Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0002957

Physical Location & Seq

Genomic Coordinates Forward (+)

531870 .. 536220

Gene Structure 4351 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG002400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 480 bp

ATGGTAGACCTTGTAACTTCTCTTGCTTTCAGGATTGTTATAGAAGGGGATATTTTGGCTGTAAAGAAAGCACTTGTTGCTGTCTCCGGCCGTCTTCAAGATTGTCCACCAGTTGACAAGACAAGGATGACTGGAAGTAGGCCTATTGAGACAGTTCCTCGTGAAACTTTACCTGATATTCGTGTAGATCACCTTTCACAGAGGAACTCAGTGATTTCCAATTTGCCGAGCAGCTCCGTGAGTTATGCTTCAGGAGTTTGTCTGCCATCAATAGAGGCTGAAAGGATCTCAACACTGGATACAAGAACACTCCAGCAGGAAGTTACTTTTAAGATTCTTTGCGCCAATGATAGGGTTGGGGGTGTCATTGGAAAAGGGGGTGCCATTGTCAAGGCTCTTCAGAATGAGACTGGTGCTACTATAAGTGTTGGAGGATCTGTGGCCGAGTGTGATGAAAGATTAATTACTGTTACTGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0007275 GO:0008150 GO:0009791 GO:0009908 GO:0009909 GO:0009911 GO:0016604 GO:0016607 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045595 GO:0045596 GO:0048367 GO:0048437 GO:0048497 GO:0048518 GO:0048519 GO:0048523 GO:0048580 GO:0048582 GO:0048608 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051093 GO:0051094 GO:0051239 GO:0051240 GO:0061458 GO:0065007 GO:0070013 GO:0090567 GO:0090700 GO:0099402 GO:2000026 GO:2000241 GO:2000243

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

KH_1

Protein Analysis

159

Amino Acids

16.85

Weight (kDa)

5.85

Isoelectric Point (pI)

