Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0005574

Physical Location & Seq

Genomic Coordinates Reverse (-)

2122917 .. 2123703

Gene Structure 787 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG030600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 474 bp

ATGCAGCTTCATATCAGAGTTCTCCAGATTGCAAAGAATGAGACCGATCCCAATATTACAACTATATTTGTTGGAAATCTGGATGCCAACGTTACTGATGATCATTTGAGAACAGTTTTTAGCCAGTATGGTGAGCTAGTTCATGTTAAGATACCAGCAGGCAAGCGATGTGGGTTTGTTCAGTTCGCAGACAGGAGCCGTGCTGAAGAGGCTTTGCAAGGATTAAATAATTCTCAGATTGGTGGACAAAATATCCGACTTTCTTGGGGTCGCAGTCCTTCAAACAAGCAGCAGGCTCAAGCAGATCCAAACCAATGGAATGCTGGCTATTATGGATATGCACCAACCCCCGAGGGATATGGATATGCCCAAGTATCCCAAGACCCTAACATGTACTATGGAGGGTATCCTGCTGGATATGGCAATTACCAGCAGTCACAGCAGCAACAGCAGCAGCAAGTGCGTTATAGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000302 GO:0001101 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006950 GO:0006979 GO:0008143 GO:0008150 GO:0009719 GO:0009725 GO:0009735 GO:0010033 GO:0010035 GO:0010193 GO:0042221 GO:0042493 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0046677 GO:0050896 GO:0070717 GO:0097159 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

157

Amino Acids

17.64

Weight (kDa)

6.82

Isoelectric Point (pI)

