Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0008472

Physical Location & Seq

Genomic Coordinates Reverse (-)

13878737 .. 13880768

Gene Structure 2032 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG153400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 813 bp

ATGACTACCTCTACGGCTTCGCTGGTTCTTCCTTCCCTGACCCCCAAAACACTAGCGCTCTACACCCCCAAACCCACTTCGCTCTCGCTCTTCTCTCTCTCCTTCTCGTCCCTAAAACCCATTTCGATTTCGGCCTCATTTCTCAACTCCGGCAGGGGGTTTCAGTCGTCTCGGTCGGTCGTGCGACGCGTCGCTGTTTCGGACTTCGAGCAGGATGAGGAGGTTCTCAGCGACGACGGCGGCGAGCCCAATTTCTCGCCTGACCTCAAGCTCTTCGTCGGAAACCTTCCCTTCACCGTCGACAGTGCTCAGCTAGCTGAGCTCTTCGAAGGTGCTGGAAATGTTGAGATGGTCGAGGTGATATATGACAAGACGACTGGGAGAAGCAGGGGATTTGGGTTTGTGACCATGTCGAGTGCTCAGGAAGTTGAAGCAGCTGCTCGACAGTTCAATGGCTATGAACTTGATGGAAGGGCATTGAGGGTAAACTATGGACCTCCCCCACCTAGGTCTGAGGATTCTTTCAGAGGTGCCAGAGGACCCCCCAGAGGTGGTGGAGGTTATGGTGACTCTTCCAACCGCCTGTATGTGGGTAACCTTGCATGGGGTGTTGACAATTTGGCACTTGAGAACTTGTTTAATGAGCAAGGAAAGGTTTTGGAGGCCAAGGTAGTTTTTGACAGGGACAGTGGCCGGTCGAGGGGTTTTGGTTTTGTGACATATGGTTCCGCTGAAGAAATGAACAGTGCCATTGAGTCTTTGGATGGCGTTGACTTGGGTGGAAGATCTATTCGCAATATTCAATGGAGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0002376 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0006952 GO:0006955 GO:0008150 GO:0008187 GO:0008266 GO:0009266 GO:0009409 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009628 GO:0009631 GO:0009719 GO:0009725 GO:0009737 GO:0009892 GO:0009894 GO:0009895 GO:0009941 GO:0010033 GO:0010319 GO:0010468 GO:0010605 GO:0010608 GO:0016020 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031329 GO:0031330 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0033993 GO:0034357 GO:0042221 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043487 GO:0043489 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0045087 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0055035 GO:0060255 GO:0065007 GO:0065008 GO:0080090 GO:0097159 GO:0097305 GO:1901363 GO:1901700 GO:1902369

KEGG Pathways

Metabolic & Signaling

ko05130 map05130

Pfam Domains

Protein Families

RRM_1

Protein Analysis

270

Amino Acids

29.08

Weight (kDa)

4.87

Isoelectric Point (pI)

