Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0002476

Physical Location & Seq

Genomic Coordinates Forward (+)

5684711 .. 5685751

Gene Structure 1041 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0072100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1041 bp

ATGGGGGAAGTCGTCAAATCTACTAGGGATGCAAAAGCAGAGTCTGTCGACATTCTAGCAGCAGAGCAAAAGAAGGAGGAGAAGAACAAGGCGAGAGAGGAGAGGAAGAAGGCAGTTGAGGAGAAGAAAAGGAGGCAGAAGGAGAAGGAAGAGAAGCAGGAGAGGGATCGCTGCCTTCAACAAGCGAATGAACTCAGAAGGCTACTTCAAGGAGTTACTTCTAATATGGGTCAACATCAAACAAATTCGCAGACCCAAGCCCCGAATGCTCTTGCCAAAGCTAATGCAGCTCCTGTTCCTGTTGCTTCGGTGAACTCGGTGCCAACTGGTGCTTCTAAGAAGTCTGGTATCAATGGTCATTCGCAATCTCAAACCCCGAGTGCTCCTGTGAAGGCTAATGTAACTCCTGCTCCTGCTCCTGCGGCTTTGGCAAAGGCTGCTCCAATTAGTACTACTGATGCCTCTAAAAGGTCTAATATCACTGGATACTCGCAGTCCCAAAGCTCGATTACTCTTATCAATGGTCATTCGCAGTCTCAGACCCCGAGGGCTCCTGTCAAGGTTAATGTAAATCCTGCTGCTTTGGCCAAGGCAGCACCAATTAGTACCACTGATGTCTCTAGAAAGTCTGATGTCAGTGGCCATTCGCAGTCCCAAGCCCCAAATGCTCCTGTCAAACGTGCTGTAACTCCTGCTCCTGTAACTTTGGCAAAAACAATGCTAACTAGTACTACTGATGCCTCTAAAAATTCAGCTTTGCAGTCTCAGGCGGCGCAGAATGCTCCAGTCAAAGTAGCTCTAACTCCGGCCAAAGTAGCTCTAACTCCTGTTCGTGTTGCTCCTACAAAGTCGCAGAATGCTCCAGTCAAAGTAACTCCAACTCCGGCCAAAGTAGCTCTTACTCCTGTTCGTGTTGCTCCTACAAAGTTGGTGCCAGTTAGTAAGATTGATGCCCCTAAAATGTCTGAAATCAGTCACCATCAACATCAACCGGCTCCTGTAACATTTGTCTCCAGTATTACTGCTAGTACTACATGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003899 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0005773 GO:0005911 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009507 GO:0009536 GO:0009987 GO:0016070 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030054 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 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:0055029 GO:0055044 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05168 ko05169 map00230 map00240 map01100 map03020 map05016 map05168 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3 RNA_pol_Rpb1_4 RNA_pol_Rpb1_5 RNA_pol_Rpb1_6 RNA_pol_Rpb1_7 RNA_pol_Rpb1_R

Protein Analysis

346

Amino Acids

36.25

Weight (kDa)

10.25

Isoelectric Point (pI)

