Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0008030

Physical Location & Seq

Genomic Coordinates Forward (+)

56243918 .. 56246878

Gene Structure 2961 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG337300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 636 bp

ATGAAGCGAAGGGAACCTCGGGGATTTGCATTCGTGCAATTTGTGGATTCTTATGAAGCTGCAGAGGCTCAGTATCATATGAATGGGAAAATTTTTGCTGGGAGGGAGATATCTGTGGTTCTTGCTGCAGAGACAAGGAAAAGACCAGAGGAGATGCGCCAAAGAACTAGGGTCAGAGGGCCATCATCAGGCTATGGGGACAGAAGATCATCTCATTATGGACGTTCTCGTTCTCGTTCACGCTCTCCACACTATCCATCAGGTTCGAGAAGTCGGTACCGCTCAAGGTCCTATTCTCCTGCTCCAAGACGACGAGGTGATTCTGTTTCGCCAGTTAGAAGACGTGGTGACCACCCAAGGTCACCTCGTGACCATCCACGTTCACCACTTGACCACCCAAGGTCATCAAGGGATTCTCCCCTTGAGAGAGGCGGTGATCATGATCGAAGGCCATATTCTCCAGGTTATGACAATGGTGCTGGGCAAGCTGAAAATGGAGAAGGGTATGACAAGAAATCGAGGTACGACGAGGAGATTGAACCACGAGGCAATTGGAGATCTCCTGATAAAGCATCAAGATCACCATCTGGTTCTAGATCCAGATCTGCTGAGTTATCACCTAGGCGCAGCAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000244 GO:0000245 GO:0000375 GO:0000377 GO:0000381 GO:0000387 GO:0000395 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006950 GO:0006979 GO:0008150 GO:0008152 GO:0008380 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0019904 GO:0022607 GO:0022613 GO:0022618 GO:0031323 GO:0031324 GO:0031974 GO:0031981 GO:0033119 GO:0034622 GO:0034641 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043484 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045292 GO:0045934 GO:0046483 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050733 GO:0050789 GO:0050794 GO:0050896 GO:0051082 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065003 GO:0065007 GO:0070013 GO:0071704 GO:0071826 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1903311 GO:1903312

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

211

Amino Acids

24.23

Weight (kDa)

11.13

Isoelectric Point (pI)