40.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	91 - 161	4e-19	RNA recognition motif
RRM_1	PF00076	195 - 265	3.9e-18	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: OG0008472)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37220 AT3G53460 AT3G53460 AT3G53460 AT3G53460
fragaria_vesca	FvH4_6g16030
malus_domestica	MD04G1096600.v1.1 MD12G1117600.v1.1
prunus_persica	Prupe.6G235900_v2.0.a1
pyrus_communis	pycom12g11630
rosa_chinensis	RchiOBHm_Chr3g0469771
rosa_laevigata	RLG00000004588 RLG00000024322
rosa_multiflora	Rmu_sc0004112.1_g000018 Rmu_sc0010644.1_g000006
rosa_roxburghii	Rroxscaffold_5G00378910 Rroxscaffold_6G00411500
rosa_rugosa	Rorug03G0104300
rosa_samantha	Rh3AG153400 Rh3BG177500 Rh3CG168300 Rh3DG198100
rosa_wichuraiana	Rw3G014460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	530
AccI	GTMKAC	1 cut(s)	300
AccII	CGCG	1 cut(s)	189
AciI	CCGC	3 cut(s)	240, 580, 729
AcoI	YGGCCR	1 cut(s)	691
AcuI	CTGAAG	1 cut(s)	753
AfeI	AGCGCT	1 cut(s)	57
AfiI	CCNNNNNNNGG	7 cut(s)	156, 507, 548, 551, 589, 604, 700
AflIII	ACRYGT	1 cut(s)	187
AgsI	TTSAA	3 cut(s)	431, 451, 803
AluBI	AGCT	5 cut(s)	271, 313, 317, 322, 437
AluI	AGCT	5 cut(s)	271, 313, 317, 322, 437
Alw21I	GWGCWC	3 cut(s)	310, 324, 421
Alw26I	GTCTC	1 cut(s)	174
Aor51HI	AGCGCT	1 cut(s)	57
AoxI	GGCC	3 cut(s)	132, 663, 691
ApeKI	GCWGC	2 cut(s)	434, 437
AspA2I	CCTAGG	1 cut(s)	506
AspLEI	GCGC	1 cut(s)	58
AspS9I	GGNCC	2 cut(s)	494, 539
AsuHPI	GGTGA	3 cut(s)	286, 370, 578
AsuII	TTCGAA	1 cut(s)	327
AsuNHI	GCTAGC	1 cut(s)	313
AvaII	GGWCC	2 cut(s)	494, 539
AvrII	CCTAGG	1 cut(s)	506
BanI	GGYRCC	1 cut(s)	530
BanII	GRGCYC	2 cut(s)	249, 324
Bbv12I	GWGCWC	3 cut(s)	310, 324, 421
BbvI	GCAGC	2 cut(s)	424, 446
BccI	CCATC	3 cut(s)	343, 461, 758
BceAI	ACGGC	2 cut(s)	30, 253
BcoDI	GTCTC	1 cut(s)	174
BfaI	CTAG	3 cut(s)	53, 314, 507
BfoI	RGCGCY	1 cut(s)	59
BglII	AGATCT	1 cut(s)	785
BisI	GCNGC	3 cut(s)	241, 435, 438
BlnI	CCTAGG	1 cut(s)	506
BlpI	GCTNAGC	2 cut(s)	309, 318
BlsI	GCNGC	3 cut(s)	242, 436, 439
Bme18I	GGWCC	2 cut(s)	494, 539
BmgT120I	GGNCC	2 cut(s)	494, 539
BmiI	GGNNCC	3 cut(s)	532, 541, 727
BmrI	ACTGGG	1 cut(s)	387
BmtI	GCTAGC	1 cut(s)	317
BmuI	ACTGGG	1 cut(s)	387
Bpu10I	CCTNAGC	1 cut(s)	420
Bpu1102I	GCTNAGC	2 cut(s)	309, 318
Bpu14I	TTCGAA	1 cut(s)	327
