Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0009992

Physical Location & Seq

Genomic Coordinates Forward (+)

57052771 .. 57053574

Gene Structure 804 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0406900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGAACCGCAAGAGAAATAAACCCTACTTCTCTTCCCGCCGCGCCCCTGCCTCCGCATCCAAACGGCGTCGTCCCCTCCCCCCTCACGCGGAGGACCCCGAAGAAGCCGAGCTGGACAAGCCCACCTTCAAGCCGCCGCCGCCGCCCGCTCTGGTCGTAATGGGTCTCCCGCCGGACTCCTCCGTCCTCGACCTCAAGTCCCGCTTCGAGATCTACGGCCCCATCTCCCGCATCCGCATCGATCGCGACGCAGTCGGCCACGTGGCATTCCGCACCGCCGACGCCGCCCAAGCCGCCGTGGACGCCGCCCTCGACCCCTCCTTCGGCATTACCCTCCACTCCAAAAAGTTACAGGTACTGTGGGCAACAGACCCACTGGCACAGTGGCGGAAAGGAGTTGCGGTGGATGATGCTAATAGGGATTCGAGTAATGAGACGACGTCGTCTTCCAAGCTTTTGAGGGCTGGGATGCCACTGAGAAGTCATGGCAGAGGTAACAAGCTTGCTTCGGCTATAGTCAACCCAAGAGGAGCTCCCGAGAGTTCTGAATCGTCAGTGTTGGAGGTGCCTTCGAGAGCAAGAGAGATTGTGGCTTATGATGACATTCTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000993 GO:0001098 GO:0001099 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005849 GO:0006139 GO:0006351 GO:0006353 GO:0006366 GO:0006369 GO:0006378 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009909 GO:0009911 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0018130 GO:0019438 GO:0019899 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043175 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043631 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044877 GO:0046483 GO:0048518 GO:0048580 GO:0048582 GO:0048831 GO:0050789 GO:0050793 GO:0051094 GO:0051239 GO:0051240 GO:0065007 GO:0070013 GO:0070063 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:2000026 GO:2000241 GO:2000243

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

CTD_bind

Protein Analysis

203

Amino Acids

22.15

Weight (kDa)

9.73

Isoelectric Point (pI)

59.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	51 - 102	3.7e-06	RNA recognition motif