58.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_occluded	PF16842	21 - 87	6.6e-07	Occluded RNA-recognition motif
RRM_1	PF00076	22 - 86	2.4e-17	RNA recognition motif
RRM_5	PF13893	22 - 92	6.9e-07	RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0005574)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11650 AT1G11650
fragaria_vesca	FvH4_3g02320
malus_domestica	MD10G1319600.v1.1
prunus_persica	Prupe.4G022900_v2.0.a1 Prupe.4G022900_v2.0.a1
pyrus_communis	pycom10g27050
rosa_chinensis	RchiOBHm_Chr5g0003511 RchiOBHm_Chr5g0003531
rosa_laevigata	RLG00000015982 RLG00000031149
rosa_multiflora	Rmu_sc0004279.1_g000010 Rmu_sc0004279.1_g000022 Rmu_sc0009787.1_g000004 Rmu_sc0009787.1_g000007
rosa_roxburghii	Rroxscaffold_1G00072430
rosa_rugosa	Rorug01G0486600 Rorug04G0403900
rosa_samantha	Rh2AG042000 Rh2CG041400 Rh2DG041000 Rh5AG030600 Rh5AG031000 Rh5BG030100 Rh5CG033500 Rh5DG030700
rosa_wichuraiana	Rw5G002850 Rw5G002890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclI	AACGTT	1 cut(s)	90
AclWI	GGATC	2 cut(s)	41, 299
AcuI	CTGAAG	1 cut(s)	225
AfaI	GTAC	1 cut(s)	395
AflIII	ACRYGT	1 cut(s)	390
AgsI	TTSAA	1 cut(s)	282
AluBI	AGCT	2 cut(s)	7, 136
AluI	AGCT	2 cut(s)	7, 136
Alw26I	GTCTC	1 cut(s)	35
AlwI	GGATC	2 cut(s)	41, 299
Ama87I	CYCGRG	1 cut(s)	350
ApeKI	GCWGC	5 cut(s)	4, 289, 442, 451, 454
AsuHPI	GGTGA	1 cut(s)	143
AvaI	CYCGRG	1 cut(s)	350
BbvI	GCAGC	5 cut(s)	16, 301, 454, 463, 466
BceAI	ACGGC	1 cut(s)	183
BciVI	GTATCC	2 cut(s)	385, 417
BclI	TGATCA	1 cut(s)	100
BcoDI	GTCTC	1 cut(s)	35
BfaI	CTAG	1 cut(s)	137
BfuI	GTATCC	2 cut(s)	385, 417
BisI	GCNGC	5 cut(s)	5, 290, 443, 452, 455
BlsI	GCNGC	5 cut(s)	6, 291, 444, 453, 456
BmeT110I	CYCGRG	1 cut(s)	350
BmiI	GGNNCC	1 cut(s)	197
BmsI	GCATC	1 cut(s)	73
BpmI	CTGGAG	1 cut(s)	8
BpuEI	CTTGAG	1 cut(s)	282
BsaI	GGTCTC	1 cut(s)	35
BsaJI	CCNNGG	1 cut(s)	351
Bse1I	ACTGG	1 cut(s)	124
BseDI	CCNNGG	1 cut(s)	351
BseGI	GGATG	1 cut(s)	88
BseMII	CTCAG	1 cut(s)	248
BseNI	ACTGG	1 cut(s)	124
BseXI	GCAGC	5 cut(s)	16, 301, 454, 463, 466
BsiHKCI	CYCGRG	1 cut(s)	350
BsmAI	GTCTC	1 cut(s)	35
BsmI	GAATGC	1 cut(s)	325
Bso31I	GGTCTC	1 cut(s)	35
BsoBI	CYCGRG	1 cut(s)	350
Bsp143I	GATC	3 cut(s)	46, 100, 304
BspCNI	CTCAG	1 cut(s)	247
BspLI	GGNNCC	1 cut(s)	197
BspPI	GGATC	2 cut(s)	41, 299
BspTNI	GGTCTC	1 cut(s)	35
BsrI	ACTGG	1 cut(s)	124
BssECI	CCNNGG	1 cut(s)	351
BssMI	GATC	3 cut(s)	46, 100, 304
Bst4CI	ACNGT	1 cut(s)	115
Bst6I	CTCTTC	1 cut(s)	201
BstAPI	GCANNNNNTGC	1 cut(s)	460
BstC8I	GCNNGC	4 cut(s)	160, 164, 294, 325
BstDEI	CTNAG	1 cut(s)	234
BstF5I	GGATG	1 cut(s)	88
BstKTI	GATC	3 cut(s)	49, 103, 307
BstMAI	GTCTC	1 cut(s)	35
BstMBI	GATC	3 cut(s)	46, 100, 304
BstMWI	GCNNNNNNNGC	5 cut(s)	209, 439, 448, 451, 460
BstNSI	RCATGY	1 cut(s)	394
BstV1I	GCAGC	5 cut(s)	16, 301, 454, 463, 466
BstX2I	RGATCY	1 cut(s)	304
BstXI	CCANNNNNNTGG	1 cut(s)	315
BstYI	RGATCY	1 cut(s)	304
BsuI	GTATCC	2 cut(s)	385, 417
BtgZI	GCGATG	1 cut(s)	181