65.93

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002476)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G35800 AT4G35800
fragaria_vesca	FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070 FvH4_1g11070
malus_domestica	MD02G1123200.v1.1 MD02G1123400.v1.1 MD02G1125500.v1.1 MD02G1125800.v1.1 MD15G1237200.v1.1
prunus_persica	Prupe.7G175200_v2.0.a1
pyrus_communis	pycom02g09610 pycom15g21110
rosa_chinensis	RchiOBHm_Chr2g0098321 RchiOBHm_Chr2g0098331
rosa_laevigata	RLG00000016790 RLG00000016791
rosa_multiflora	Rmu_co8358581.1_g000001 Rmu_sc0003434.1_g000008 Rmu_sc0023772.1_g000002 Rmu_sc0042863.1_g000001
rosa_roxburghii	Rroxscaffold_2G00144060 Rroxscaffold_2G00144070
rosa_rugosa	Rorug02G0072000 Rorug02G0072000 Rorug02G0072100
rosa_samantha	Rh2AG119100 Rh2AG119200 Rh2BG122300 Rh2BG122400 Rh2CG123900 Rh2CG124000 Rh2DG123900 Rh2DG124000
rosa_wichuraiana	Rw2G009330 Rw2G009340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	319, 931
AccI	GTMKAC	1 cut(s)	48
AciI	CCGC	2 cut(s)	422, 770
AclWI	GGATC	1 cut(s)	174
AcoI	YGGCCR	4 cut(s)	585, 640, 807, 885
AcsI	RAATTY	2 cut(s)	244, 748
AfaI	GTAC	4 cut(s)	451, 607, 730, 1030
AfiI	CCNNNNNNNGG	1 cut(s)	468
AflIII	ACRYGT	1 cut(s)	1034
AgsI	TTSAA	2 cut(s)	179, 209
AhlI	ACTAGT	1 cut(s)	725
AjuI	GAANNNNNNNTTGG	2 cut(s)	316, 348
AluBI	AGCT	7 cut(s)	281, 290, 504, 755, 797, 818, 896
AluI	AGCT	7 cut(s)	281, 290, 504, 755, 797, 818, 896
Alw21I	GWGCWC	1 cut(s)	385
Alw26I	GTCTC	4 cut(s)	540, 622, 768, 1015
AlwI	GGATC	1 cut(s)	174
AlwNI	CAGNNNCTG	2 cut(s)	44, 293
Ama87I	CYCGRG	2 cut(s)	376, 544
AoxI	GGCC	4 cut(s)	585, 640, 807, 885
ApeKI	GCWGC	6 cut(s)	59, 171, 287, 437, 578, 593
ApoI	RAATTY	2 cut(s)	244, 748
ArsI	GACNNNNNNTTYG	2 cut(s)	26, 58
AspLEI	GCGC	1 cut(s)	775
AsuHPI	GGTGA	2 cut(s)	322, 968
AvaI	CYCGRG	2 cut(s)	376, 544
BalI	TGGCCA	2 cut(s)	587, 642
BanI	GGYRCC	2 cut(s)	319, 931
BanII	GRGCYC	1 cut(s)	553
Bbv12I	GWGCWC	1 cut(s)	385
BbvI	GCAGC	6 cut(s)	71, 158, 299, 424, 565, 605
BccI	CCATC	1 cut(s)	987
BciVI	GTATCC	1 cut(s)	479
BcoDI	GTCTC	4 cut(s)	540, 622, 768, 1015
BcuI	ACTAGT	1 cut(s)	725
BfaI	CTAG	5 cut(s)	24, 56, 621, 726, 1026
BfuI	GTATCC	1 cut(s)	479
BisI	GCNGC	8 cut(s)	60, 172, 288, 423, 438, 579, 594, 771
BlsI	GCNGC	8 cut(s)	61, 173, 289, 424, 439, 580, 595, 772
BmcAI	AGTACT	3 cut(s)	451, 730, 1030
BmeT110I	CYCGRG	2 cut(s)	376, 544
BmiI	GGNNCC	4 cut(s)	321, 552, 933, 996
BmsI	GCATC	4 cut(s)	19, 448, 727, 940
BpmI	CTGGAG	3 cut(s)	768, 846, 997
BsaJI	CCNNGG	2 cut(s)	545, 588
BsaXI	ACNNNNNCTCC	6 cut(s)	394, 424, 679, 709, 865, 895
Bsc4I	CCNNNNNNNGG	1 cut(s)	468
Bse118I	RCCGGY	1 cut(s)	991
Bse1I	ACTGG	6 cut(s)	331, 487, 785, 863, 935, 1014
BseDI	CCNNGG	2 cut(s)	545, 588
BseGI	GGATG	1 cut(s)	34
BseLI	CCNNNNNNNGG	1 cut(s)	468
BseMII	CTCAG	3 cut(s)	208, 551, 779