BpuEI	CTTGAG	2 cut(s)	251, 647
BsaJI	CCNNGG	2 cut(s)	506, 666
Bsc4I	CCNNNNNNNGG	7 cut(s)	156, 507, 548, 551, 589, 604, 700
Bse118I	RCCGGY	1 cut(s)	693
Bse1I	ACTGG	1 cut(s)	382
BseDI	CCNNGG	2 cut(s)	506, 666
BseGI	GGATG	2 cut(s)	220, 769
BseLI	CCNNNNNNNGG	7 cut(s)	156, 507, 548, 551, 589, 604, 700
BseMII	CTCAG	5 cut(s)	241, 309, 323, 434, 504
BseNI	ACTGG	1 cut(s)	382
BseRI	GAGGAG	1 cut(s)	233
BseXI	GCAGC	2 cut(s)	424, 446
Bsh1236I	CGCG	1 cut(s)	189
Bsh1285I	CGRYCG	3 cut(s)	176, 180, 698
BshFI	GGCC	3 cut(s)	134, 665, 693
BshNI	GGYRCC	1 cut(s)	530
BsiEI	CGRYCG	3 cut(s)	176, 180, 698
BsiHKAI	GWGCWC	3 cut(s)	310, 324, 421
BsiSI	CCGG	2 cut(s)	150, 694
BslFI	GGGAC	2 cut(s)	94, 698
BslI	CCNNNNNNNGG	7 cut(s)	156, 507, 548, 551, 589, 604, 700
BsmAI	GTCTC	1 cut(s)	174
BsmBI	CGTCTC	1 cut(s)	174
BsmFI	GGGAC	2 cut(s)	94, 698
BsnI	GGCC	3 cut(s)	134, 665, 693
Bsp119I	TTCGAA	1 cut(s)	327
Bsp1286I	GDGCHC	4 cut(s)	249, 310, 324, 421
Bsp143I	GATC	1 cut(s)	785
Bsp1720I	GCTNAGC	2 cut(s)	309, 318
BspACI	CCGC	3 cut(s)	240, 580, 729
BspANI	GGCC	3 cut(s)	134, 665, 693
BspCNI	CTCAG	5 cut(s)	240, 310, 322, 433, 505
BspFNI	CGCG	1 cut(s)	189
BspLI	GGNNCC	3 cut(s)	532, 541, 727
BspOI	GCTAGC	1 cut(s)	317
BspQI	GCTCTTC	3 cut(s)	95, 278, 329
BspT104I	TTCGAA	1 cut(s)	327
BspT107I	GGYRCC	1 cut(s)	530
BsrFI	RCCGGY	1 cut(s)	693
BsrI	ACTGG	1 cut(s)	382
BssAI	RCCGGY	1 cut(s)	693
BssECI	CCNNGG	2 cut(s)	506, 666
BssMI	GATC	1 cut(s)	785
BssT1I	CCWWGG	2 cut(s)	506, 666
Bst4CI	ACNGT	5 cut(s)	298, 305, 447, 689, 746
Bst6I	CTCTTC	4 cut(s)	95, 278, 329, 577
BstBI	TTCGAA	1 cut(s)	327
BstC8I	GCNNGC	2 cut(s)	245, 315
BstDEI	CTNAG	5 cut(s)	227, 309, 318, 420, 513
BstEII	GGTNACC	1 cut(s)	593
BstF5I	GGATG	2 cut(s)	220, 769
BstFNI	CGCG	1 cut(s)	189
BstH2I	RGCGCY	1 cut(s)	59
BstHHI	GCGC	1 cut(s)	58
BstKTI	GATC	1 cut(s)	788
BstMAI	GTCTC	1 cut(s)	174
BstMBI	GATC	1 cut(s)	785
BstMCI	CGRYCG	3 cut(s)	176, 180, 698
BstMWI	GCNNNNNNNGC	3 cut(s)	237, 314, 319
BstPI	GGTNACC	1 cut(s)	593
BstUI	CGCG	1 cut(s)	189
BstV1I	GCAGC	2 cut(s)	424, 446
BstX2I	RGATCY	1 cut(s)	785
BstYI	RGATCY	1 cut(s)	785
BsuRI	GGCC	3 cut(s)	134, 665, 693
BtsCI	GGATG	2 cut(s)	220, 769
BtsIMutI	CAGTG	3 cut(s)	310, 694, 751
Cac8I	GCNNGC	2 cut(s)	245, 315
CfoI	GCGC	1 cut(s)	58
Cfr10I	RCCGGY	1 cut(s)	693
