4I	CCNGG	1 cut(s)	652
TaqI	TCGA	4 cut(s)	75, 85, 357, 707
TasI	AATT	4 cut(s)	269, 391, 682, 692
TatI	WGTACW	2 cut(s)	146, 405
TauI	GCSGC	2 cut(s)	102, 535
TfiI	GAWTC	3 cut(s)	72, 87, 284
Tru1I	TTAA	1 cut(s)	611
Tru9I	TTAA	1 cut(s)	611
TseFI	GTSAC	3 cut(s)	104, 560, 729
TseI	GCWGC	4 cut(s)	342, 539, 641, 757
Tsp45I	GTSAC	3 cut(s)	104, 560, 729
TspGWI	ACGGA	1 cut(s)	296
VpaK11BI	GGWCC	1 cut(s)	603
XapI	RAATTY	1 cut(s)	391
XhoI	CTCGAG	1 cut(s)	356
XmnI	GAANNNNTTC	1 cut(s)	213
XspI	CTAG	1 cut(s)	317
ZrmI	AGTACT	1 cut(s)	407

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