Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0003597

Physical Location & Seq

Genomic Coordinates Reverse (-)

55925512 .. 55930922

Gene Structure 5411 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG287100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 735 bp

ATGGTGGAAAGAGATACACGGCGTCCTCGTGGTTTTGGGTTTATTACATTTGGAGATCGACGGGCAATGGAAGATGCAATCCGGGAGATGCATGGACAGGAATTGGGTGCCCGCACCATCTCCGTGAACAAAGCCCAACCCAGAATGGGAGGGGAAGATTTAGACCATGGCTATAGAGGAGGAGGGGGAGGATACTCTTCTGGTGGCAGGAGAAGCTACGGAGGAGGTGGTGATAGATCTGTGGGCCAAGATGAATGCTTCAAGTGTGGGCGTACAGGACATTGGGCTCGAGACTGCCCTTCGGCTGGTGGTGGAAGAGGTGGAGGAGGAGGTTCATTCTCTTCACATTCTAGGTTCGGGGCTGGTGGGCGTGGGGATCGCTTTGGTGGAGATCATGATCACTACATGGATGACCGTTATGATGGAGGGCGCTATGGAGACAGGGATCGTTTTGACAGCAGGGAGGACAAATATGGGAGCCGTGATCGCTATGTCAGTGACAGGTACCCAGCTGGTGATCGTTTTGCTAGTGACAGATATGGAGGTTCTGATCGATATCCTCAAAATGGCTGTGGCAAAGACAGAGGCTATGATAGGGATGGTGGAGCAAGAGGTGGCAGTGATAGATATGGAAGGGGAGGTCCAGCAAGAGATGAGGGAGGTTATCGTAGCAGGGCTGGCCCTTACGACCGCCCTAGCAGGGGAGGGCGGCCATCTTCCTTTGACCGCTACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0006355 GO:0006950 GO:0008150 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009628 GO:0009889 GO:0009890 GO:0009892 GO:0009893 GO:0010035 GO:0010468 GO:0010556 GO:0010558 GO:0010604 GO:0010605 GO:0010628 GO:0010629 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031490 GO:0031974 GO:0031981 GO:0033120 GO:0042221 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043484 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045892 GO:0045934 GO:0045935 GO:0048024 GO:0048026 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050684 GO:0050685 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051173 GO:0051252 GO:0051253 GO:0051254 GO:0060255 GO:0065007 GO:0070013 GO:0080090 GO:0097159 GO:1901363 GO:1901700 GO:1902679 GO:1903311 GO:1903313 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

244

Amino Acids

26.62

Weight (kDa)

9.4

Isoelectric Point (pI)

46.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	4 - 40	1.1e-07	RNA recognition motif
zf-CCHC	PF00098	85 - 101	2.1e-08	Zinc knuckle