BtsCI	GGATG	1 cut(s)	88
Cac8I	GCNNGC	4 cut(s)	160, 164, 294, 325
Csp6I	GTAC	1 cut(s)	394
CspCI	CAANNNNNGTGG	2 cut(s)	151, 186
CviAII	CATG	2 cut(s)	143, 391
CviJI	RGCY	7 cut(s)	7, 123, 136, 198, 212, 296, 327
CviKI_1	RGCY	7 cut(s)	7, 123, 136, 198, 212, 296, 327
CviQI	GTAC	1 cut(s)	394
DdeI	CTNAG	1 cut(s)	234
DpnI	GATC	3 cut(s)	48, 102, 306
DpnII	GATC	3 cut(s)	46, 100, 304
Eam1104I	CTCTTC	1 cut(s)	201
EarI	CTCTTC	1 cut(s)	201
Eco31I	GGTCTC	1 cut(s)	35
Eco57I	CTGAAG	1 cut(s)	225
Eco88I	CYCGRG	1 cut(s)	350
FaeI	CATG	2 cut(s)	146, 394
FatI	CATG	2 cut(s)	142, 390
FbaI	TGATCA	1 cut(s)	100
Fnu4HI	GCNGC	5 cut(s)	5, 290, 443, 452, 455
FokI	GGATG	1 cut(s)	95
Fsp4HI	GCNGC	5 cut(s)	5, 290, 443, 452, 455
FspBI	CTAG	1 cut(s)	137
GluI	GCNGC	5 cut(s)	5, 290, 443, 452, 455
GsuI	CTGGAG	1 cut(s)	8
Hin1II	CATG	2 cut(s)	146, 394
HphI	GGTGA	1 cut(s)	143
Hpy166II	GTNNAC	1 cut(s)	245
Hpy188I	TCNGA	3 cut(s)	17, 237, 257
Hpy188III	TCNNGA	2 cut(s)	25, 80
Hpy8I	GTNNAC	1 cut(s)	245
HpyAV	CCTTC	1 cut(s)	288
HpyCH4III	ACNGT	1 cut(s)	115
HpyCH4IV	ACGT	1 cut(s)	90
HpyCH4V	TGCA	4 cut(s)	4, 32, 217, 341
HpyF10VI	GCNNNNNNNGC	5 cut(s)	209, 439, 448, 451, 460
HpyF3I	CTNAG	1 cut(s)	234
HpySE526I	ACGT	1 cut(s)	90
Hsp92II	CATG	2 cut(s)	146, 394
Ksp22I	TGATCA	1 cut(s)	100
Kzo9I	GATC	3 cut(s)	46, 100, 304
LmnI	GCTCC	1 cut(s)	195
Lsp1109I	GCAGC	5 cut(s)	16, 301, 454, 463, 466
LweI	GCATC	1 cut(s)	73
MaeI	CTAG	1 cut(s)	137
MaeII	ACGT	1 cut(s)	90
MaeIII	GTNAC	2 cut(s)	91, 435
MalI	GATC	3 cut(s)	48, 102, 306
MboI	GATC	3 cut(s)	46, 100, 304
MboII	GAAGA	1 cut(s)	218
MflI	RGATCY	1 cut(s)	304
MluCI	AATT	2 cut(s)	229, 424
MmeI	TCCRAC	2 cut(s)	52, 280
MnlI	CCTC	3 cut(s)	202, 346, 395
MseI	TTAA	2 cut(s)	147, 224
Mva1269I	GAATGC	1 cut(s)	325
MwoI	GCNNNNNNNGC	5 cut(s)	209, 439, 448, 451, 460
NdeII	GATC	3 cut(s)	46, 100, 304
NlaIII	CATG	2 cut(s)	146, 394
NlaIV	GGNNCC	1 cut(s)	197
NmuCI	GTSAC	1 cut(s)	435
NspI	RCATGY	1 cut(s)	394
PciI	ACATGT	1 cut(s)	390
PctI	GAATGC	1 cut(s)	325
PkrI	GCNGC	5 cut(s)	6, 291, 444, 453, 456
PscI	ACATGT	1 cut(s)	390
Psp1406I	AACGTT	1 cut(s)	90
PspN4I	GGNNCC	1 cut(s)	197
PsuI	RGATCY	1 cut(s)	304
RsaI	GTAC	1 cut(s)	395
RsaNI	GTAC	1 cut(s)	394
SaqAI	TTAA	2 cut(s)	147, 224
SatI	GCNGC	5 cut(s)	5, 290, 443, 452, 455
Sau3AI	GATC	3 cut(s)	46, 100, 304
SetI	ASST	3 cut(s)	9, 93, 138
SfaNI	GCATC	1 cut(s)	73
SmlI	CTYRAG	1 cut(s)	297
SmoI	CTYRAG	1 cut(s)	297
Sse9I	AATT	2 cut(s)	229, 424
SspI	AATATT	1 cut(s)	55
SspMI	CTAG	1 cut(s)	137
TaaI	ACNGT	1 cut(s)	115
TaiI	ACGT	1 cut(s)	93
TaqII	GACCGA	1 cut(s)	59
TasI	AATT	2 cut(s)	229, 424
TatI	WGTACW	1 cut(s)	393
Tru1I	TTAA	2 cut(s)	147, 224
Tru9I	TTAA	2 cut(s)	147, 224
TseFI	GTSAC	1 cut(s)	435
TseI	GCWGC	5 cut(s)	4, 289, 442, 451, 454
Tsp45I	GTSAC	1 cut(s)	435
TspDTI	ATGAA	1 cut(s)	131
XceI	RCATGY	1 cut(s)	394
XcmI	CCANNNNNNNNNTGG	1 cut(s)	320
XspI	CTAG	1 cut(s)	137

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