Cfr13I	GGNCC	2 cut(s)	494, 539
CseI	GACGC	2 cut(s)	178, 195
CviAII	CATG	2 cut(s)	409, 603
DdeI	CTNAG	5 cut(s)	227, 309, 318, 420, 513
DpnI	GATC	1 cut(s)	787
DpnII	GATC	1 cut(s)	785
EaeI	YGGCCR	1 cut(s)	691
Eam1104I	CTCTTC	4 cut(s)	95, 278, 329, 577
EarI	CTCTTC	4 cut(s)	95, 278, 329, 577
Ecl136II	GAGCTC	1 cut(s)	322
Eco130I	CCWWGG	2 cut(s)	506, 666
Eco24I	GRGCYC	2 cut(s)	249, 324
Eco47I	GGWCC	2 cut(s)	494, 539
Eco47III	AGCGCT	1 cut(s)	57
Eco53kI	GAGCTC	1 cut(s)	322
Eco57I	CTGAAG	1 cut(s)	753
Eco91I	GGTNACC	1 cut(s)	593
EcoICRI	GAGCTC	1 cut(s)	322
EcoO109I	RGGNCCY	1 cut(s)	539
EcoO65I	GGTNACC	1 cut(s)	593
EcoT14I	CCWWGG	2 cut(s)	506, 666
EcoT38I	GRGCYC	2 cut(s)	249, 324
ErhI	CCWWGG	2 cut(s)	506, 666
Esp3I	CGTCTC	1 cut(s)	174
FaeI	CATG	2 cut(s)	412, 606
FaqI	GGGAC	2 cut(s)	94, 698
FatI	CATG	2 cut(s)	408, 602
FauNDI	CATATG	1 cut(s)	721
FblI	GTMKAC	1 cut(s)	300
Fnu4HI	GCNGC	3 cut(s)	241, 435, 438
FokI	GGATG	2 cut(s)	227, 776
FriOI	GRGCYC	2 cut(s)	249, 324
Fsp4HI	GCNGC	3 cut(s)	241, 435, 438
FspBI	CTAG	3 cut(s)	53, 314, 507
GlaI	GCGC	1 cut(s)	57
GluI	GCNGC	3 cut(s)	241, 435, 438
HaeII	RGCGCY	1 cut(s)	59
HaeIII	GGCC	3 cut(s)	134, 665, 693
HapII	CCGG	2 cut(s)	150, 694
HgaI	GACGC	2 cut(s)	178, 195
HhaI	GCGC	1 cut(s)	58
Hin1II	CATG	2 cut(s)	412, 606
Hin6I	GCGC	1 cut(s)	56
HinP1I	GCGC	1 cut(s)	56
HincII	GTYRAC	3 cut(s)	301, 613, 772
HindII	GTYRAC	3 cut(s)	301, 613, 772
HinfI	GANTC	3 cut(s)	518, 569, 755
HpaII	CCGG	2 cut(s)	150, 694
HphI	GGTGA	3 cut(s)	286, 370, 578
Hpy166II	GTNNAC	4 cut(s)	301, 487, 613, 772
Hpy188I	TCNGA	4 cut(s)	202, 281, 514, 527
Hpy188III	TCNNGA	1 cut(s)	422
Hpy8I	GTNNAC	4 cut(s)	301, 487, 613, 772
Hpy99I	CGWCG	6 cut(s)	189, 194, 236, 239, 281, 302
HpyAV	CCTTC	6 cut(s)	42, 112, 296, 301, 323, 465
HpyCH4III	ACNGT	5 cut(s)	298, 305, 447, 689, 746
HpyCH4V	TGCA	1 cut(s)	602
HpyF10VI	GCNNNNNNNGC	3 cut(s)	237, 314, 319
HpyF3I	CTNAG	5 cut(s)	227, 309, 318, 420, 513
Hsp92II	CATG	2 cut(s)	412, 606
HspAI	GCGC	1 cut(s)	56
Kzo9I	GATC	1 cut(s)	785
LguI	GCTCTTC	3 cut(s)	95, 278, 329
Lsp1109I	GCAGC	2 cut(s)	424, 446
MaeI	CTAG	3 cut(s)	53, 314, 507
MaeIII	GTNAC	4 cut(s)	403, 566, 593, 715
MalI	GATC	1 cut(s)	787
MboI	GATC	1 cut(s)	785
MboII	GAAGA	7 cut(s)	20, 82, 265, 316, 564, 746, 795
MflI	RGATCY	1 cut(s)	785