BseNI	ACTGG	6 cut(s)	331, 487, 785, 863, 935, 1014
BseRI	GAGGAG	3 cut(s)	92, 113, 134
BseXI	GCAGC	6 cut(s)	71, 158, 299, 424, 565, 605
BshFI	GGCC	4 cut(s)	587, 642, 809, 887
BshNI	GGYRCC	2 cut(s)	319, 931
BsiHKAI	GWGCWC	1 cut(s)	385
BsiHKCI	CYCGRG	2 cut(s)	376, 544
BsiSI	CCGG	3 cut(s)	806, 884, 992
BslFI	GGGAC	2 cut(s)	481, 637
BslI	CCNNNNNNNGG	1 cut(s)	468
BsmAI	GTCTC	4 cut(s)	540, 622, 768, 1015
BsmFI	GGGAC	2 cut(s)	481, 637
BsmI	GAATGC	3 cut(s)	271, 784, 862
BsnI	GGCC	4 cut(s)	587, 642, 809, 887
BsoBI	CYCGRG	2 cut(s)	376, 544
Bsp1286I	GDGCHC	2 cut(s)	385, 553
Bsp143I	GATC	1 cut(s)	166
BspACI	CCGC	2 cut(s)	422, 770
BspANI	GGCC	4 cut(s)	587, 642, 809, 887
BspCNI	CTCAG	3 cut(s)	207, 550, 778
BspLI	GGNNCC	4 cut(s)	321, 552, 933, 996
BspPI	GGATC	1 cut(s)	174
BspT107I	GGYRCC	2 cut(s)	319, 931
BsrFI	RCCGGY	1 cut(s)	991
BsrI	ACTGG	6 cut(s)	331, 487, 785, 863, 935, 1014
BssAI	RCCGGY	1 cut(s)	991
BssECI	CCNNGG	2 cut(s)	545, 588
BssMI	GATC	1 cut(s)	166
BssT1I	CCWWGG	1 cut(s)	588
Bst6I	CTCTTC	1 cut(s)	144
BstAPI	GCANNNNNTGC	1 cut(s)	437
BstDEI	CTNAG	4 cut(s)	194, 336, 537, 765
BstENI	CCTNNNNNAGG	1 cut(s)	466
BstF5I	GGATG	1 cut(s)	34
BstHHI	GCGC	1 cut(s)	775
BstKTI	GATC	1 cut(s)	169
BstMAI	GTCTC	4 cut(s)	540, 622, 768, 1015
BstMBI	GATC	1 cut(s)	166
BstNSI	RCATGY	1 cut(s)	1038
BstV1I	GCAGC	6 cut(s)	71, 158, 299, 424, 565, 605
BsuI	GTATCC	1 cut(s)	479
BsuRI	GGCC	4 cut(s)	587, 642, 809, 887
BtsCI	GGATG	1 cut(s)	34
BtsIMutI	CAGTG	3 cut(s)	480, 609, 643
CaiI	CAGNNNCTG	2 cut(s)	44, 293
CfoI	GCGC	1 cut(s)	775
Cfr10I	RCCGGY	1 cut(s)	991
Csp6I	GTAC	4 cut(s)	450, 606, 729, 1029
CviAII	CATG	1 cut(s)	1035
CviQI	GTAC	4 cut(s)	450, 606, 729, 1029
DdeI	CTNAG	4 cut(s)	194, 336, 537, 765
DpnI	GATC	1 cut(s)	168
DpnII	GATC	1 cut(s)	166
EaeI	YGGCCR	4 cut(s)	585, 640, 807, 885
Eam1104I	CTCTTC	1 cut(s)	144
EarI	CTCTTC	1 cut(s)	144
Eco130I	CCWWGG	1 cut(s)	588
Eco24I	GRGCYC	1 cut(s)	553
Eco88I	CYCGRG	2 cut(s)	376, 544
EcoNI	CCTNNNNNAGG	1 cut(s)	466
EcoT14I	CCWWGG	1 cut(s)	588
EcoT38I	GRGCYC	1 cut(s)	553
ErhI	CCWWGG	1 cut(s)	588
FaeI	CATG	1 cut(s)	1038
FaiI	YATR	2 cut(s)	227, 1036
FalI	AAGNNNNNCTT	2 cut(s)	882, 914
FaqI	GGGAC	2 cut(s)	481, 637
FatI	CATG	1 cut(s)	1034
FblI	GTMKAC	1 cut(s)	48
Fnu4HI	GCNGC	8 cut(s)	60, 172, 288, 423, 438, 579, 594, 771
FokI	GGATG	1 cut(s)	41
FriOI	GRGCYC	1 cut(s)	553
Fsp4HI	GCNGC	8 cut(s)	60, 172, 288, 423, 438, 579, 594, 771
FspBI	CTAG	5 cut(s)	24, 56, 621, 726, 1026
GlaI	GCGC	1 cut(s)	774
GluI	GCNGC	8 cut(s)	60, 172, 288, 423, 438, 579, 594, 771
GsuI	CTGGAG	3 cut(s)	768, 846, 997
HaeIII	GGCC	4 cut(s)	587, 642, 809, 887
HapII	CCGG	3 cut(s)	806, 884, 992
HhaI	GCGC	1 cut(s)	775
Hin1II	CATG	1 cut(s)	1038
Hin6I	GCGC	1 cut(s)	773
HinP1I	GCGC	1 cut(s)	773
HincII	GTYRAC	2 cut(s)	49, 233
HindII	GTYRAC	2 cut(s)	49, 233
HinfI	GANTC	1 cut(s)	41