43.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KH_1	PF00013	109 - 158	8.8e-12	KH domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0002957)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G64390 AT5G64390 AT5G64390
fragaria_vesca	FvH4_2g11560 FvH4_2g11560 FvH4_2g11560
malus_domestica	MD05G1048400.v1.1 MD10G1054800.v1.1
prunus_persica	Prupe.8G070900_v2.0.a1
pyrus_communis	pycom05g04000 pycom10g04180
rosa_chinensis	RchiOBHm_Chr1g0353311 RchiOBHm_Chr4g0385021 RchiOBHm_Chr6g0270731 RchiOBHm_Chr6g0272811
rosa_laevigata	RLG00000013774
rosa_multiflora	Rmu_co8284529.1_g000001 Rmu_sc0000642.1_g000012 Rmu_sc0041041.1_g000001
rosa_roxburghii	Rroxscaffold_2G00085770 Rroxscaffold_7G00197640
rosa_rugosa	Rorug06G0056000 Rorug06G0056100 Rorug06G0056200
rosa_samantha	Rh2DG204000 Rh4CG002400 Rh4CG168900 Rh6AG157400 Rh6AG175200 Rh6BG140200 Rh6BG178600 Rh6CG174800 Rh6DG123600 Rh6DG167400 Rh6DG180500 Rh7AG209600 Rh7CG359700
rosa_wichuraiana	Rw6G014930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	380
AccI	GTMKAC	1 cut(s)	6
AclWI	GGATC	2 cut(s)	293, 442
AcoI	YGGCCR	2 cut(s)	88, 441
AcuI	CTGAAG	2 cut(s)	234, 383
AfiI	CCNNNNNNNGG	1 cut(s)	351
AgsI	TTSAA	1 cut(s)	98
AluBI	AGCT	1 cut(s)	234
AluI	AGCT	1 cut(s)	234
Alw26I	GTCTC	3 cut(s)	88, 143, 401
AlwI	GGATC	2 cut(s)	293, 442
AoxI	GGCC	3 cut(s)	88, 140, 441
ApeKI	GCWGC	1 cut(s)	231
AseI	ATTAAT	1 cut(s)	461
AspLEI	GCGC	1 cut(s)	344
AsuHPI	GGTGA	1 cut(s)	182
BanI	GGYRCC	1 cut(s)	380
BauI	CACGAG	1 cut(s)	159
BbsI	GAAGAC	1 cut(s)	86
BbvI	GCAGC	1 cut(s)	243
BccI	CCATC	1 cut(s)	274
BceAI	ACGGC	1 cut(s)	75
BciVI	GTATCC	1 cut(s)	292
BcoDI	GTCTC	3 cut(s)	88, 143, 401
BfuI	GTATCC	1 cut(s)	292
BisI	GCNGC	1 cut(s)	232
BlsI	GCNGC	1 cut(s)	233
BmiI	GGNNCC	1 cut(s)	382
BpiI	GAAGAC	1 cut(s)	86
BpmI	CTGGAG	1 cut(s)	296
BsaXI	ACNNNNNCTCC	2 cut(s)	423, 453
Bsc4I	CCNNNNNNNGG	1 cut(s)	351
Bse1I	ACTGG	4 cut(s)	110, 136, 300, 415
BseGI	GGATG	1 cut(s)	132
BseLI	CCNNNNNNNGG	1 cut(s)	351
BseMII	CTCAG	1 cut(s)	222
BseNI	ACTGG	4 cut(s)	110, 136, 300, 415
BseX3I	CGGCCG	1 cut(s)	88
BseXI	GCAGC	1 cut(s)	243
Bsh1285I	CGRYCG	1 cut(s)	91
BshFI	GGCC	3 cut(s)	90, 142, 443
BshNI	GGYRCC	1 cut(s)	380
BsiEI	CGRYCG	1 cut(s)	91
BsiSI	CCGG	1 cut(s)	87
BslI	CCNNNNNNNGG	1 cut(s)	351
BsmAI	GTCTC	3 cut(s)	88, 143, 401
BsnI	GGCC	3 cut(s)	90, 142, 443
Bsp143I	GATC	3 cut(s)	187, 285, 434
BspANI	GGCC	3 cut(s)	90, 142, 443
BspCNI	CTCAG	1 cut(s)	221
BspLI	GGNNCC	1 cut(s)	382
BspPI	GGATC	2 cut(s)	293, 442
BspQI	GCTCTTC	1 cut(s)	402
BspT107I	GGYRCC	1 cut(s)	380
BsrI	ACTGG	4 cut(s)	110, 136, 300, 415
BssMI	GATC	3 cut(s)	187, 285, 434
BssSI	CACGAG	1 cut(s)	159
Bst2BI	CACGAG	1 cut(s)	159
Bst4CI	ACNGT	2 cut(s)	154, 469
Bst6I	CTCTTC	1 cut(s)	402
BstAPI	GCANNNNNTGC	1 cut(s)	77
BstDEI	CTNAG	1 cut(s)	208
BstF5I	GGATG	1 cut(s)	132
BstHHI	GCGC	1 cut(s)	344
BstKTI	GATC	3 cut(s)	190, 288, 437
BstMAI	GTCTC	3 cut(s)	88, 143, 401
