Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0011799

Physical Location & Seq

Genomic Coordinates Reverse (-)

70990890 .. 70994193

Gene Structure 3304 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG410700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 453 bp

ATGACTCGCGTTTACGTTGGGAACTTGGATCCTCGAGTGAGTGATAGGGATCTTGAAGATGAGTTTCGCATGTTCGGCGTTCTTCGCAGTGTGTGGGTTGCTCGGAGGCCACCGGGATATGCCTTTGTTGAATTTGATGATCACAGGGATGCTCTTGATGCAATTCAGAGATTGGATGGAAAAAATGGTTGGCGTGTGGAGCTGTCCCATAACTCTAAGGGTGGTGGTGGTGGTGGTGGTGGTGGAGGCCGTGGCGGGCGTGGTGGAGGTGACGACTTGAAGTGTTATGAATGTGGTGAACCTGGTCACTTTGCTCGAGAGTGTCGTATGCGTGTTGGTTCACGAGGATTGGGTAGCGGAAGGCGCAGAAGTCCTTCCCCTCCTCGACGCGGCCGCAGAAGTCCCAGTTACGATGGTTATGGGCATGGGCGCAGGTGCGATGAATGCTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 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:0010629 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0019904 GO:0031323 GO:0031324 GO:0031974 GO:0031981 GO:0033119 GO:0034097 GO:0034641 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043484 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045934 GO:0046483 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070887 GO:0071310 GO:0071345 GO:0071704 GO:0080090 GO:0090304 GO:1901360 GO:1903311 GO:1903312 GO:1990823 GO:1990830

KEGG Pathways

Metabolic & Signaling

ko03040 ko05168 map03040 map05168

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

150

Amino Acids

16.56

Weight (kDa)

9.54

Isoelectric Point (pI)

74.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	4 - 61	2.2e-16	RNA recognition motif
zf-CCHC	PF00098	94 - 109	9.5e-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