114.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	4 - 37	6e-07	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: OG0008030)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G55460
fragaria_vesca	FvH4_7g22601 FvH4_7g22602
malus_domestica	MD01G1135000.v1.1 MD07G1199700.v1.1
prunus_persica	Prupe.2G236400_v2.0.a1 Prupe.2G236400_v2.0.a1 Prupe.2G236400_v2.0.a1 Prupe.2G236400_v2.0.a1
pyrus_communis	pycom01g15570 pycom07g18650
rosa_chinensis	RchiOBHm_Chr1g0367721
rosa_laevigata	RLG00000027268
rosa_multiflora	Rmu_co8328167.1_g000001 Rmu_sc0008470.1_g000003 Rmu_sc0033554.1_g000001
rosa_roxburghii	Rroxscaffold_4G00289280
rosa_rugosa	Rorug01G0336200
rosa_samantha	Rh1AG343300 Rh1BG305000 Rh1CG320700 Rh1DG337300 Rh6BG013900
rosa_wichuraiana	Rw1G030550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	276
AccB1I	GGYRCC	1 cut(s)	276
AccBSI	CCGCTC	1 cut(s)	282
AciI	CCGC	2 cut(s)	280, 432
AclWI	GGATC	1 cut(s)	591
AcsI	RAATTY	1 cut(s)	90
AdeI	CACNNNGTG	1 cut(s)	368
AfaI	GTAC	2 cut(s)	278, 524
AfiI	CCNNNNNNNGG	1 cut(s)	188
AgsI	TTSAA	1 cut(s)	539
AjiI	CACGTC	1 cut(s)	344
AjnI	CCWGG	1 cut(s)	460
AluBI	AGCT	2 cut(s)	59, 488
AluI	AGCT	2 cut(s)	59, 488
Alw26I	GTCTC	1 cut(s)	125
AlwI	GGATC	1 cut(s)	591
Ama87I	CYCGRG	1 cut(s)	18
AoxI	GGCC	2 cut(s)	179, 449
ApeKI	GCWGC	3 cut(s)	59, 125, 627
ApoI	RAATTY	1 cut(s)	90
Asp718I	GGTACC	1 cut(s)	276
AspA2I	CCTAGG	1 cut(s)	620
AspLEI	GCGC	2 cut(s)	159, 627
AspS9I	GGNCC	2 cut(s)	179, 288
AsuHPI	GGTGA	7 cut(s)	329, 354, 359, 375, 446, 573, 609
AvaI	CYCGRG	1 cut(s)	18
AvaII	GGWCC	1 cut(s)	288
AvrII	CCTAGG	1 cut(s)	620
BanI	GGYRCC	1 cut(s)	276
BauI	CACGAG	2 cut(s)	366, 543
BbsI	GAAGAC	1 cut(s)	346
BbvI	GCAGC	2 cut(s)	46, 112
BccI	CCATC	4 cut(s)	190, 265, 381, 592
BciT130I	CCWGG	1 cut(s)	462
BclI	TGATCA	1 cut(s)	436
BcoDI	GTCTC	1 cut(s)	125
BfaI	CTAG	3 cut(s)	168, 594, 621
BfmI	CTRYAG	2 cut(s)	60, 126
BglII	AGATCT	2 cut(s)	557, 602
BisI	GCNGC	3 cut(s)	60, 126, 628
BlnI	CCTAGG	1 cut(s)	620
BlsI	GCNGC	3 cut(s)	61, 127, 629
Bme1390I	CCNGG	1 cut(s)	462
Bme18I	GGWCC	1 cut(s)	288
BmeT110I	CYCGRG	1 cut(s)	18
BmgBI	CACGTC	1 cut(s)	344
BmgT120I	GGNCC	2 cut(s)	179, 288
BmiI	GGNNCC	2 cut(s)	15, 278
BmrFI	CCNGG	1 cut(s)	462
BmsI	GCATC	2 cut(s)	144, 581
BpiI	GAAGAC	1 cut(s)	346
BpmI	CTGGAG	1 cut(s)	444
BpuEI	CTTGAG	2 cut(s)	268, 443
BsaBI	GATNNNNATC	3 cut(s)	441, 583, 601
BsaJI	CCNNGG	4 cut(s)	17, 356, 398, 620
Bsc4I	CCNNNNNNNGG	1 cut(s)	188
Bse1I	ACTGG	1 cut(s)	332
Bse8I	GATNNNNATC	3 cut(s)	441, 583, 601
BseBI	CCWGG	1 cut(s)	462
BseDI	CCNNGG	4 cut(s)	17, 356, 398, 620
BseGI	GGATG	1 cut(s)	373
BseJI	GATNNNNATC	3 cut(s)	441, 583, 601
BseLI	CCNNNNNNNGG	1 cut(s)	188
BseMII	CTCAG	2 cut(s)	83, 600
BseNI	ACTGG	1 cut(s)	332
BseRI	GAGGAG	2 cut(s)	164, 545
BseXI	GCAGC	2 cut(s)	46, 112
BseYI	CCCAGC	2 cut(s)	98, 479
BshFI	GGCC	2 cut(s)	181, 451
BshNI	GGYRCC	1 cut(s)	276