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: OG0003597)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G60650 AT1G60650 AT1G60650 AT1G60650 AT5G04280 AT5G04280 AT5G04280 AT5G04280 AT5G04280
fragaria_vesca	FvH4_7g18520 FvH4_7g18520 FvH4_7g18520
malus_domestica	MD01G1101500.v1.1 MD07G1168200.v1.1
prunus_persica	Prupe.2G206800_v2.0.a1 Prupe.2G206800_v2.0.a1 Prupe.2G206800_v2.0.a1 Prupe.2G206800_v2.0.a1
pyrus_communis	pycom01g12820 pycom07g16260
rosa_chinensis	RchiOBHm_Chr1g0362301
rosa_laevigata	RLG00000027653
rosa_multiflora	Rmu_co8090682.1_g000002 Rmu_ssc0000174.1_g000024
rosa_roxburghii	Rroxscaffold_4G00294270
rosa_rugosa	Rorug01G0297200 Rorug01G0297200 Rorug01G0297200 Rorug01G0297200
rosa_samantha	Rh1AG306100 Rh1BG269600 Rh1CG287100 Rh1DG299800 Rh4DG247600
rosa_wichuraiana	Rw1G027170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	504
AccB1I	GGYRCC	2 cut(s)	107, 504
AciI	CCGC	4 cut(s)	112, 691, 709, 727
AclWI	GGATC	2 cut(s)	384, 453
AcoI	YGGCCR	1 cut(s)	710
AcyI	GRCGYC	1 cut(s)	22
AfaI	GTAC	2 cut(s)	274, 506
AfiI	CCNNNNNNNGG	5 cut(s)	146, 305, 566, 700, 701
AgsI	TTSAA	1 cut(s)	262
AluBI	AGCT	2 cut(s)	216, 512
AluI	AGCT	2 cut(s)	216, 512
Alw26I	GTCTC	2 cut(s)	285, 432
AlwI	GGATC	2 cut(s)	384, 453
Ama87I	CYCGRG	1 cut(s)	288
AoxI	GGCC	3 cut(s)	244, 679, 710
Asp718I	GGTACC	1 cut(s)	504
AspLEI	GCGC	1 cut(s)	432
AspS9I	GGNCC	3 cut(s)	244, 641, 680
AsuC2I	CCSGG	1 cut(s)	83
AsuHPI	GGTGA	2 cut(s)	242, 527
AvaI	CYCGRG	1 cut(s)	288
AvaII	GGWCC	1 cut(s)	641
BaeGI	GKGCMC	1 cut(s)	112
BanI	GGYRCC	2 cut(s)	107, 504
BanII	GRGCYC	1 cut(s)	289
BauI	CACGAG	1 cut(s)	27
BccI	CCATC	4 cut(s)	125, 416, 593, 721
BceAI	ACGGC	2 cut(s)	35, 465
BciVI	GTATCC	1 cut(s)	185
BclI	TGATCA	1 cut(s)	397
BcnI	CCSGG	1 cut(s)	83
BcoDI	GTCTC	2 cut(s)	285, 432
BfaI	CTAG	3 cut(s)	351, 528, 696
BfmI	CTRYAG	1 cut(s)	172
BfoI	RGCGCY	1 cut(s)	433
BfuI	GTATCC	1 cut(s)	185
BglII	AGATCT	1 cut(s)	236
BisI	GCNGC	1 cut(s)	710
BlsI	GCNGC	1 cut(s)	711
Bme1390I	CCNGG	1 cut(s)	83
Bme18I	GGWCC	1 cut(s)	641
BmeT110I	CYCGRG	1 cut(s)	288
BmgT120I	GGNCC	3 cut(s)	244, 641, 680
BmiI	GGNNCC	3 cut(s)	109, 479, 506
BmrFI	CCNGG	1 cut(s)	83