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Publication-ready

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Orthologous Genes (Group: OG0011799)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23860 AT1G23860 AT1G23860 AT1G23860
fragaria_vesca	FvH4_4g34770
malus_domestica	MD13G1089900.v1.1 MD16G1090200.v1.1
prunus_persica	Prupe.1G255900_v2.0.a1 Prupe.1G255900_v2.0.a1
pyrus_communis	pycom13g07840 pycom16g07730
rosa_chinensis	RchiOBHm_Chr4g0444111
rosa_roxburghii	Rroxscaffold_5G00384700
rosa_rugosa	Rorug04G0349600 Rorug04G0349700
rosa_samantha	Rh4AG410700 Rh4BG422100 Rh4CG436500
rosa_wichuraiana	Rw4G035280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	423
Acc36I	ACCTGC	1 cut(s)	423
AccII	CGCG	2 cut(s)	9, 390
AciI	CCGC	4 cut(s)	255, 357, 390, 394
AclWI	GGATC	3 cut(s)	23, 36, 57
AcoI	YGGCCR	1 cut(s)	391
AcsI	RAATTY	1 cut(s)	131
AfiI	CCNNNNNNNGG	1 cut(s)	389
AgsI	TTSAA	3 cut(s)	56, 131, 280
AjnI	CCWGG	1 cut(s)	301
AjuI	GAANNNNNNNTTGG	2 cut(s)	172, 204
AluBI	AGCT	1 cut(s)	202
AluI	AGCT	1 cut(s)	202
AlwI	GGATC	3 cut(s)	23, 36, 57
Ama87I	CYCGRG	2 cut(s)	33, 315
AoxI	GGCC	3 cut(s)	107, 247, 391
ApoI	RAATTY	1 cut(s)	131
Asp700I	GAANNNNTTC	1 cut(s)	373
AspLEI	GCGC	2 cut(s)	366, 432
AsuC2I	CCSGG	1 cut(s)	114
AsuHPI	GGTGA	2 cut(s)	281, 308
AvaI	CYCGRG	2 cut(s)	33, 315
BamHI	GGATCC	1 cut(s)	28
BauI	CACGAG	1 cut(s)	342
BccI	CCATC	2 cut(s)	170, 407
BceAI	ACGGC	1 cut(s)	234
BciT130I	CCWGG	1 cut(s)	303
BclI	TGATCA	1 cut(s)	139
BcnI	CCSGG	1 cut(s)	114
BfuAI	ACCTGC	1 cut(s)	423
BisI	GCNGC	2 cut(s)	391, 394
BlsI	GCNGC	2 cut(s)	392, 395
Bme1390I	CCNGG	2 cut(s)	114, 303
BmeT110I	CYCGRG	2 cut(s)	33, 315
BmiI	GGNNCC	1 cut(s)	30
BmrFI	CCNGG	2 cut(s)	114, 303
BmrI	ACTGGG	1 cut(s)	399
BmsI	GCATC	2 cut(s)	139, 148
BmuI	ACTGGG	1 cut(s)	399
BpuMI	CCSGG	1 cut(s)	114
BsaBI	GATNNNNATC	1 cut(s)	48
BsaJI	CCNNGG	1 cut(s)	250
Bsc4I	CCNNNNNNNGG	1 cut(s)	389
Bse1I	ACTGG	1 cut(s)	405
Bse8I	GATNNNNATC	1 cut(s)	48
BseBI	CCWGG	1 cut(s)	303
BseDI	CCNNGG	1 cut(s)	250
BseGI	GGATG	2 cut(s)	154, 181
BseJI	GATNNNNATC	1 cut(s)	48
BseLI	CCNNNNNNNGG	1 cut(s)	389
BseNI	ACTGG	1 cut(s)	405
BseRI	GAGGAG	1 cut(s)	372
BseX3I	CGGCCG	1 cut(s)	391
Bsh1236I	CGCG	2 cut(s)	9, 390
Bsh1285I	CGRYCG	1 cut(s)	394
BshFI	GGCC	3 cut(s)	109, 249, 393
BsiEI	CGRYCG	1 cut(s)	394
BsiHKCI	CYCGRG	2 cut(s)	33, 315
BsiSI	CCGG	1 cut(s)	113
BslFI	GGGAC	2 cut(s)	190, 387
BslI	CCNNNNNNNGG	1 cut(s)	389
