Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0013536

Physical Location & Seq

Genomic Coordinates Reverse (-)

49506149 .. 49511274

Gene Structure 5126 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG353400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 588 bp

ATGGCTTCCTTATTCAAGGATCAAGCCAAGCTTTCACAATATCGGGATAGAAGATTTCCTGGATCGCAAGAGGAATTTGAACAAGCACTTCTGGCATCAACGACTGTTTATATTGGGAATATGTCTTTTTATACAACAGAAGAGCAAGTTTATGAGCTTTTCTCTCGTGCTGGAGAAATTAAGAAGATAATTATGGGCTTGGATAAGAATACAAAAACGCCTTGTGGCTTTTGTTTTGTCCTATTCTATTCTCGAGAAGATACTGAGGATGCTGTAAAATATATAAGCGGGACTATTCTTGATGATCGTCCTATTCGTGTGGATTTTGATTGGGGATTCCAAGAAGGAAGGCAATGGGGCCGAGGGCGAAGTGGCGGGCAGGTTCGTGATGAATATCGTACTGATTATGATCCAGATATCCTTTTGCCACTTTGGAATGTCTGCAAAGTTTTTCCTCAGCTCTTTGAAAATTTTTATAATATTGATTCCCCTACGGTGCATTTCTTCTTCTTCTTAGATTATGAAATTATAGCTGAAAAATTTTGCCCTTATTCCCCTGTGGTGCATTTTTTTTTTCTCAGATTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000339 GO:0000375 GO:0000377 GO:0000394 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005845 GO:0005846 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016071 GO:0016441 GO:0016458 GO:0019222 GO:0031047 GO:0031050 GO:0031053 GO:0032991 GO:0034470 GO:0034518 GO:0034641 GO:0034660 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043331 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901698 GO:1901699

KEGG Pathways

Metabolic & Signaling

ko03013 ko03015 ko03040 map03013 map03015 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

195

Amino Acids

23.04

Weight (kDa)

4.94

Isoelectric Point (pI)