HpaII	CCGG	3 cut(s)	806, 884, 992
HphI	GGTGA	2 cut(s)	322, 968
Hpy166II	GTNNAC	3 cut(s)	49, 233, 313
Hpy188I	TCNGA	4 cut(s)	197, 540, 631, 967
Hpy188III	TCNNGA	1 cut(s)	621
Hpy8I	GTNNAC	3 cut(s)	49, 233, 313
HpyAV	CCTTC	7 cut(s)	67, 103, 133, 139, 185, 192, 385
HpyCH4IV	ACGT	1 cut(s)	679
HpyCH4V	TGCA	3 cut(s)	32, 287, 760
HpyF3I	CTNAG	4 cut(s)	194, 336, 537, 765
HpySE526I	ACGT	1 cut(s)	679
Hsp92II	CATG	1 cut(s)	1038
HspAI	GCGC	1 cut(s)	773
Kzo9I	GATC	1 cut(s)	166
Lsp1109I	GCAGC	6 cut(s)	71, 158, 299, 424, 565, 605
LweI	GCATC	4 cut(s)	19, 448, 727, 940
MaeI	CTAG	5 cut(s)	24, 56, 621, 726, 1026
MaeII	ACGT	1 cut(s)	679
MaeIII	GTNAC	7 cut(s)	214, 400, 685, 700, 871, 974, 1000
MalI	GATC	1 cut(s)	168
MboI	GATC	1 cut(s)	166
MboII	GAAGA	4 cut(s)	94, 118, 136, 161
MhlI	GDGCHC	2 cut(s)	385, 553
MlsI	TGGCCA	2 cut(s)	587, 642
MluCI	AATT	4 cut(s)	244, 444, 600, 748
MluNI	TGGCCA	2 cut(s)	587, 642
MlyI	GAGTC	1 cut(s)	50
MmeI	TCCRAC	1 cut(s)	902
MnlI	CCTC	9 cut(s)	70, 91, 96, 112, 126, 156, 472, 540, 751
Mox20I	TGGCCA	2 cut(s)	587, 642
MscI	TGGCCA	2 cut(s)	587, 642
MseI	TTAA	2 cut(s)	564, 1039
Msp20I	TGGCCA	2 cut(s)	587, 642
MspI	CCGG	3 cut(s)	806, 884, 992
Mva1269I	GAATGC	3 cut(s)	271, 784, 862
NdeII	GATC	1 cut(s)	166
NlaIII	CATG	1 cut(s)	1038
NlaIV	GGNNCC	4 cut(s)	321, 552, 933, 996
NmuCI	GTSAC	1 cut(s)	974
NspI	RCATGY	1 cut(s)	1038
PciI	ACATGT	1 cut(s)	1034
PctI	GAATGC	3 cut(s)	271, 784, 862
PkrI	GCNGC	8 cut(s)	61, 173, 289, 424, 439, 580, 595, 772
PleI	GAGTC	1 cut(s)	49
PpsI	GAGTC	1 cut(s)	49
PscI	ACATGT	1 cut(s)	1034
PspN4I	GGNNCC	4 cut(s)	321, 552, 933, 996
PstNI	CAGNNNCTG	2 cut(s)	44, 293
RsaI	GTAC	4 cut(s)	451, 607, 730, 1030
RsaNI	GTAC	4 cut(s)	450, 606, 729, 1029
SalI	GTCGAC	1 cut(s)	47
SaqAI	TTAA	2 cut(s)	564, 1039
SatI	GCNGC	8 cut(s)	60, 172, 288, 423, 438, 579, 594, 771
Sau3AI	GATC	1 cut(s)	166
ScaI	AGTACT	3 cut(s)	451, 730, 1030
SchI	GAGTC	1 cut(s)	50
SduI	GDGCHC	2 cut(s)	385, 553
SfaNI	GCATC	4 cut(s)	19, 448, 727, 940
SpeI	ACTAGT	1 cut(s)	725
Sse9I	AATT	4 cut(s)	244, 444, 600, 748
SsiI	CCGC	2 cut(s)	422, 770
SspMI	CTAG	5 cut(s)	24, 56, 621, 726, 1026
StyI	CCWWGG	1 cut(s)	588
TaiI	ACGT	1 cut(s)	682
TaqI	TCGA	2 cut(s)	48, 506
TasI	AATT	4 cut(s)	244, 444, 600, 748
TatI	WGTACW	3 cut(s)	449, 728, 1028
TauI	GCSGC	2 cut(s)	425, 773
Tru1I	TTAA	2 cut(s)	564, 1039
Tru9I	TTAA	2 cut(s)	564, 1039
TscAI	CASTG	3 cut(s)	487, 616, 643
TseFI	GTSAC	1 cut(s)	974
TseI	GCWGC	6 cut(s)	59, 171, 287, 437, 578, 593
Tsp45I	GTSAC	1 cut(s)	974
TspDTI	ATGAA	1 cut(s)	204
TspRI	CASTG	3 cut(s)	487, 616, 643
XagI	CCTNNNNNAGG	1 cut(s)	466
XapI	RAATTY	2 cut(s)	244, 748
XbaI	TCTAGA	1 cut(s)	620
XceI	RCATGY	1 cut(s)	1038
XmiI	GTMKAC	1 cut(s)	48
XspI	CTAG	5 cut(s)	24, 56, 621, 726, 1026
ZrmI	AGTACT	3 cut(s)	451, 730, 1030

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