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: OG0009992)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G04885
fragaria_vesca	FvH4_3g02510 FvH4_3g02510 FvH4_3g02510 FvH4_3g02510
malus_domestica	MD05G1342300.v1.1 MD10G1315900.v1.1
prunus_persica	Prupe.4G024700_v2.0.a1
pyrus_communis	pycom05g31160 pycom10g26810
rosa_chinensis	RchiOBHm_Chr5g0003821
rosa_laevigata	RLG00000031178
rosa_multiflora	Rmu_sc0004212.1_g000001
rosa_roxburghii	Rroxscaffold_1G00072170
rosa_rugosa	Rorug04G0406900 Rorug04G0407000
rosa_samantha	Rh5AG034400 Rh5BG032700 Rh5CG036800 Rh5DG033100
rosa_wichuraiana	Rw5G003150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	182, 442
AatII	GACGTC	1 cut(s)	443
AccB1I	GGYRCC	1 cut(s)	565
AccBSI	CCGCTC	1 cut(s)	149
AccII	CGCG	3 cut(s)	42, 89, 246
AcoI	YGGCCR	1 cut(s)	256
AcvI	CACGTG	1 cut(s)	262
AcyI	GRCGYC	4 cut(s)	67, 282, 303, 440
AfaI	GTAC	1 cut(s)	357
AfiI	CCNNNNNNNGG	2 cut(s)	88, 323
AgsI	TTSAA	1 cut(s)	130
AhdI	GACNNNNNGTC	1 cut(s)	196
AluBI	AGCT	4 cut(s)	112, 454, 502, 533
AluI	AGCT	4 cut(s)	112, 454, 502, 533
Alw21I	GWGCWC	1 cut(s)	535
Alw26I	GTCTC	2 cut(s)	170, 428
AlwNI	CAGNNNCTG	1 cut(s)	358
Ama87I	CYCGRG	1 cut(s)	536
AoxI	GGCC	2 cut(s)	217, 256
ArsI	GACNNNNNNTTYG	2 cut(s)	305, 337
AspLEI	GCGC	1 cut(s)	44
AspS9I	GGNCC	2 cut(s)	94, 218
AvaI	CYCGRG	1 cut(s)	536
AvaII	GGWCC	1 cut(s)	94
BanI	GGYRCC	1 cut(s)	565
BanII	GRGCYC	1 cut(s)	535
BbrPI	CACGTG	1 cut(s)	262
BbsI	GAAGAC	1 cut(s)	438
Bbv12I	GWGCWC	1 cut(s)	535
BccI	CCATC	1 cut(s)	230
BceAI	ACGGC	3 cut(s)	80, 232, 281
BcgI	CGANNNNNNTGC	2 cut(s)	220, 254
BcoDI	GTCTC	2 cut(s)	170, 428
BfmI	CTRYAG	1 cut(s)	513
BglII	AGATCT	1 cut(s)	210
BisI	GCNGC	8 cut(s)	40, 134, 137, 140, 143, 285, 294, 306
BlsI	GCNGC	8 cut(s)	41, 135, 138, 141, 144, 286, 295, 307
Bme18I	GGWCC	1 cut(s)	94
BmeRI	GACNNNNNGTC	1 cut(s)	196
BmeT110I	CYCGRG	1 cut(s)	536
BmgT120I	GGNCC	2 cut(s)	94, 218
BmiI	GGNNCC	3 cut(s)	96, 220, 567
BmsI	GCATC	5 cut(s)	65, 240, 246, 400, 459
BpiI	GAAGAC	1 cut(s)	438
BpuEI	CTTGAG	1 cut(s)	179
Bsa29I	ATCGAT	1 cut(s)	240
BsaAI	YACGTR	1 cut(s)	262
BsaHI	GRCGYC	4 cut(s)	67, 282, 303, 440
BsaI	GGTCTC	1 cut(s)	170
BsaJI	CCNNGG	1 cut(s)	297
BsaXI	ACNNNNNCTCC	2 cut(s)	387, 417
Bsc4I	CCNNNNNNNGG	2 cut(s)	88, 323