BsiHKCI	CYCGRG	1 cut(s)	18
BslFI	GGGAC	1 cut(s)	212
BslI	CCNNNNNNNGG	1 cut(s)	188
BsmAI	GTCTC	1 cut(s)	125
BsmFI	GGGAC	1 cut(s)	212
BsmI	GAATGC	1 cut(s)	29
BsnI	GGCC	2 cut(s)	181, 451
BsoBI	CYCGRG	1 cut(s)	18
Bsp143I	GATC	7 cut(s)	206, 436, 442, 557, 578, 596, 602
BspACI	CCGC	2 cut(s)	280, 432
BspANI	GGCC	2 cut(s)	181, 451
BspCNI	CTCAG	2 cut(s)	82, 601
BspHI	TCATGA	1 cut(s)	439
BspLI	GGNNCC	2 cut(s)	15, 278
BspMAI	CTGCAG	2 cut(s)	64, 130
BspPI	GGATC	1 cut(s)	591
BspT107I	GGYRCC	1 cut(s)	276
BsrBI	CCGCTC	1 cut(s)	282
BsrI	ACTGG	1 cut(s)	332
BssECI	CCNNGG	4 cut(s)	17, 356, 398, 620
BssMI	GATC	7 cut(s)	206, 436, 442, 557, 578, 596, 602
BssSI	CACGAG	2 cut(s)	366, 543
BssT1I	CCWWGG	3 cut(s)	356, 398, 620
Bst2BI	CACGAG	2 cut(s)	366, 543
Bst2UI	CCWGG	1 cut(s)	462
BstC8I	GCNNGC	1 cut(s)	486
BstDEI	CTNAG	2 cut(s)	69, 609
BstEII	GGTNACC	2 cut(s)	347, 360
BstF5I	GGATG	1 cut(s)	373
BstHHI	GCGC	2 cut(s)	159, 627
BstKTI	GATC	7 cut(s)	209, 439, 445, 560, 581, 599, 605
BstMAI	GTCTC	1 cut(s)	125
BstMBI	GATC	7 cut(s)	206, 436, 442, 557, 578, 596, 602
BstMWI	GCNNNNNNNGC	2 cut(s)	65, 485
BstNI	CCWGG	1 cut(s)	462
BstPI	GGTNACC	2 cut(s)	347, 360
BstSCI	CCNGG	1 cut(s)	460
BstSFI	CTRYAG	2 cut(s)	60, 126
BstV1I	GCAGC	2 cut(s)	46, 112
BstV2I	GAAGAC	1 cut(s)	346
BstX2I	RGATCY	3 cut(s)	557, 596, 602
BstYI	RGATCY	3 cut(s)	557, 596, 602
BsuRI	GGCC	2 cut(s)	181, 451
BtrI	CACGTC	1 cut(s)	344
BtsCI	GGATG	1 cut(s)	373
Cac8I	GCNNGC	1 cut(s)	486
CciI	TCATGA	1 cut(s)	439
CfoI	GCGC	2 cut(s)	159, 627
Cfr13I	GGNCC	2 cut(s)	179, 288
Csp6I	GTAC	2 cut(s)	277, 523
CviAII	CATG	1 cut(s)	440
CviJI	RGCY	6 cut(s)	59, 68, 181, 192, 451, 488
CviKI_1	RGCY	6 cut(s)	59, 68, 181, 192, 451, 488
CviQI	GTAC	2 cut(s)	277, 523
DdeI	CTNAG	2 cut(s)	69, 609
DpnI	GATC	7 cut(s)	208, 438, 444, 559, 580, 598, 604
DpnII	GATC	7 cut(s)	206, 436, 442, 557, 578, 596, 602
DraIII	CACNNNGTG	1 cut(s)	368
Eco130I	CCWWGG	3 cut(s)	356, 398, 620
Eco32I	GATATC	1 cut(s)	111
Eco47I	GGWCC	1 cut(s)	288
Eco88I	CYCGRG	1 cut(s)	18
Eco91I	GGTNACC	2 cut(s)	347, 360
EcoO109I	RGGNCCY	1 cut(s)	288
EcoO65I	GGTNACC	2 cut(s)	347, 360
EcoRII	CCWGG	1 cut(s)	460
EcoRV	GATATC	1 cut(s)	111
EcoT14I	CCWWGG	3 cut(s)	356, 398, 620
ErhI	CCWWGG	3 cut(s)	356, 398, 620
FaeI	CATG	1 cut(s)	443
FaiI	YATR	9 cut(s)	54, 78, 80, 195, 219, 441, 454, 468, 507
FaqI	GGGAC	1 cut(s)	212
FatI	CATG	1 cut(s)	439
FauNDI	CATATG	1 cut(s)	78
FbaI	TGATCA	1 cut(s)	436
Fnu4HI	GCNGC	3 cut(s)	60, 126, 628
FokI	GGATG	1 cut(s)	360
Fsp4HI	GCNGC	3 cut(s)	60, 126, 628
FspBI	CTAG	3 cut(s)	168, 594, 621
GlaI	GCGC	2 cut(s)	158, 626
GluI	GCNGC	3 cut(s)	60, 126, 628
GsaI	CCCAGC	2 cut(s)	102, 483
GsuI	CTGGAG	1 cut(s)	444
HaeIII	GGCC	2 cut(s)	181, 451
HhaI	GCGC	2 cut(s)	159, 627
Hin1II	CATG	1 cut(s)	443
Hin6I	GCGC	2 cut(s)	157, 625
HinP1I	GCGC	2 cut(s)	157, 625
HinfI	GANTC	3 cut(s)	47, 320, 413
HphI	GGTGA	7 cut(s)	329, 354, 359, 375, 446, 573, 609
