Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003388

Physical Location & Seq

Genomic Coordinates Reverse (-)

65940588 .. 65948165

Gene Structure 7578 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG472700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGGCGAGATTACAGGCATTCAGTTTGAGTACTTGGGAAGATAAGGGTTCATGCCTCTGGTCATTGAAACAGGTCATTCAGGTTTTGGGCATTCCATGGGATATTGATACAGACGGGTTGAGAGTGTATATGAGCAAATATGTGGAATTGGAGGATTGTATTGTAATGAAGGAGCGGTCAACTGGCCAATCTCGTGGATTTGGATATGTAAAGTTCGCATCAGCTGAAGATGCCAAGCTGAGTTGTCTTATAGCTTCTGGAAGATATGATAGCATCTGCAAGAAAAGTTCTCCAGTTTACAAGAGCGATGTTAGTACTTTAGTTTCTCAGATAAGAGACTTGGATAGGAAGAATGCAGAACTGGAAGAACAAAATAAAAATTTGGCTTATAAATTGCCTACCAAAGGATATAGTAACCAGATTGGATTTGAAGCAAACAAGGATCTGCCTACTGTGAAAAACACCATGATTGCAGGCACATATTATGTAACTAAGTATCTAGGTTCAGCTGCTTTAGTAATGGGGCTCTATGAGAAGGCCCAGGAGATATTGATGAAAGAAAGAAATGTTCAGGATTGGATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005849 GO:0006139 GO:0006378 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043631 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

RRM_1

Protein Analysis

194

Amino Acids

21.94

Weight (kDa)

8.23

Isoelectric Point (pI)