Bse1I	ACTGG	1 cut(s)	381
BseCI	ATCGAT	1 cut(s)	240
BseDI	CCNNGG	1 cut(s)	297
BseGI	GGATG	4 cut(s)	56, 231, 412, 474
BseLI	CCNNNNNNNGG	2 cut(s)	88, 323
BseMII	CTCAG	1 cut(s)	467
BseNI	ACTGG	1 cut(s)	381
BseRI	GAGGAG	2 cut(s)	169, 543
BseYI	CCCAGC	1 cut(s)	464
Bsh1236I	CGCG	3 cut(s)	42, 89, 246
Bsh1285I	CGRYCG	1 cut(s)	244
BshFI	GGCC	2 cut(s)	219, 258
BshNI	GGYRCC	1 cut(s)	565
BshVI	ATCGAT	1 cut(s)	240
BsiEI	CGRYCG	1 cut(s)	244
BsiHKAI	GWGCWC	1 cut(s)	535
BsiHKCI	CYCGRG	1 cut(s)	536
BsiSI	CCGG	1 cut(s)	173
BslFI	GGGAC	2 cut(s)	57, 184
BslI	CCNNNNNNNGG	2 cut(s)	88, 323
BsmAI	GTCTC	2 cut(s)	170, 428
BsmBI	CGTCTC	1 cut(s)	428
BsmFI	GGGAC	2 cut(s)	57, 184
BsmI	GAATGC	1 cut(s)	266
BsnI	GGCC	2 cut(s)	219, 258
Bso31I	GGTCTC	1 cut(s)	170
BsoBI	CYCGRG	1 cut(s)	536
Bsp1286I	GDGCHC	1 cut(s)	535
Bsp143I	GATC	2 cut(s)	210, 241
Bsp68I	TCGCGA	1 cut(s)	246
BspANI	GGCC	2 cut(s)	219, 258
BspCNI	CTCAG	1 cut(s)	468
BspDI	ATCGAT	1 cut(s)	240
BspFNI	CGCG	3 cut(s)	42, 89, 246
BspLI	GGNNCC	3 cut(s)	96, 220, 567
BspT107I	GGYRCC	1 cut(s)	565
BspTNI	GGTCTC	1 cut(s)	170
BsrBI	CCGCTC	1 cut(s)	149
BsrI	ACTGG	1 cut(s)	381
BssECI	CCNNGG	1 cut(s)	297
BssMI	GATC	2 cut(s)	210, 241
BssNI	GRCGYC	4 cut(s)	67, 282, 303, 440
Bst4CI	ACNGT	2 cut(s)	360, 384
Bst6I	CTCTTC	1 cut(s)	37
BstACI	GRCGYC	4 cut(s)	67, 282, 303, 440
BstBAI	YACGTR	1 cut(s)	262
BstC8I	GCNNGC	2 cut(s)	147, 504
BstDEI	CTNAG	1 cut(s)	476
BstDSI	CCRYGG	1 cut(s)	297
BstF5I	GGATG	4 cut(s)	56, 231, 412, 474
BstFNI	CGCG	3 cut(s)	42, 89, 246
BstHHI	GCGC	1 cut(s)	44
BstKTI	GATC	2 cut(s)	213, 244
BstMAI	GTCTC	2 cut(s)	170, 428
BstMBI	GATC	2 cut(s)	210, 241
BstMCI	CGRYCG	1 cut(s)	244
BstMWI	GCNNNNNNNGC	8 cut(s)	118, 139, 142, 243, 284, 290, 293, 302
BstSFI	CTRYAG	1 cut(s)	513
BstUI	CGCG	3 cut(s)	42, 89, 246
BstV2I	GAAGAC	1 cut(s)	438
BstX2I	RGATCY	1 cut(s)	210
BstYI	RGATCY	1 cut(s)	210
Bsu15I	ATCGAT	1 cut(s)	240
BsuRI	GGCC	2 cut(s)	219, 258
BsuTUI	ATCGAT	1 cut(s)	240
BtgI	CCRYGG	1 cut(s)	297
BtsCI	GGATG	4 cut(s)	56, 231, 412, 474
BtsIMutI	CAGTG	4 cut(s)	374, 389, 473, 561
BtuMI	TCGCGA	1 cut(s)	246
Cac8I	GCNNGC	2 cut(s)	147, 504
CaiI	CAGNNNCTG	1 cut(s)	358
CfoI	GCGC	1 cut(s)	44
Cfr13I	GGNCC	2 cut(s)	94, 218
ClaI	ATCGAT	1 cut(s)	240
