Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0011799

Physical Location & Seq

Genomic Coordinates Reverse (-)

56682671 .. 56685974

Gene Structure 3304 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG422100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 483 bp

ATGAGTTTCGCATGTTCGGCGTTCTTCGCAGGTCGTTTTTTTCTTTTCTTCCAACTGAATTGGCTTGATAGTTTTGGACAAAATTTTGATGTTGATGTTGATGTTGGTTTGGATGGCAGTGTGTGGGTTGCTCGGAGGCCACCGGGATATGCCTTTGTTGAATTTGATGATCACAGGGATGCTCTTGATGCAATTCAGAGATTGGATGGAAAAAATGGTTGGCGTGTGGAGCTGTCCCATAACTCTAAGGGTGGTGGTGGTGGTGGTGGTGGTGGAGGCCGTGGCGGGCGTGGTGGAGGTGACGACTTGAAGTGTTATGAATGTGGTGAACCTGGTCACTTTGCTCGAGAGTGTCGTATGCGTGTTGGTTCACGAGGATTGGGTAGCGGAAGGCGCAGAAGTCCTTCCCCTCCTCGACGCGGCCGCAGAAGTCCCAGTTACGATGGTTATGGGCATGGGCGCAGGTGCGATGAATGCTTTTGA

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

160

Amino Acids

17.51

Weight (kDa)

8.86

Isoelectric Point (pI)

72.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	45 - 71	8.3e-07	RNA recognition motif
zf-CCHC	PF00098	104 - 119	1e-07	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