BmsI	GCATC	2 cut(s)	64, 78
BpuMI	CCSGG	1 cut(s)	83
Bsa29I	ATCGAT	1 cut(s)	553
BsaBI	GATNNNNATC	2 cut(s)	396, 555
BsaHI	GRCGYC	1 cut(s)	22
BsaJI	CCNNGG	1 cut(s)	166
Bsc4I	CCNNNNNNNGG	5 cut(s)	146, 305, 566, 700, 701
Bse3DI	GCAATG	1 cut(s)	72
Bse8I	GATNNNNATC	2 cut(s)	396, 555
BseCI	ATCGAT	1 cut(s)	553
BseDI	CCNNGG	1 cut(s)	166
BseGI	GGATG	2 cut(s)	415, 604
BseJI	GATNNNNATC	2 cut(s)	396, 555
BseLI	CCNNNNNNNGG	5 cut(s)	146, 305, 566, 700, 701
BseMI	GCAATG	1 cut(s)	72
BseRI	GAGGAG	5 cut(s)	192, 195, 237, 339, 342
BseSI	GKGCMC	1 cut(s)	112
BseYI	CCCAGC	1 cut(s)	508
Bsh1285I	CGRYCG	1 cut(s)	691
BshFI	GGCC	3 cut(s)	246, 681, 712
BshNI	GGYRCC	2 cut(s)	107, 504
BshVI	ATCGAT	1 cut(s)	553
BsiEI	CGRYCG	1 cut(s)	691
BsiHKCI	CYCGRG	1 cut(s)	288
BsiSI	CCGG	1 cut(s)	82
BslI	CCNNNNNNNGG	5 cut(s)	146, 305, 566, 700, 701
BsmAI	GTCTC	2 cut(s)	285, 432
BsmI	GAATGC	1 cut(s)	260
BsnI	GGCC	3 cut(s)	246, 681, 712
BsoBI	CYCGRG	1 cut(s)	288
Bsp1286I	GDGCHC	2 cut(s)	112, 289
Bsp143I	GATC	9 cut(s)	55, 236, 376, 391, 397, 445, 484, 517, 550
Bsp19I	CCATGG	1 cut(s)	166
BspACI	CCGC	4 cut(s)	112, 691, 709, 727
BspANI	GGCC	3 cut(s)	246, 681, 712
BspDI	ATCGAT	1 cut(s)	553
BspHI	TCATGA	1 cut(s)	394
BspLI	GGNNCC	3 cut(s)	109, 479, 506
BspPI	GGATC	2 cut(s)	384, 453
BspT107I	GGYRCC	2 cut(s)	107, 504
BsrDI	GCAATG	1 cut(s)	72
BssECI	CCNNGG	1 cut(s)	166
BssMI	GATC	9 cut(s)	55, 236, 376, 391, 397, 445, 484, 517, 550
BssNI	GRCGYC	1 cut(s)	22
BssSI	CACGAG	1 cut(s)	27
BssT1I	CCWWGG	1 cut(s)	166
Bst2BI	CACGAG	1 cut(s)	27
Bst4CI	ACNGT	1 cut(s)	416
Bst6I	CTCTTC	3 cut(s)	202, 310, 346
BstACI	GRCGYC	1 cut(s)	22
BstC8I	GCNNGC	2 cut(s)	112, 679
BstDSI	CCRYGG	1 cut(s)	166
BstF5I	GGATG	2 cut(s)	415, 604
BstH2I	RGCGCY	1 cut(s)	433
BstHHI	GCGC	1 cut(s)	432
BstKTI	GATC	9 cut(s)	58, 239, 379, 394, 400, 448, 487, 520, 553
BstMAI	GTCTC	2 cut(s)	285, 432
BstMBI	GATC	9 cut(s)	55, 236, 376, 391, 397, 445, 484, 517, 550
BstMCI	CGRYCG	1 cut(s)	691
BstMWI	GCNNNNNNNGC	3 cut(s)	213, 486, 678
BstSCI	CCNGG	1 cut(s)	81
BstSFI	CTRYAG	1 cut(s)	172
BstSLI	GKGCMC	1 cut(s)	112
BstX2I	RGATCY	1 cut(s)	236
BstYI	RGATCY	1 cut(s)	236
Bsu15I	ATCGAT	1 cut(s)	553