46.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	36 - 106	7.1e-15	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0013536)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G44200 AT5G44200
fragaria_vesca	FvH4_6g26630
malus_domestica	MD09G1242300.v1.1 MD17G1234600.v1.1
prunus_persica	Prupe.3G134700_v2.0.a1
pyrus_communis	pycom09g16080 pycom17g23780
rosa_chinensis	RchiOBHm_Chr2g0127331
rosa_laevigata	RLG00000018966
rosa_multiflora	Rmu_sc0039747.1_g000001
rosa_roxburghii	Rroxscaffold_2G00116350
rosa_rugosa	Rorug02G0275100
rosa_samantha	Rh2AG326200 Rh2BG335700 Rh2CG313900 Rh2DG353400
rosa_wichuraiana	Rw2G026460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	477
Acc36I	ACCTGC	1 cut(s)	370
AciI	CCGC	2 cut(s)	288, 375
AclWI	GGATC	3 cut(s)	27, 70, 404
AcsI	RAATTY	3 cut(s)	74, 469, 539
AfaI	GTAC	1 cut(s)	400
AgsI	TTSAA	3 cut(s)	16, 80, 467
AjnI	CCWGG	1 cut(s)	58
AluBI	AGCT	4 cut(s)	31, 157, 460, 533
AluI	AGCT	4 cut(s)	31, 157, 460, 533
AlwI	GGATC	3 cut(s)	27, 70, 404
Ama87I	CYCGRG	1 cut(s)	252
AoxI	GGCC	1 cut(s)	358
ApoI	RAATTY	3 cut(s)	74, 469, 539
AspS9I	GGNCC	1 cut(s)	358
AvaI	CYCGRG	1 cut(s)	252
BauI	CACGAG	1 cut(s)	165
BbvCI	CCTCAGC	1 cut(s)	456
BciT130I	CCWGG	1 cut(s)	60
BfuAI	ACCTGC	1 cut(s)	370
Bme1390I	CCNGG	1 cut(s)	60
BmeT110I	CYCGRG	1 cut(s)	252
BmgT120I	GGNCC	1 cut(s)	358
BmiI	GGNNCC	1 cut(s)	359
BmrFI	CCNGG	1 cut(s)	60
BmsI	GCATC	2 cut(s)	104, 259
BplI	GAGNNNNNCTC	2 cut(s)	146, 178
BpmI	CTGGAG	1 cut(s)	192
Bpu10I	CCTNAGC	1 cut(s)	456
BsaBI	GATNNNNATC	2 cut(s)	393, 408
BsaJI	CCNNGG	1 cut(s)	361
Bse3DI	GCAATG	1 cut(s)	359
Bse8I	GATNNNNATC	2 cut(s)	393, 408
BseBI	CCWGG	1 cut(s)	60
BseDI	CCNNGG	1 cut(s)	361
BseGI	GGATG	1 cut(s)	274
BseJI	GATNNNNATC	2 cut(s)	393, 408
BseMI	GCAATG	1 cut(s)	359
BseMII	CTCAG	2 cut(s)	255, 470
BshFI	GGCC	1 cut(s)	360
BsiHKCI	CYCGRG	1 cut(s)	252
BslFI	GGGAC	1 cut(s)	304
BsmFI	GGGAC	1 cut(s)	304
BsnI	GGCC	1 cut(s)	360
BsoBI	CYCGRG	1 cut(s)	252
Bsp143I	GATC	4 cut(s)	19, 62, 304, 409
BspACI	CCGC	2 cut(s)	288, 375
BspANI	GGCC	1 cut(s)	360
BspCNI	CTCAG	2 cut(s)	256, 469
BspLI	GGNNCC	1 cut(s)	359
BspMI	ACCTGC	1 cut(s)	370
BspPI	GGATC	3 cut(s)	27, 70, 404
BspQI	GCTCTTC	1 cut(s)	135
BsrDI	GCAATG	1 cut(s)	359
BssECI	CCNNGG	1 cut(s)	361
BssMI	GATC	4 cut(s)	19, 62, 304, 409
BssSI	CACGAG	1 cut(s)	165
Bst2BI	CACGAG	1 cut(s)	165
Bst2UI	CCWGG	1 cut(s)	60
Bst4CI	ACNGT	2 cut(s)	106, 496
Bst6I	CTCTTC	1 cut(s)	135
BstC8I	GCNNGC	1 cut(s)	377
BstDEI	CTNAG	4 cut(s)	264, 456, 514, 578
BstF5I	GGATG	1 cut(s)	274
BstKTI	GATC	4 cut(s)	22, 65, 307, 412
BstMBI	GATC	4 cut(s)	19, 62, 304, 409
BstMWI	GCNNNNNNNGC	1 cut(s)	92
BstNI	CCWGG	1 cut(s)	60
BstSCI	CCNGG	1 cut(s)	58