CseI	GACGC	4 cut(s)	56, 257, 290, 311
Csp6I	GTAC	1 cut(s)	356
CviAII	CATG	1 cut(s)	485
CviQI	GTAC	1 cut(s)	356
DdeI	CTNAG	1 cut(s)	476
DpnI	GATC	2 cut(s)	212, 243
DpnII	GATC	2 cut(s)	210, 241
DrdI	GACNNNNNNGTC	2 cut(s)	182, 442
DriI	GACNNNNNGTC	1 cut(s)	196
DseDI	GACNNNNNNGTC	2 cut(s)	182, 442
EaeI	YGGCCR	1 cut(s)	256
Eam1104I	CTCTTC	1 cut(s)	37
Eam1105I	GACNNNNNGTC	1 cut(s)	196
EarI	CTCTTC	1 cut(s)	37
EciI	GGCGGA	1 cut(s)	403
Ecl136II	GAGCTC	1 cut(s)	533
Eco24I	GRGCYC	1 cut(s)	535
Eco31I	GGTCTC	1 cut(s)	170
Eco47I	GGWCC	1 cut(s)	94
Eco53kI	GAGCTC	1 cut(s)	533
Eco72I	CACGTG	1 cut(s)	262
Eco88I	CYCGRG	1 cut(s)	536
EcoICRI	GAGCTC	1 cut(s)	533
EcoO109I	RGGNCCY	1 cut(s)	94
EcoT38I	GRGCYC	1 cut(s)	535
Esp3I	CGTCTC	1 cut(s)	428
FaeI	CATG	1 cut(s)	488
FaiI	YATR	3 cut(s)	486, 515, 597
FalI	AAGNNNNNCTT	4 cut(s)	110, 142, 188, 220
FaqI	GGGAC	2 cut(s)	57, 184
FatI	CATG	1 cut(s)	484
FauI	CCCGC	5 cut(s)	44, 154, 177, 209, 236
Fnu4HI	GCNGC	8 cut(s)	40, 134, 137, 140, 143, 285, 294, 306
FokI	GGATG	4 cut(s)	43, 218, 419, 481
FriOI	GRGCYC	1 cut(s)	535
Fsp4HI	GCNGC	8 cut(s)	40, 134, 137, 140, 143, 285, 294, 306
GlaI	GCGC	1 cut(s)	43
GluI	GCNGC	8 cut(s)	40, 134, 137, 140, 143, 285, 294, 306
GsaI	CCCAGC	1 cut(s)	468
HaeIII	GGCC	2 cut(s)	219, 258
HapII	CCGG	1 cut(s)	173
HgaI	GACGC	4 cut(s)	56, 257, 290, 311
HhaI	GCGC	1 cut(s)	44
Hin1I	GRCGYC	4 cut(s)	67, 282, 303, 440
Hin1II	CATG	1 cut(s)	488
Hin6I	GCGC	1 cut(s)	42
HinP1I	GCGC	1 cut(s)	42
HincII	GTYRAC	1 cut(s)	520
HindII	GTYRAC	1 cut(s)	520
HindIII	AAGCTT	2 cut(s)	452, 500
HinfI	GANTC	3 cut(s)	176, 422, 548
HpaII	CCGG	1 cut(s)	173
Hpy166II	GTNNAC	2 cut(s)	301, 520
Hpy188I	TCNGA	1 cut(s)	547
Hpy188III	TCNNGA	4 cut(s)	208, 245, 536, 573
Hpy8I	GTNNAC	2 cut(s)	301, 520
Hpy99I	CGWCG	5 cut(s)	72, 251, 284, 442, 445
HpyAV	CCTTC	3 cut(s)	136, 331, 579
HpyCH4III	ACNGT	2 cut(s)	360, 384
HpyCH4IV	ACGT	2 cut(s)	261, 440
HpyF10VI	GCNNNNNNNGC	8 cut(s)	118, 139, 142, 243, 284, 290, 293, 302
HpyF3I	CTNAG	1 cut(s)	476
HpySE526I	ACGT	2 cut(s)	261, 440
Hsp92I	GRCGYC	4 cut(s)	67, 282, 303, 440
Hsp92II	CATG	1 cut(s)	488
HspAI	GCGC	1 cut(s)	42
Kzo9I	GATC	2 cut(s)	210, 241
LmnI	GCTCC	2 cut(s)	530, 538
LpnPI	CCDG	7 cut(s)	60, 98, 137, 186, 338, 362, 450