42.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	28 - 79	2e-08	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: OG0003388)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G36960 AT4G36960
fragaria_vesca	FvH4_1g16100 FvH4_1g16100 FvH4_1g16100 FvH4_1g16100 FvH4_1g16100 FvH4_1g16100 FvH4_1g16100
malus_domestica	MD02G1172600.v1.1 MD15G1284600.v1.1
prunus_persica	Prupe.7G132900_v2.0.a1
pyrus_communis	pycom02g13910 pycom15g24730
rosa_chinensis	RchiOBHm_Chr2g0105721
rosa_laevigata	RLG00000017453
rosa_multiflora	Rmu_sc0000594.1_g000060 Rmu_sc0001051.1_g000061 Rmu_sc0039055.1_g000001
rosa_roxburghii	Rroxscaffold_1G00002090 Rroxscaffold_1G00038100 Rroxscaffold_2G00137950 Rroxscaffold_5G00348070
rosa_rugosa	Rorug01G0167000 Rorug02G0129800 Rorug02G0283100
rosa_samantha	Rh2AG181200 Rh2BG190300 Rh2CG185400 Rh5BG197900 Rh5BG450300 Rh5CG472700 Rh5DG291600 Rh5DG464000 Rh6AG247300
rosa_wichuraiana	Rw2G014170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	390
AccBSI	CCGCTC	1 cut(s)	175
AciI	CCGC	1 cut(s)	175
AclWI	GGATC	1 cut(s)	450
AcoI	YGGCCR	1 cut(s)	184
AcsI	RAATTY	1 cut(s)	379
AcuI	CTGAAG	1 cut(s)	246
AfaI	GTAC	2 cut(s)	31, 316
AfiI	CCNNNNNNNGG	1 cut(s)	404
AgsI	TTSAA	2 cut(s)	67, 431
AjnI	CCWGG	1 cut(s)	540
AluBI	AGCT	4 cut(s)	224, 238, 254, 509
AluI	AGCT	4 cut(s)	224, 238, 254, 509
Alw26I	GTCTC	1 cut(s)	330
AlwI	GGATC	1 cut(s)	450
AoxI	GGCC	2 cut(s)	184, 537
ApeKI	GCWGC	1 cut(s)	509
ApoI	RAATTY	1 cut(s)	379
AspS9I	GGNCC	1 cut(s)	538
BalI	TGGCCA	1 cut(s)	186
BanII	GRGCYC	1 cut(s)	528
BauI	CACGAG	1 cut(s)	192
BbvI	GCAGC	1 cut(s)	496
BciT130I	CCWGG	1 cut(s)	542
BcoDI	GTCTC	1 cut(s)	330
BfaI	CTAG	1 cut(s)	500
BisI	GCNGC	1 cut(s)	510
BlsI	GCNGC	1 cut(s)	511
BmcAI	AGTACT	2 cut(s)	31, 316
Bme1390I	CCNGG	1 cut(s)	542
BmgT120I	GGNCC	1 cut(s)	538
BmrFI	CCNGG	1 cut(s)	542
BmsI	GCATC	3 cut(s)	220, 227, 282
BpmI	CTGGAG	1 cut(s)	276
BsaJI	CCNNGG	2 cut(s)	95, 540
Bsc4I	CCNNNNNNNGG	1 cut(s)	404
Bse1I	ACTGG	3 cut(s)	187, 293, 366
BseBI	CCWGG	1 cut(s)	542
BseDI	CCNNGG	2 cut(s)	95, 540
BseLI	CCNNNNNNNGG	1 cut(s)	404
BseMII	CTCAG	2 cut(s)	230, 341
BseNI	ACTGG	3 cut(s)	187, 293, 366
BseXI	GCAGC	1 cut(s)	496
BshFI	GGCC	2 cut(s)	186, 539
BslI	CCNNNNNNNGG	1 cut(s)	404
BsmAI	GTCTC	1 cut(s)	330
BsmI	GAATGC	3 cut(s)	17, 90, 358
BsnI	GGCC	2 cut(s)	186, 539
Bsp1286I	GDGCHC	1 cut(s)	528
Bsp143I	GATC	1 cut(s)	442
Bsp19I	CCATGG	1 cut(s)	95
BspACI	CCGC	1 cut(s)	175
BspANI	GGCC	2 cut(s)	186, 539
BspCNI	CTCAG	2 cut(s)	231, 340
BspPI	GGATC	1 cut(s)	450
BsrBI	CCGCTC	1 cut(s)	175
BsrI	ACTGG	3 cut(s)	187, 293, 366
BssECI	CCNNGG	2 cut(s)	95, 540
BssMI	GATC	1 cut(s)	442
BssSI	CACGAG	1 cut(s)	192
BssT1I	CCWWGG	1 cut(s)	95
Bst2BI	CACGAG	1 cut(s)	192
Bst2UI	CCWGG	1 cut(s)	542
Bst4CI	ACNGT	1 cut(s)	454
BstC8I	GCNNGC	1 cut(s)	475
BstDEI	CTNAG	3 cut(s)	239, 327, 492
BstDSI	CCRYGG	1 cut(s)	95
BstENI	CCTNNNNNAGG	1 cut(s)	402
BstKTI	GATC	1 cut(s)	445
BstMAI	GTCTC	1 cut(s)	330
BstMBI	GATC	1 cut(s)	442
BstMWI	GCNNNNNNNGC	1 cut(s)	230
BstNI	CCWGG	1 cut(s)	542
BstSCI	CCNGG	1 cut(s)	540
BstV1I	GCAGC	1 cut(s)	496
BstX2I	RGATCY	1 cut(s)	442