BsuRI	GGCC	1 cut(s)	360
BtsCI	GGATG	1 cut(s)	274
BveI	ACCTGC	1 cut(s)	370
Cac8I	GCNNGC	1 cut(s)	377
Cfr13I	GGNCC	1 cut(s)	358
Csp6I	GTAC	1 cut(s)	399
CviJI	RGCY	9 cut(s)	5, 26, 31, 157, 198, 228, 360, 460, 533
CviKI_1	RGCY	9 cut(s)	5, 26, 31, 157, 198, 228, 360, 460, 533
CviQI	GTAC	1 cut(s)	399
DdeI	CTNAG	4 cut(s)	264, 456, 514, 578
DpnI	GATC	4 cut(s)	21, 64, 306, 411
DpnII	GATC	4 cut(s)	19, 62, 304, 409
Eam1104I	CTCTTC	1 cut(s)	135
EarI	CTCTTC	1 cut(s)	135
Eco32I	GATATC	1 cut(s)	418
Eco88I	CYCGRG	1 cut(s)	252
EcoRII	CCWGG	1 cut(s)	58
EcoRV	GATATC	1 cut(s)	418
FalI	AAGNNNNNCTT	2 cut(s)	15, 47
FaqI	GGGAC	1 cut(s)	304
FauI	CCCGC	2 cut(s)	281, 368
FokI	GGATG	1 cut(s)	281
GsuI	CTGGAG	1 cut(s)	192
HaeIII	GGCC	1 cut(s)	360
HindIII	AAGCTT	1 cut(s)	29
HinfI	GANTC	2 cut(s)	336, 485
Hpy188I	TCNGA	1 cut(s)	581
Hpy188III	TCNNGA	6 cut(s)	44, 252, 254, 299, 386, 413
HpyAV	CCTTC	2 cut(s)	338, 342
HpyCH4III	ACNGT	2 cut(s)	106, 496
HpyCH4V	TGCA	3 cut(s)	444, 499, 565
HpyF10VI	GCNNNNNNNGC	1 cut(s)	92
HpyF3I	CTNAG	4 cut(s)	264, 456, 514, 578
Kzo9I	GATC	4 cut(s)	19, 62, 304, 409
LguI	GCTCTTC	1 cut(s)	135
LpnPI	CCDG	7 cut(s)	45, 72, 77, 156, 365, 426, 570
LweI	GCATC	2 cut(s)	104, 259
MalI	GATC	4 cut(s)	21, 64, 306, 411
MboI	GATC	4 cut(s)	19, 62, 304, 409
MboII	GAAGA	7 cut(s)	63, 152, 196, 269, 496, 499, 502
MluCI	AATT	6 cut(s)	74, 177, 189, 469, 525, 539
MnlI	CCTC	4 cut(s)	64, 259, 356, 465
MseI	TTAA	1 cut(s)	180
MspR9I	CCNGG	1 cut(s)	60
MvaI	CCWGG	1 cut(s)	60
MwoI	GCNNNNNNNGC	1 cut(s)	92
NdeII	GATC	4 cut(s)	19, 62, 304, 409
NlaIV	GGNNCC	1 cut(s)	359
NmeAIII	GCCGAG	1 cut(s)	386
PaeR7I	CTCGAG	1 cut(s)	252
PciSI	GCTCTTC	1 cut(s)	135
PcsI	WCGNNNNNNNCGW	1 cut(s)	313
PfeI	GAWTC	2 cut(s)	336, 485
PfoI	TCCNGGA	1 cut(s)	58
PsiI	TTATAA	1 cut(s)	477
Psp6I	CCWGG	1 cut(s)	58
PspGI	CCWGG	1 cut(s)	58
PspN4I	GGNNCC	1 cut(s)	359
PspPI	GGNCC	1 cut(s)	358
RsaI	GTAC	1 cut(s)	400
RsaNI	GTAC	1 cut(s)	399
SapI	GCTCTTC	1 cut(s)	135
SaqAI	TTAA	1 cut(s)	180
Sau3AI	GATC	4 cut(s)	19, 62, 304, 409
Sau96I	GGNCC	1 cut(s)	358
ScrFI	CCNGG	1 cut(s)	60
SetI	ASST	5 cut(s)	33, 159, 384, 462, 535
SfaNI	GCATC	2 cut(s)	104, 259
Sfr274I	CTCGAG	1 cut(s)	252
SlaI	CTCGAG	1 cut(s)	252
SmlI	CTYRAG	1 cut(s)	252
SmoI	CTYRAG	1 cut(s)	252
Sse9I	AATT	6 cut(s)	74, 177, 189, 469, 525, 539
SsiI	CCGC	2 cut(s)	288, 375
SspI	AATATT	1 cut(s)	481
StyD4I	CCNGG	1 cut(s)	58
TaaI	ACNGT	2 cut(s)	106, 496
TaqI	TCGA	1 cut(s)	253
TasI	AATT	6 cut(s)	74, 177, 189, 469, 525, 539
TfiI	GAWTC	2 cut(s)	336, 485
Tru1I	TTAA	1 cut(s)	180
Tru9I	TTAA	1 cut(s)	180
TspDTI	ATGAA	2 cut(s)	405, 537
XapI	RAATTY	3 cut(s)	74, 469, 539
XhoI	CTCGAG	1 cut(s)	252

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