LweI	GCATC	5 cut(s)	65, 240, 246, 400, 459
MaeII	ACGT	2 cut(s)	261, 440
MaeIII	GTNAC	2 cut(s)	348, 494
MalI	GATC	2 cut(s)	212, 243
MbiI	CCGCTC	1 cut(s)	149
MboI	GATC	2 cut(s)	210, 241
MboII	GAAGA	3 cut(s)	24, 113, 438
MflI	RGATCY	1 cut(s)	210
MhlI	GDGCHC	1 cut(s)	535
MlyI	GAGTC	1 cut(s)	170
MmeI	TCCRAC	1 cut(s)	540
MspI	CCGG	1 cut(s)	173
Mva1269I	GAATGC	1 cut(s)	266
MvnI	CGCG	3 cut(s)	42, 89, 246
MwoI	GCNNNNNNNGC	8 cut(s)	118, 139, 142, 243, 284, 290, 293, 302
NdeII	GATC	2 cut(s)	210, 241
NlaIII	CATG	1 cut(s)	488
NlaIV	GGNNCC	3 cut(s)	96, 220, 567
NmeAIII	GCCGAG	1 cut(s)	133
NruI	TCGCGA	1 cut(s)	246
PcsI	WCGNNNNNNNCGW	1 cut(s)	309
PctI	GAATGC	1 cut(s)	266
PfeI	GAWTC	2 cut(s)	422, 548
PflFI	GACNNNGTC	3 cut(s)	251, 439, 442
PkrI	GCNGC	8 cut(s)	41, 135, 138, 141, 144, 286, 295, 307
Ple19I	CGATCG	1 cut(s)	244
PleI	GAGTC	1 cut(s)	170
PmaCI	CACGTG	1 cut(s)	262
PmlI	CACGTG	1 cut(s)	262
PpsI	GAGTC	1 cut(s)	170
Ppu21I	YACGTR	1 cut(s)	262
PpuMI	RGGWCCY	1 cut(s)	94
Psp124BI	GAGCTC	1 cut(s)	535
Psp5II	RGGWCCY	1 cut(s)	94
PspCI	CACGTG	1 cut(s)	262
PspFI	CCCAGC	1 cut(s)	464
PspN4I	GGNNCC	3 cut(s)	96, 220, 567
PspPI	GGNCC	2 cut(s)	94, 218
PspPPI	RGGWCCY	1 cut(s)	94
PstNI	CAGNNNCTG	1 cut(s)	358
PsuI	RGATCY	1 cut(s)	210
PsyI	GACNNNGTC	3 cut(s)	251, 439, 442
PvuI	CGATCG	1 cut(s)	244
RruI	TCGCGA	1 cut(s)	246
RsaI	GTAC	1 cut(s)	357
RsaNI	GTAC	1 cut(s)	356
SacI	GAGCTC	1 cut(s)	535
SatI	GCNGC	8 cut(s)	40, 134, 137, 140, 143, 285, 294, 306
Sau3AI	GATC	2 cut(s)	210, 241
Sau96I	GGNCC	2 cut(s)	94, 218
SchI	GAGTC	1 cut(s)	170
SduI	GDGCHC	1 cut(s)	535
SfaNI	GCATC	5 cut(s)	65, 240, 246, 400, 459
SfcI	CTRYAG	1 cut(s)	513
SinI	GGWCC	1 cut(s)	94
SmlI	CTYRAG	1 cut(s)	194
SmoI	CTYRAG	1 cut(s)	194
SstI	GAGCTC	1 cut(s)	535
TaaI	ACNGT	2 cut(s)	360, 384
TaiI	ACGT	2 cut(s)	264, 443
TaqI	TCGA	6 cut(s)	189, 207, 240, 312, 425, 572
TauI	GCSGC	8 cut(s)	42, 136, 139, 142, 145, 287, 296, 308
TfiI	GAWTC	2 cut(s)	422, 548
TscAI	CASTG	4 cut(s)	381, 389, 480, 561
TspDTI	ATGAA	1 cut(s)	17
TspGWI	ACGGA	1 cut(s)	172
TspRI	CASTG	4 cut(s)	381, 389, 480, 561
Tth111I	GACNNNGTC	3 cut(s)	251, 439, 442
VpaK11BI	GGWCC	1 cut(s)	94
XcmI	CCANNNNNNNNNTGG	1 cut(s)	381
ZraI	GACGTC	1 cut(s)	441

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