Tree File

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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)	453
Acc36I	ACCTGC	2 cut(s)	20, 453
AccII	CGCG	1 cut(s)	420
AciI	CCGC	4 cut(s)	285, 387, 420, 424
AcoI	YGGCCR	1 cut(s)	421
AcsI	RAATTY	2 cut(s)	82, 161
AfiI	CCNNNNNNNGG	1 cut(s)	419
AgsI	TTSAA	2 cut(s)	161, 310
AjnI	CCWGG	1 cut(s)	331
AjuI	GAANNNNNNNTTGG	2 cut(s)	202, 234
AluBI	AGCT	1 cut(s)	232
AluI	AGCT	1 cut(s)	232
Ama87I	CYCGRG	1 cut(s)	345
AoxI	GGCC	3 cut(s)	137, 277, 421
ApoI	RAATTY	2 cut(s)	82, 161
Asp700I	GAANNNNTTC	1 cut(s)	403
AspLEI	GCGC	2 cut(s)	396, 462
AsuC2I	CCSGG	1 cut(s)	144
AsuHPI	GGTGA	2 cut(s)	311, 338
AvaI	CYCGRG	1 cut(s)	345
BauI	CACGAG	1 cut(s)	372
BccI	CCATC	3 cut(s)	107, 200, 437
BceAI	ACGGC	1 cut(s)	264
BciT130I	CCWGG	1 cut(s)	333
BclI	TGATCA	1 cut(s)	169
BcnI	CCSGG	1 cut(s)	144
BfuAI	ACCTGC	2 cut(s)	20, 453
BisI	GCNGC	2 cut(s)	421, 424
BlsI	GCNGC	2 cut(s)	422, 425
Bme1390I	CCNGG	2 cut(s)	144, 333
BmeT110I	CYCGRG	1 cut(s)	345
BmrFI	CCNGG	2 cut(s)	144, 333
BmrI	ACTGGG	1 cut(s)	429
BmsI	GCATC	2 cut(s)	169, 178
BmuI	ACTGGG	1 cut(s)	429
BpuMI	CCSGG	1 cut(s)	144
BsaJI	CCNNGG	1 cut(s)	280
Bsc4I	CCNNNNNNNGG	1 cut(s)	419
Bse1I	ACTGG	1 cut(s)	435
BseBI	CCWGG	1 cut(s)	333
BseDI	CCNNGG	1 cut(s)	280
BseGI	GGATG	3 cut(s)	118, 184, 211
BseLI	CCNNNNNNNGG	1 cut(s)	419
BseNI	ACTGG	1 cut(s)	435
BseRI	GAGGAG	1 cut(s)	402
BseX3I	CGGCCG	1 cut(s)	421
Bsh1236I	CGCG	1 cut(s)	420
Bsh1285I	CGRYCG	1 cut(s)	424
BshFI	GGCC	3 cut(s)	139, 279, 423
BsiEI	CGRYCG	1 cut(s)	424
BsiHKCI	CYCGRG	1 cut(s)	345
BsiSI	CCGG	1 cut(s)	143
BslFI	GGGAC	2 cut(s)	220, 417
BslI	CCNNNNNNNGG	1 cut(s)	419
BsmFI	GGGAC	2 cut(s)	220, 417
BsmI	GAATGC	1 cut(s)	479
BsnI	GGCC	3 cut(s)	139, 279, 423
BsoBI	CYCGRG	1 cut(s)	345
Bsp143I	GATC	1 cut(s)	169
BspACI	CCGC	4 cut(s)	285, 387, 420, 424
BspANI	GGCC	3 cut(s)	139, 279, 423
BspFNI	CGCG	1 cut(s)	420
BspMI	ACCTGC	2 cut(s)	20, 453
BsrI	ACTGG	1 cut(s)	435
BssECI	CCNNGG	1 cut(s)	280
BssMI	GATC	1 cut(s)	169
BssSI	CACGAG	1 cut(s)	372
Bst2BI	CACGAG	1 cut(s)	372
Bst2UI	CCWGG	1 cut(s)	333
BstC8I	GCNNGC	1 cut(s)	287
BstDEI	CTNAG	1 cut(s)	246
BstDSI	CCRYGG	1 cut(s)	280
BstF5I	GGATG	3 cut(s)	118, 184, 211
BstFNI	CGCG	1 cut(s)	420
BstHHI	GCGC	2 cut(s)	396, 462
BstKTI	GATC	1 cut(s)	172
BstMBI	GATC	1 cut(s)	169
BstMCI	CGRYCG	1 cut(s)	424
BstMWI	GCNNNNNNNGC	6 cut(s)	17, 26, 188, 229, 393, 474
BstNI	CCWGG	1 cut(s)	333
BstNSI	RCATGY	1 cut(s)	15
BstSCI	CCNGG	2 cut(s)	142, 331
BstUI	CGCG	1 cut(s)	420
BstZI	CGGCCG	1 cut(s)	421
BsuRI	GGCC	3 cut(s)	139, 279, 423
BtgI	CCRYGG	1 cut(s)	280
BtsCI	GGATG	3 cut(s)	118, 184, 211
BtsI	GCAGTG	1 cut(s)	124
BtsIMutI	CAGTG	1 cut(s)	124
BveI	ACCTGC	2 cut(s)	20, 453
Cac8I	GCNNGC	1 cut(s)	287
CciNI	GCGGCCGC	1 cut(s)	421
CfoI	GCGC	2 cut(s)	396, 462
CseI	GACGC	1 cut(s)	426
CsiI	ACCWGGT	1 cut(s)	331
CviAII	CATG	2 cut(s)	12, 455
CviJI	RGCY	5 cut(s)	64, 139, 232, 279, 423
CviKI_1	RGCY	5 cut(s)	64, 139, 232, 279, 423
DdeI	CTNAG	1 cut(s)	246
DpnI	GATC	1 cut(s)	171
DpnII	GATC	1 cut(s)	169