BsuI	GTATCC	1 cut(s)	185
BsuRI	GGCC	3 cut(s)	246, 681, 712
BsuTUI	ATCGAT	1 cut(s)	553
BtgI	CCRYGG	1 cut(s)	166
BtsCI	GGATG	2 cut(s)	415, 604
BtsI	GCAGTG	1 cut(s)	625
BtsIMutI	CAGTG	2 cut(s)	502, 625
Cac8I	GCNNGC	2 cut(s)	112, 679
CciI	TCATGA	1 cut(s)	394
CfoI	GCGC	1 cut(s)	432
Cfr13I	GGNCC	3 cut(s)	244, 641, 680
ClaI	ATCGAT	1 cut(s)	553
CseI	GACGC	1 cut(s)	11
Csp6I	GTAC	2 cut(s)	273, 505
CviAII	CATG	4 cut(s)	92, 167, 395, 406
CviQI	GTAC	2 cut(s)	273, 505
DpnI	GATC	9 cut(s)	57, 238, 378, 393, 399, 447, 486, 519, 552
DpnII	GATC	9 cut(s)	55, 236, 376, 391, 397, 445, 484, 517, 550
EaeI	YGGCCR	1 cut(s)	710
Eam1104I	CTCTTC	3 cut(s)	202, 310, 346
EarI	CTCTTC	3 cut(s)	202, 310, 346
Eco130I	CCWWGG	1 cut(s)	166
Eco24I	GRGCYC	1 cut(s)	289
Eco32I	GATATC	1 cut(s)	557
Eco47I	GGWCC	1 cut(s)	641
Eco88I	CYCGRG	1 cut(s)	288
EcoRV	GATATC	1 cut(s)	557
EcoT14I	CCWWGG	1 cut(s)	166
EcoT22I	ATGCAT	1 cut(s)	93
EcoT38I	GRGCYC	1 cut(s)	289
ErhI	CCWWGG	1 cut(s)	166
FaeI	CATG	4 cut(s)	95, 170, 398, 409
FatI	CATG	4 cut(s)	91, 166, 394, 405
FauI	CCCGC	1 cut(s)	119
FbaI	TGATCA	1 cut(s)	397
Fnu4HI	GCNGC	1 cut(s)	710
FokI	GGATG	2 cut(s)	422, 611
FriOI	GRGCYC	1 cut(s)	289
Fsp4HI	GCNGC	1 cut(s)	710
FspBI	CTAG	3 cut(s)	351, 528, 696
GlaI	GCGC	1 cut(s)	431
GluI	GCNGC	1 cut(s)	710
GsaI	CCCAGC	1 cut(s)	512
HaeII	RGCGCY	1 cut(s)	433
HaeIII	GGCC	3 cut(s)	246, 681, 712
HapII	CCGG	1 cut(s)	82
HgaI	GACGC	1 cut(s)	11
HhaI	GCGC	1 cut(s)	432
Hin1I	GRCGYC	1 cut(s)	22
Hin1II	CATG	4 cut(s)	95, 170, 398, 409
Hin6I	GCGC	1 cut(s)	430
HinP1I	GCGC	1 cut(s)	430
HpaII	CCGG	1 cut(s)	82
HphI	GGTGA	2 cut(s)	242, 527
Hpy166II	GTNNAC	1 cut(s)	127
Hpy188I	TCNGA	1 cut(s)	550
Hpy188III	TCNNGA	2 cut(s)	290, 395
Hpy8I	GTNNAC	1 cut(s)	127
Hpy99I	CGWCG	1 cut(s)	63
HpyAV	CCTTC	2 cut(s)	309, 627
HpyCH4III	ACNGT	1 cut(s)	416
HpyCH4V	TGCA	2 cut(s)	77, 91
HpyF10VI	GCNNNNNNNGC	3 cut(s)	213, 486, 678
Hsp92I	GRCGYC	1 cut(s)	22
Hsp92II	CATG	4 cut(s)	95, 170, 398, 409
HspAI	GCGC	1 cut(s)	430
KpnI	GGTACC	1 cut(s)	508
Ksp22I	TGATCA	1 cut(s)	397
Kzo9I	GATC	9 cut(s)	55, 236, 376, 391, 397, 445, 484, 517, 550
LmnI	GCTCC	2 cut(s)	477, 605
LweI	GCATC	2 cut(s)	64, 78