BsmFI	GGGAC	2 cut(s)	190, 387
BsmI	GAATGC	1 cut(s)	449
BsnI	GGCC	3 cut(s)	109, 249, 393
BsoBI	CYCGRG	2 cut(s)	33, 315
Bsp143I	GATC	3 cut(s)	28, 49, 139
BspACI	CCGC	4 cut(s)	255, 357, 390, 394
BspANI	GGCC	3 cut(s)	109, 249, 393
BspFNI	CGCG	2 cut(s)	9, 390
BspLI	GGNNCC	1 cut(s)	30
BspMI	ACCTGC	1 cut(s)	423
BspPI	GGATC	3 cut(s)	23, 36, 57
BsrI	ACTGG	1 cut(s)	405
BssECI	CCNNGG	1 cut(s)	250
BssMI	GATC	3 cut(s)	28, 49, 139
BssSI	CACGAG	1 cut(s)	342
Bst2BI	CACGAG	1 cut(s)	342
Bst2UI	CCWGG	1 cut(s)	303
BstC8I	GCNNGC	1 cut(s)	257
BstDEI	CTNAG	1 cut(s)	216
BstDSI	CCRYGG	1 cut(s)	250
BstF5I	GGATG	2 cut(s)	154, 181
BstFNI	CGCG	2 cut(s)	9, 390
BstHHI	GCGC	2 cut(s)	366, 432
BstKTI	GATC	3 cut(s)	31, 52, 142
BstMBI	GATC	3 cut(s)	28, 49, 139
BstMCI	CGRYCG	1 cut(s)	394
BstMWI	GCNNNNNNNGC	6 cut(s)	75, 84, 158, 199, 363, 444
BstNI	CCWGG	1 cut(s)	303
BstNSI	RCATGY	1 cut(s)	73
BstSCI	CCNGG	2 cut(s)	112, 301
BstUI	CGCG	2 cut(s)	9, 390
BstX2I	RGATCY	2 cut(s)	28, 49
BstYI	RGATCY	2 cut(s)	28, 49
BstZI	CGGCCG	1 cut(s)	391
BsuRI	GGCC	3 cut(s)	109, 249, 393
BtgI	CCRYGG	1 cut(s)	250
BtsCI	GGATG	2 cut(s)	154, 181
BtsI	GCAGTG	1 cut(s)	94
BtsIMutI	CAGTG	1 cut(s)	94
BveI	ACCTGC	1 cut(s)	423
Cac8I	GCNNGC	1 cut(s)	257
CciNI	GCGGCCGC	1 cut(s)	391
CfoI	GCGC	2 cut(s)	366, 432
CseI	GACGC	1 cut(s)	396
CsiI	ACCWGGT	1 cut(s)	301
CviAII	CATG	2 cut(s)	70, 425
CviJI	RGCY	4 cut(s)	109, 202, 249, 393
CviKI_1	RGCY	4 cut(s)	109, 202, 249, 393
DdeI	CTNAG	1 cut(s)	216
DpnI	GATC	3 cut(s)	30, 51, 141
DpnII	GATC	3 cut(s)	28, 49, 139
EaeI	YGGCCR	1 cut(s)	391
EagI	CGGCCG	1 cut(s)	391
EclXI	CGGCCG	1 cut(s)	391
Eco52I	CGGCCG	1 cut(s)	391
Eco88I	CYCGRG	2 cut(s)	33, 315
EcoRII	CCWGG	1 cut(s)	301
FaeI	CATG	2 cut(s)	73, 428
FaiI	YATR	7 cut(s)	71, 120, 210, 288, 329, 420, 426
FaqI	GGGAC	2 cut(s)	190, 387
FatI	CATG	2 cut(s)	69, 424
FauI	CCCGC	1 cut(s)	248
FbaI	TGATCA	1 cut(s)	139
Fnu4HI	GCNGC	2 cut(s)	391, 394
FokI	GGATG	2 cut(s)	161, 188
Fsp4HI	GCNGC	2 cut(s)	391, 394
GlaI	GCGC	2 cut(s)	365, 431
GluI	GCNGC	2 cut(s)	391, 394
HaeIII	GGCC	3 cut(s)	109, 249, 393
HapII	CCGG	1 cut(s)	113
HgaI	GACGC	1 cut(s)	396
HhaI	GCGC	2 cut(s)	366, 432
Hin1II	CATG	2 cut(s)	73, 428
Hin6I	GCGC	2 cut(s)	364, 430
HinP1I	GCGC	2 cut(s)	364, 430
HinfI	GANTC	1 cut(s)	4
HpaII	CCGG	1 cut(s)	113
HphI	GGTGA	2 cut(s)	281, 308
Hpy166II	GTNNAC	3 cut(s)	13, 299, 341
Hpy188I	TCNGA	2 cut(s)	105, 168
Hpy188III	TCNNGA	4 cut(s)	53, 155, 317, 342