EaeI	YGGCCR	1 cut(s)	421
EagI	CGGCCG	1 cut(s)	421
EclXI	CGGCCG	1 cut(s)	421
Eco52I	CGGCCG	1 cut(s)	421
Eco88I	CYCGRG	1 cut(s)	345
EcoRII	CCWGG	1 cut(s)	331
FaeI	CATG	2 cut(s)	15, 458
FaiI	YATR	7 cut(s)	13, 150, 240, 318, 359, 450, 456
FaqI	GGGAC	2 cut(s)	220, 417
FatI	CATG	2 cut(s)	11, 454
FauI	CCCGC	1 cut(s)	278
FbaI	TGATCA	1 cut(s)	169
Fnu4HI	GCNGC	2 cut(s)	421, 424
FokI	GGATG	3 cut(s)	125, 191, 218
Fsp4HI	GCNGC	2 cut(s)	421, 424
GlaI	GCGC	2 cut(s)	395, 461
GluI	GCNGC	2 cut(s)	421, 424
HaeIII	GGCC	3 cut(s)	139, 279, 423
HapII	CCGG	1 cut(s)	143
HgaI	GACGC	1 cut(s)	426
HhaI	GCGC	2 cut(s)	396, 462
Hin1II	CATG	2 cut(s)	15, 458
Hin6I	GCGC	2 cut(s)	394, 460
HinP1I	GCGC	2 cut(s)	394, 460
HpaII	CCGG	1 cut(s)	143
HphI	GGTGA	2 cut(s)	311, 338
Hpy166II	GTNNAC	2 cut(s)	329, 371
Hpy188I	TCNGA	2 cut(s)	135, 198
Hpy188III	TCNNGA	3 cut(s)	185, 347, 372
Hpy8I	GTNNAC	2 cut(s)	329, 371
Hpy99I	CGWCG	1 cut(s)	420
HpyAV	CCTTC	2 cut(s)	384, 414
HpyCH4V	TGCA	1 cut(s)	191
HpyF10VI	GCNNNNNNNGC	6 cut(s)	17, 26, 188, 229, 393, 474
HpyF3I	CTNAG	1 cut(s)	246
Hsp92II	CATG	2 cut(s)	15, 458
HspAI	GCGC	2 cut(s)	394, 460
Ksp22I	TGATCA	1 cut(s)	169
Kzo9I	GATC	1 cut(s)	169
LmnI	GCTCC	1 cut(s)	229
LpnPI	CCDG	7 cut(s)	15, 156, 160, 318, 345, 448, 448
LweI	GCATC	2 cut(s)	169, 178
MabI	ACCWGGT	1 cut(s)	331
MaeIII	GTNAC	3 cut(s)	299, 335, 437
MalI	GATC	1 cut(s)	171
MboI	GATC	1 cut(s)	169
MboII	GAAGA	2 cut(s)	16, 40
MluCI	AATT	4 cut(s)	58, 82, 161, 192
MmeI	TCCRAC	1 cut(s)	76
MnlI	CCTC	6 cut(s)	129, 269, 290, 368, 420, 423
MroXI	GAANNNNTTC	1 cut(s)	403
MslI	CAYNNNNRTG	1 cut(s)	177
MspI	CCGG	1 cut(s)	143
MspR9I	CCNGG	2 cut(s)	144, 333
Mva1269I	GAATGC	1 cut(s)	479
MvaI	CCWGG	1 cut(s)	333
MvnI	CGCG	1 cut(s)	420
MwoI	GCNNNNNNNGC	6 cut(s)	17, 26, 188, 229, 393, 474
NciI	CCSGG	1 cut(s)	144
NdeII	GATC	1 cut(s)	169
NlaIII	CATG	2 cut(s)	15, 458
NmuCI	GTSAC	2 cut(s)	299, 335
NotI	GCGGCCGC	1 cut(s)	421
NspI	RCATGY	1 cut(s)	15
PaeR7I	CTCGAG	1 cut(s)	345
PaqCI	CACCTGC	1 cut(s)	453
PcsI	WCGNNNNNNNCGW	1 cut(s)	352
PctI	GAATGC	1 cut(s)	479
PdmI	GAANNNNTTC	1 cut(s)	403
PkrI	GCNGC	2 cut(s)	422, 425
Psp6I	CCWGG	1 cut(s)	331
PspGI	CCWGG	1 cut(s)	331
RseI	CAYNNNNRTG	1 cut(s)	177
SatI	GCNGC	2 cut(s)	421, 424
Sau3AI	GATC	1 cut(s)	169
ScrFI	CCNGG	2 cut(s)	144, 333
SetI	ASST	5 cut(s)	34, 234, 301, 334, 467
SexAI	ACCWGGT	1 cut(s)	331
SfaNI	GCATC	2 cut(s)	169, 178
Sfr274I	CTCGAG	1 cut(s)	345
SlaI	CTCGAG	1 cut(s)	345
SmiMI	CAYNNNNRTG	1 cut(s)	177
SmlI	CTYRAG	1 cut(s)	345
SmoI	CTYRAG	1 cut(s)	345
Sse9I	AATT	4 cut(s)	58, 82, 161, 192
SsiI	CCGC	4 cut(s)	285, 387, 420, 424
StyD4I	CCNGG	2 cut(s)	142, 331
TaqI	TCGA	2 cut(s)	346, 415
TasI	AATT	4 cut(s)	58, 82, 161, 192
TauI	GCSGC	2 cut(s)	423, 426
TscAI	CASTG	1 cut(s)	124
TseFI	GTSAC	2 cut(s)	299, 335
Tsp45I	GTSAC	2 cut(s)	299, 335
TspDTI	ATGAA	1 cut(s)	333
TspRI	CASTG	1 cut(s)	124
XapI	RAATTY	2 cut(s)	82, 161
XceI	RCATGY	1 cut(s)	15
XhoI	CTCGAG	1 cut(s)	345
XmnI	GAANNNNTTC	1 cut(s)	403

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