MhlI	GDGCHC	4 cut(s)	249, 310, 324, 421
MluCI	AATT	2 cut(s)	250, 616
MluI	ACGCGT	1 cut(s)	187
MlyI	GAGTC	2 cut(s)	563, 764
MmeI	TCCRAC	2 cut(s)	259, 600
MseI	TTAA	1 cut(s)	639
MspA1I	CMGCKG	2 cut(s)	437, 731
MspI	CCGG	2 cut(s)	150, 694
MvnI	CGCG	1 cut(s)	189
MwoI	GCNNNNNNNGC	3 cut(s)	237, 314, 319
NdeI	CATATG	1 cut(s)	721
NdeII	GATC	1 cut(s)	785
NheI	GCTAGC	1 cut(s)	313
NlaIII	CATG	2 cut(s)	412, 606
NlaIV	GGNNCC	3 cut(s)	532, 541, 727
NmuCI	GTSAC	3 cut(s)	403, 566, 715
NspV	TTCGAA	1 cut(s)	327
PciSI	GCTCTTC	3 cut(s)	95, 278, 329
PcsI	WCGNNNNNNNCGW	2 cut(s)	186, 240
PfeI	GAWTC	1 cut(s)	518
PflFI	GACNNNGTC	1 cut(s)	409
PkrI	GCNGC	3 cut(s)	242, 436, 439
PleI	GAGTC	2 cut(s)	563, 763
PpsI	GAGTC	2 cut(s)	563, 763
PpuMI	RGGWCCY	1 cut(s)	539
Psp124BI	GAGCTC	1 cut(s)	324
Psp5II	RGGWCCY	1 cut(s)	539
PspEI	GGTNACC	1 cut(s)	593
PspN4I	GGNNCC	3 cut(s)	532, 541, 727
PspPI	GGNCC	2 cut(s)	494, 539
PspPPI	RGGWCCY	1 cut(s)	539
PsuI	RGATCY	1 cut(s)	785
PsyI	GACNNNGTC	1 cut(s)	409
PvuII	CAGCTG	1 cut(s)	437
SacI	GAGCTC	1 cut(s)	324
SalI	GTCGAC	1 cut(s)	299
SapI	GCTCTTC	3 cut(s)	95, 278, 329
SaqAI	TTAA	1 cut(s)	639
SatI	GCNGC	3 cut(s)	241, 435, 438
Sau3AI	GATC	1 cut(s)	785
Sau96I	GGNCC	2 cut(s)	494, 539
SchI	GAGTC	2 cut(s)	563, 764
SduI	GDGCHC	4 cut(s)	249, 310, 324, 421
SfuI	TTCGAA	1 cut(s)	327
SinI	GGWCC	2 cut(s)	494, 539
SmlI	CTYRAG	2 cut(s)	266, 626
SmoI	CTYRAG	2 cut(s)	266, 626
Sse9I	AATT	2 cut(s)	250, 616
SsiI	CCGC	3 cut(s)	240, 580, 729
SspI	AATATT	1 cut(s)	799
SspMI	CTAG	3 cut(s)	53, 314, 507
SstI	GAGCTC	1 cut(s)	324
StyI	CCWWGG	2 cut(s)	506, 666
TaaI	ACNGT	5 cut(s)	298, 305, 447, 689, 746
TaqI	TCGA	8 cut(s)	125, 207, 300, 327, 354, 413, 442, 698
TaqII	GACCGA	2 cut(s)	162, 166
TasI	AATT	2 cut(s)	250, 616
TauI	GCSGC	1 cut(s)	243
TfiI	GAWTC	1 cut(s)	518
Tru1I	TTAA	1 cut(s)	639
Tru9I	TTAA	1 cut(s)	639
TscAI	CASTG	3 cut(s)	310, 694, 751
TseFI	GTSAC	3 cut(s)	403, 566, 715
TseI	GCWGC	2 cut(s)	434, 437
Tsp45I	GTSAC	3 cut(s)	403, 566, 715
TspDTI	ATGAA	2 cut(s)	474, 755
TspRI	CASTG	3 cut(s)	310, 694, 751
Tth111I	GACNNNGTC	1 cut(s)	409
VpaK11BI	GGWCC	2 cut(s)	494, 539
XcmI	CCANNNNNNNNNTGG	1 cut(s)	757
XmaJI	CCTAGG	1 cut(s)	506
XmiI	GTMKAC	1 cut(s)	300
XspI	CTAG	3 cut(s)	53, 314, 507

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