MaeI	CTAG	3 cut(s)	351, 528, 696
MaeIII	GTNAC	2 cut(s)	497, 530
MalI	GATC	9 cut(s)	57, 238, 378, 393, 399, 447, 486, 519, 552
MboI	GATC	9 cut(s)	55, 236, 376, 391, 397, 445, 484, 517, 550
MboII	GAAGA	6 cut(s)	83, 167, 189, 327, 333, 708
MflI	RGATCY	1 cut(s)	236
MhlI	GDGCHC	2 cut(s)	112, 289
MluCI	AATT	1 cut(s)	101
Mph1103I	ATGCAT	1 cut(s)	93
MslI	CAYNNNNRTG	1 cut(s)	122
MspA1I	CMGCKG	1 cut(s)	512
MspI	CCGG	1 cut(s)	82
MspR9I	CCNGG	1 cut(s)	83
Mva1269I	GAATGC	1 cut(s)	260
MwoI	GCNNNNNNNGC	3 cut(s)	213, 486, 678
NciI	CCSGG	1 cut(s)	83
NcoI	CCATGG	1 cut(s)	166
NdeII	GATC	9 cut(s)	55, 236, 376, 391, 397, 445, 484, 517, 550
NlaIII	CATG	4 cut(s)	95, 170, 398, 409
NlaIV	GGNNCC	3 cut(s)	109, 479, 506
NmuCI	GTSAC	2 cut(s)	497, 530
NsiI	ATGCAT	1 cut(s)	93
PaeR7I	CTCGAG	1 cut(s)	288
PagI	TCATGA	1 cut(s)	394
PcsI	WCGNNNNNNNCGW	1 cut(s)	25
PctI	GAATGC	1 cut(s)	260
PfoI	TCCNGGA	1 cut(s)	81
PkrI	GCNGC	1 cut(s)	711
PspFI	CCCAGC	1 cut(s)	508
PspN4I	GGNNCC	3 cut(s)	109, 479, 506
PspPI	GGNCC	3 cut(s)	244, 641, 680
PsuI	RGATCY	1 cut(s)	236
PvuII	CAGCTG	1 cut(s)	512
RsaI	GTAC	2 cut(s)	274, 506
RsaNI	GTAC	2 cut(s)	273, 505
RseI	CAYNNNNRTG	1 cut(s)	122
SatI	GCNGC	1 cut(s)	710
Sau3AI	GATC	9 cut(s)	55, 236, 376, 391, 397, 445, 484, 517, 550
Sau96I	GGNCC	3 cut(s)	244, 641, 680
ScrFI	CCNGG	1 cut(s)	83
SduI	GDGCHC	2 cut(s)	112, 289
SfaNI	GCATC	2 cut(s)	64, 78
SfcI	CTRYAG	1 cut(s)	172
Sfr274I	CTCGAG	1 cut(s)	288
SinI	GGWCC	1 cut(s)	641
SlaI	CTCGAG	1 cut(s)	288
SmiMI	CAYNNNNRTG	1 cut(s)	122
SmlI	CTYRAG	1 cut(s)	288
SmoI	CTYRAG	1 cut(s)	288
Sse9I	AATT	1 cut(s)	101
SsiI	CCGC	4 cut(s)	112, 691, 709, 727
SspMI	CTAG	3 cut(s)	351, 528, 696
StyD4I	CCNGG	1 cut(s)	81
StyI	CCWWGG	1 cut(s)	166
TaaI	ACNGT	1 cut(s)	416
TaqI	TCGA	3 cut(s)	58, 289, 553
TasI	AATT	1 cut(s)	101
TauI	GCSGC	1 cut(s)	712
TscAI	CASTG	2 cut(s)	502, 625
TseFI	GTSAC	2 cut(s)	497, 530
Tsp45I	GTSAC	2 cut(s)	497, 530
TspDTI	ATGAA	2 cut(s)	267, 324
TspGWI	ACGGA	2 cut(s)	112, 234
TspRI	CASTG	2 cut(s)	502, 625
VpaK11BI	GGWCC	1 cut(s)	641
XhoI	CTCGAG	1 cut(s)	288
XspI	CTAG	3 cut(s)	351, 528, 696
Zsp2I	ATGCAT	1 cut(s)	93

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