BstXI	CCANNNNNNTGG	1 cut(s)	194
BstYI	RGATCY	1 cut(s)	442
BsuRI	GGCC	2 cut(s)	186, 539
BtgI	CCRYGG	1 cut(s)	95
BtgZI	GCGATG	1 cut(s)	321
Cac8I	GCNNGC	1 cut(s)	475
Cfr13I	GGNCC	1 cut(s)	538
Csp6I	GTAC	2 cut(s)	30, 315
CviAII	CATG	3 cut(s)	51, 96, 466
CviJI	RGCY	8 cut(s)	186, 224, 238, 254, 386, 509, 526, 539
CviKI_1	RGCY	8 cut(s)	186, 224, 238, 254, 386, 509, 526, 539
CviQI	GTAC	2 cut(s)	30, 315
DdeI	CTNAG	3 cut(s)	239, 327, 492
DpnI	GATC	1 cut(s)	444
DpnII	GATC	1 cut(s)	442
EaeI	YGGCCR	1 cut(s)	184
Eco130I	CCWWGG	1 cut(s)	95
Eco24I	GRGCYC	1 cut(s)	528
Eco57I	CTGAAG	1 cut(s)	246
EcoNI	CCTNNNNNAGG	1 cut(s)	402
EcoRII	CCWGG	1 cut(s)	540
EcoT14I	CCWWGG	1 cut(s)	95
EcoT38I	GRGCYC	1 cut(s)	528
ErhI	CCWWGG	1 cut(s)	95
FaeI	CATG	3 cut(s)	54, 99, 469
FatI	CATG	3 cut(s)	50, 95, 465
Fnu4HI	GCNGC	1 cut(s)	510
FriOI	GRGCYC	1 cut(s)	528
Fsp4HI	GCNGC	1 cut(s)	510
FspBI	CTAG	1 cut(s)	500
GluI	GCNGC	1 cut(s)	510
GsuI	CTGGAG	1 cut(s)	276
HaeIII	GGCC	2 cut(s)	186, 539
Hin1II	CATG	3 cut(s)	54, 99, 469
HincII	GTYRAC	1 cut(s)	180
HindII	GTYRAC	1 cut(s)	180
Hpy166II	GTNNAC	2 cut(s)	180, 298
Hpy188I	TCNGA	1 cut(s)	330
Hpy188III	TCNNGA	2 cut(s)	258, 572
Hpy8I	GTNNAC	2 cut(s)	180, 298
HpyAV	CCTTC	2 cut(s)	163, 529
HpyCH4III	ACNGT	1 cut(s)	454
HpyCH4V	TGCA	3 cut(s)	279, 356, 473
HpyF10VI	GCNNNNNNNGC	1 cut(s)	230
HpyF3I	CTNAG	3 cut(s)	239, 327, 492
Hsp92II	CATG	3 cut(s)	54, 99, 469
Kzo9I	GATC	1 cut(s)	442
LmnI	GCTCC	1 cut(s)	172
Lsp1109I	GCAGC	1 cut(s)	496
LweI	GCATC	3 cut(s)	220, 227, 282
MaeI	CTAG	1 cut(s)	500
MaeIII	GTNAC	2 cut(s)	413, 487
MalI	GATC	1 cut(s)	444
MbiI	CCGCTC	1 cut(s)	175
MboI	GATC	1 cut(s)	442
MboII	GAAGA	5 cut(s)	50, 239, 273, 361, 377
MflI	RGATCY	1 cut(s)	442
MhlI	GDGCHC	1 cut(s)	528
MlsI	TGGCCA	1 cut(s)	186
MluCI	AATT	3 cut(s)	146, 379, 392
MluNI	TGGCCA	1 cut(s)	186
MnlI	CCTC	2 cut(s)	65, 145
Mox20I	TGGCCA	1 cut(s)	186
MscI	TGGCCA	1 cut(s)	186
Msp20I	TGGCCA	1 cut(s)	186
MspA1I	CMGCKG	2 cut(s)	224, 509
MspR9I	CCNGG	1 cut(s)	542
Mva1269I	GAATGC	3 cut(s)	17, 90, 358
MvaI	CCWGG	1 cut(s)	542
MwoI	GCNNNNNNNGC	1 cut(s)	230
NcoI	CCATGG	1 cut(s)	95
NdeII	GATC	1 cut(s)	442
NlaIII	CATG	3 cut(s)	54, 99, 469
PctI	GAATGC	3 cut(s)	17, 90, 358
PkrI	GCNGC	1 cut(s)	511
PsiI	TTATAA	1 cut(s)	390
Psp6I	CCWGG	1 cut(s)	540
PspGI	CCWGG	1 cut(s)	540
PspPI	GGNCC	1 cut(s)	538
PsuI	RGATCY	1 cut(s)	442
PvuII	CAGCTG	2 cut(s)	224, 509
RsaI	GTAC	2 cut(s)	31, 316
RsaNI	GTAC	2 cut(s)	30, 315
SatI	GCNGC	1 cut(s)	510
Sau3AI	GATC	1 cut(s)	442
Sau96I	GGNCC	1 cut(s)	538
ScaI	AGTACT	2 cut(s)	31, 316
ScrFI	CCNGG	1 cut(s)	542
SduI	GDGCHC	1 cut(s)	528
SetI	ASST	7 cut(s)	75, 84, 226, 240, 256, 505, 511
SfaNI	GCATC	3 cut(s)	220, 227, 282
Sse9I	AATT	3 cut(s)	146, 379, 392
SsiI	CCGC	1 cut(s)	175
SspMI	CTAG	1 cut(s)	500
StyD4I	CCNGG	1 cut(s)	540
StyI	CCWWGG	1 cut(s)	95
TaaI	ACNGT	1 cut(s)	454
TasI	AATT	3 cut(s)	146, 379, 392
TatI	WGTACW	2 cut(s)	29, 314
TseI	GCWGC	1 cut(s)	509
TspDTI	ATGAA	3 cut(s)	39, 182, 569
XagI	CCTNNNNNAGG	1 cut(s)	402
XapI	RAATTY	1 cut(s)	379
XspI	CTAG	1 cut(s)	500
ZrmI	AGTACT	2 cut(s)	31, 316

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