BstMBI	GATC	3 cut(s)	187, 285, 434
BstMCI	CGRYCG	1 cut(s)	91
BstMWI	GCNNNNNNNGC	1 cut(s)	77
BstV1I	GCAGC	1 cut(s)	243
BstV2I	GAAGAC	1 cut(s)	86
BstX2I	RGATCY	2 cut(s)	285, 434
BstYI	RGATCY	2 cut(s)	285, 434
BstZI	CGGCCG	1 cut(s)	88
BsuI	GTATCC	1 cut(s)	292
BsuRI	GGCC	3 cut(s)	90, 142, 443
BtsCI	GGATG	1 cut(s)	132
BtsIMutI	CAGTG	2 cut(s)	216, 293
CfoI	GCGC	1 cut(s)	344
CviJI	RGCY	7 cut(s)	59, 90, 142, 234, 278, 395, 443
CviKI_1	RGCY	7 cut(s)	59, 90, 142, 234, 278, 395, 443
DdeI	CTNAG	1 cut(s)	208
DpnI	GATC	3 cut(s)	189, 287, 436
DpnII	GATC	3 cut(s)	187, 285, 434
EaeI	YGGCCR	2 cut(s)	88, 441
EagI	CGGCCG	1 cut(s)	88
Eam1104I	CTCTTC	1 cut(s)	402
EarI	CTCTTC	1 cut(s)	402
EclXI	CGGCCG	1 cut(s)	88
Eco147I	AGGCCT	1 cut(s)	142
Eco52I	CGGCCG	1 cut(s)	88
Eco57I	CTGAAG	2 cut(s)	234, 383
FaiI	YATR	4 cut(s)	41, 246, 422, 478
FblI	GTMKAC	1 cut(s)	6
Fnu4HI	GCNGC	1 cut(s)	232
FokI	GGATG	1 cut(s)	139
Fsp4HI	GCNGC	1 cut(s)	232
GlaI	GCGC	1 cut(s)	343
GluI	GCNGC	1 cut(s)	232
GsuI	CTGGAG	1 cut(s)	296
HaeIII	GGCC	3 cut(s)	90, 142, 443
HapII	CCGG	1 cut(s)	87
HhaI	GCGC	1 cut(s)	344
Hin6I	GCGC	1 cut(s)	342
HinP1I	GCGC	1 cut(s)	342
HincII	GTYRAC	1 cut(s)	115
HindII	GTYRAC	1 cut(s)	115
HinfI	GANTC	1 cut(s)	334
HpaII	CCGG	1 cut(s)	87
HphI	GGTGA	1 cut(s)	182
Hpy166II	GTNNAC	3 cut(s)	7, 107, 115
Hpy188I	TCNGA	1 cut(s)	402
Hpy188III	TCNNGA	4 cut(s)	31, 98, 161, 252
Hpy8I	GTNNAC	3 cut(s)	7, 107, 115
HpyAV	CCTTC	1 cut(s)	38
HpyCH4III	ACNGT	2 cut(s)	154, 469
HpyCH4V	TGCA	1 cut(s)	476
HpyF10VI	GCNNNNNNNGC	1 cut(s)	77
HpyF3I	CTNAG	1 cut(s)	208
HspAI	GCGC	1 cut(s)	342
Kzo9I	GATC	3 cut(s)	187, 285, 434
LguI	GCTCTTC	1 cut(s)	402
LmnI	GCTCC	1 cut(s)	239
Lsp1109I	GCAGC	1 cut(s)	243
MaeIII	GTNAC	3 cut(s)	13, 322, 469
MalI	GATC	3 cut(s)	189, 287, 436
MboI	GATC	3 cut(s)	187, 285, 434
MboII	GAAGA	2 cut(s)	86, 389
MflI	RGATCY	2 cut(s)	285, 434
MluCI	AATT	2 cut(s)	220, 462
MmeI	TCCRAC	1 cut(s)	409
MnlI	CCTC	4 cut(s)	168, 195, 268, 425
MseI	TTAA	2 cut(s)	330, 461
MspI	CCGG	1 cut(s)	87
MwoI	GCNNNNNNNGC	1 cut(s)	77
NdeII	GATC	3 cut(s)	187, 285, 434
NlaIV	GGNNCC	1 cut(s)	382
NmeAIII	GCCGAG	2 cut(s)	252, 469
PceI	AGGCCT	1 cut(s)	142
PciSI	GCTCTTC	1 cut(s)	402
PfeI	GAWTC	1 cut(s)	334
PkrI	GCNGC	1 cut(s)	233
PshBI	ATTAAT	1 cut(s)	461
PspN4I	GGNNCC	1 cut(s)	382
PsuI	RGATCY	2 cut(s)	285, 434
SapI	GCTCTTC	1 cut(s)	402
SaqAI	TTAA	2 cut(s)	330, 461
SatI	GCNGC	1 cut(s)	232
Sau3AI	GATC	3 cut(s)	187, 285, 434
SetI	ASST	4 cut(s)	12, 175, 195, 236
Sse9I	AATT	2 cut(s)	220, 462
SseBI	AGGCCT	1 cut(s)	142
StuI	AGGCCT	1 cut(s)	142
TaaI	ACNGT	2 cut(s)	154, 469
TasI	AATT	2 cut(s)	220, 462
TfiI	GAWTC	1 cut(s)	334
Tru1I	TTAA	2 cut(s)	330, 461
Tru9I	TTAA	2 cut(s)	330, 461
TscAI	CASTG	2 cut(s)	216, 300
TseI	GCWGC	1 cut(s)	231
TspDTI	ATGAA	1 cut(s)	468
TspGWI	ACGGA	1 cut(s)	226
TspRI	CASTG	2 cut(s)	216, 300
VspI	ATTAAT	1 cut(s)	461
XmiI	GTMKAC	1 cut(s)	6

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