Hpy166II	GTNNAC	2 cut(s)	239, 383
Hpy188I	TCNGA	1 cut(s)	176
Hpy188III	TCNNGA	7 cut(s)	267, 368, 440, 563, 576, 594, 600
Hpy8I	GTNNAC	2 cut(s)	239, 383
Hpy99I	CGWCG	2 cut(s)	315, 530
HpyAV	CCTTC	3 cut(s)	3, 441, 494
HpyCH4IV	ACGT	3 cut(s)	223, 343, 379
HpyCH4V	TGCA	4 cut(s)	29, 37, 62, 128
HpyF10VI	GCNNNNNNNGC	2 cut(s)	65, 485
HpyF3I	CTNAG	2 cut(s)	69, 609
HpySE526I	ACGT	3 cut(s)	223, 343, 379
Hsp92II	CATG	1 cut(s)	443
HspAI	GCGC	2 cut(s)	157, 625
KpnI	GGTACC	1 cut(s)	280
Ksp22I	TGATCA	1 cut(s)	436
Kzo9I	GATC	7 cut(s)	206, 436, 442, 557, 578, 596, 602
LmnI	GCTCC	1 cut(s)	307
Lsp1109I	GCAGC	2 cut(s)	46, 112
LweI	GCATC	2 cut(s)	144, 581
MaeI	CTAG	3 cut(s)	168, 594, 621
MaeII	ACGT	3 cut(s)	223, 343, 379
MaeIII	GTNAC	3 cut(s)	347, 360, 368
MalI	GATC	7 cut(s)	208, 438, 444, 559, 580, 598, 604
MbiI	CCGCTC	1 cut(s)	282
MboI	GATC	7 cut(s)	206, 436, 442, 557, 578, 596, 602
MboII	GAAGA	2 cut(s)	216, 351
MfeI	CAATTG	1 cut(s)	550
MflI	RGATCY	3 cut(s)	557, 596, 602
MluCI	AATT	3 cut(s)	38, 90, 550
MslI	CAYNNNNRTG	1 cut(s)	81
MspR9I	CCNGG	1 cut(s)	462
MunI	CAATTG	1 cut(s)	550
Mva1269I	GAATGC	1 cut(s)	29
MvaI	CCWGG	1 cut(s)	462
MwoI	GCNNNNNNNGC	2 cut(s)	65, 485
NdeI	CATATG	1 cut(s)	78
NdeII	GATC	7 cut(s)	206, 436, 442, 557, 578, 596, 602
NlaIII	CATG	1 cut(s)	443
NlaIV	GGNNCC	2 cut(s)	15, 278
NmuCI	GTSAC	3 cut(s)	347, 360, 368
PagI	TCATGA	1 cut(s)	439
PctI	GAATGC	1 cut(s)	29
PfeI	GAWTC	3 cut(s)	47, 320, 413
PkrI	GCNGC	3 cut(s)	61, 127, 629
PpuMI	RGGWCCY	1 cut(s)	288
Psp5II	RGGWCCY	1 cut(s)	288
Psp6I	CCWGG	1 cut(s)	460
PspEI	GGTNACC	2 cut(s)	347, 360
PspFI	CCCAGC	2 cut(s)	98, 479
PspGI	CCWGG	1 cut(s)	460
PspN4I	GGNNCC	2 cut(s)	15, 278
PspPI	GGNCC	2 cut(s)	179, 288
PspPPI	RGGWCCY	1 cut(s)	288
PstI	CTGCAG	2 cut(s)	64, 130
PsuI	RGATCY	3 cut(s)	557, 596, 602
RsaI	GTAC	2 cut(s)	278, 524
RsaNI	GTAC	2 cut(s)	277, 523
RseI	CAYNNNNRTG	1 cut(s)	81
SatI	GCNGC	3 cut(s)	60, 126, 628
Sau3AI	GATC	7 cut(s)	206, 436, 442, 557, 578, 596, 602
Sau96I	GGNCC	2 cut(s)	179, 288
ScrFI	CCNGG	1 cut(s)	462
SfaNI	GCATC	2 cut(s)	144, 581
SfcI	CTRYAG	2 cut(s)	60, 126
SinI	GGWCC	1 cut(s)	288
SmiMI	CAYNNNNRTG	1 cut(s)	81
SmlI	CTYRAG	2 cut(s)	283, 422
SmoI	CTYRAG	2 cut(s)	283, 422
Sse9I	AATT	3 cut(s)	38, 90, 550
SsiI	CCGC	2 cut(s)	280, 432
SspMI	CTAG	3 cut(s)	168, 594, 621
StyD4I	CCNGG	1 cut(s)	460
StyI	CCWWGG	3 cut(s)	356, 398, 620
TaiI	ACGT	3 cut(s)	226, 346, 382
TaqI	TCGA	3 cut(s)	266, 445, 518
TasI	AATT	3 cut(s)	38, 90, 550
TfiI	GAWTC	3 cut(s)	47, 320, 413
TseFI	GTSAC	3 cut(s)	347, 360, 368
TseI	GCWGC	3 cut(s)	59, 125, 627
Tsp45I	GTSAC	3 cut(s)	347, 360, 368
TspDTI	ATGAA	3 cut(s)	17, 69, 95
VpaK11BI	GGWCC	1 cut(s)	288
XapI	RAATTY	1 cut(s)	90
XbaI	TCTAGA	1 cut(s)	593
XcmI	CCANNNNNNNNNTGG	1 cut(s)	549
XmaJI	CCTAGG	1 cut(s)	620
XspI	CTAG	3 cut(s)	168, 594, 621

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