Hpy8I	GTNNAC	3 cut(s)	13, 299, 341
Hpy99I	CGWCG	1 cut(s)	390
HpyAV	CCTTC	2 cut(s)	354, 384
HpyCH4IV	ACGT	1 cut(s)	15
HpyCH4V	TGCA	1 cut(s)	161
HpyF10VI	GCNNNNNNNGC	6 cut(s)	75, 84, 158, 199, 363, 444
HpyF3I	CTNAG	1 cut(s)	216
HpySE526I	ACGT	1 cut(s)	15
Hsp92II	CATG	2 cut(s)	73, 428
HspAI	GCGC	2 cut(s)	364, 430
Ksp22I	TGATCA	1 cut(s)	139
Kzo9I	GATC	3 cut(s)	28, 49, 139
LmnI	GCTCC	1 cut(s)	199
LpnPI	CCDG	6 cut(s)	126, 130, 288, 315, 418, 418
LweI	GCATC	2 cut(s)	139, 148
MabI	ACCWGGT	1 cut(s)	301
MaeII	ACGT	1 cut(s)	15
MaeIII	GTNAC	3 cut(s)	269, 305, 407
MalI	GATC	3 cut(s)	30, 51, 141
MboI	GATC	3 cut(s)	28, 49, 139
MboII	GAAGA	2 cut(s)	68, 74
MflI	RGATCY	2 cut(s)	28, 49
MluCI	AATT	2 cut(s)	131, 162
MnlI	CCTC	7 cut(s)	42, 99, 239, 260, 338, 390, 393
MroXI	GAANNNNTTC	1 cut(s)	373
MslI	CAYNNNNRTG	1 cut(s)	147
MspI	CCGG	1 cut(s)	113
MspR9I	CCNGG	2 cut(s)	114, 303
Mva1269I	GAATGC	1 cut(s)	449
MvaI	CCWGG	1 cut(s)	303
MvnI	CGCG	2 cut(s)	9, 390
MwoI	GCNNNNNNNGC	6 cut(s)	75, 84, 158, 199, 363, 444
NciI	CCSGG	1 cut(s)	114
NdeII	GATC	3 cut(s)	28, 49, 139
NlaIII	CATG	2 cut(s)	73, 428
NlaIV	GGNNCC	1 cut(s)	30
NmuCI	GTSAC	2 cut(s)	269, 305
NotI	GCGGCCGC	1 cut(s)	391
NspI	RCATGY	1 cut(s)	73
PaeR7I	CTCGAG	2 cut(s)	33, 315
PaqCI	CACCTGC	1 cut(s)	423
PcsI	WCGNNNNNNNCGW	1 cut(s)	322
PctI	GAATGC	1 cut(s)	449
PdmI	GAANNNNTTC	1 cut(s)	373
PkrI	GCNGC	2 cut(s)	392, 395
Psp6I	CCWGG	1 cut(s)	301
PspGI	CCWGG	1 cut(s)	301
PspN4I	GGNNCC	1 cut(s)	30
PspXI	VCTCGAGB	1 cut(s)	33
PsuI	RGATCY	2 cut(s)	28, 49
RseI	CAYNNNNRTG	1 cut(s)	147
SatI	GCNGC	2 cut(s)	391, 394
Sau3AI	GATC	3 cut(s)	28, 49, 139
ScrFI	CCNGG	2 cut(s)	114, 303
SetI	ASST	5 cut(s)	18, 204, 271, 304, 437
SexAI	ACCWGGT	1 cut(s)	301
SfaNI	GCATC	2 cut(s)	139, 148
Sfr274I	CTCGAG	2 cut(s)	33, 315
SlaI	CTCGAG	2 cut(s)	33, 315
SmiMI	CAYNNNNRTG	1 cut(s)	147
SmlI	CTYRAG	2 cut(s)	33, 315
SmoI	CTYRAG	2 cut(s)	33, 315
Sse9I	AATT	2 cut(s)	131, 162
SsiI	CCGC	4 cut(s)	255, 357, 390, 394
StyD4I	CCNGG	2 cut(s)	112, 301
TaiI	ACGT	1 cut(s)	18
TaqI	TCGA	3 cut(s)	34, 316, 385
TasI	AATT	2 cut(s)	131, 162
TauI	GCSGC	2 cut(s)	393, 396
TscAI	CASTG	1 cut(s)	94
TseFI	GTSAC	2 cut(s)	269, 305
Tsp45I	GTSAC	2 cut(s)	269, 305
TspDTI	ATGAA	1 cut(s)	303
TspRI	CASTG	1 cut(s)	94
XapI	RAATTY	1 cut(s)	131
XceI	RCATGY	1 cut(s)	73
XhoI	CTCGAG	2 cut(s)	33, 315
XmnI	GAANNNNTTC	1 cut(s)	373

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