Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0002212

Physical Location & Seq

Genomic Coordinates Reverse (-)

13970834 .. 13974063

Gene Structure 3230 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG162100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 453 bp

ATGCCCTTGAAATTAGCAGTTCCTATTGTTGAGAGAGTTCATCCAGTTGGAAGCCCTACTGCACCACCTCTGGTTTTGATGAGACCAACATTAAACAAAAGGAAAAGGTTTAGGGGTGTGGGCCGTAGGAGGAGCATCGCAACTATCAGCCCAAGCTCTGAAAAAGTAAGAGCTTACTTTCATAACGAGGAAGCTTTGAGGTACTTAGTCCCTGATAGGGGATTTTGTTACACAGCACTGGATGGTATAAAGTCTGCAGTCGCTCCTCTACGAAAGGTGACCAACATACACCGAGACCATGTTATGCTTAAAGCTGATAGGCCGCATGTTGTTTCTGTCTGCTGTCTTGTGCGGGATGCAGCTACTAGATTGCCTGGAGCCCAAAGATTCTTGGAGTGGCTATCTAGGGATACAATTTTGGAGGTCGTCGTGCCTTGGTGGATTATGATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000785 GO:0000790 GO:0002020 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0019899 GO:0031011 GO:0031974 GO:0031981 GO:0032991 GO:0033202 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0070013 GO:0070603 GO:0097346 GO:1902494 GO:1904949

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

150

Amino Acids

17.09

Weight (kDa)

10.67

Isoelectric Point (pI)

51.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_2nd_NFRKB	PF25793	57 - 127	2.2e-20	NFRKB second winged helix domain

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: OG0002212)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37320
fragaria_vesca	FvH4_6g14840 FvH4_6g14850 FvH4_6g14860 FvH4_6g14860 FvH4_6g14860
malus_domestica	MD12G1130300.v1.1
prunus_persica	Prupe.6G245300_v2.0.a1 Prupe.6G245400_v2.0.a1 Prupe.6G245400_v2.0.a1
pyrus_communis	pycom12g12640
rosa_chinensis	RchiOBHm_Chr3g0468071
rosa_laevigata	RLG00000024452 RLG00000024453 RLG00000024454
rosa_multiflora	Rmu_co8076902.1_g000001 Rmu_co8076904.1_g000001 Rmu_co8172106.1_g000001 Rmu_co8309729.1_g000001 Rmu_sc0005326.1_g000004 Rmu_sc0012651.1_g000004 Rmu_sc0012651.1_g000005
rosa_roxburghii	Rroxscaffold_6G00413080 Rroxscaffold_6G00413090 Rroxscaffold_6G00413100
rosa_rugosa	Rorug03G0092100 Rorug03G0092200 Rorug03G0092300
rosa_samantha	Rh3AG140600 Rh3AG140700 Rh3AG140800 Rh3BG161900 Rh3BG162000 Rh3BG162100 Rh3BG162200 Rh3CG161900 Rh3CG162000 Rh3DG162400 Rh3DG162500 Rh3DG162600
rosa_wichuraiana	Rw3G013280 Rw3G013290 Rw3G013300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	323, 352
AfaI	GTAC	1 cut(s)	203
AfiI	CCNNNNNNNGG	2 cut(s)	217, 218
AgsI	TTSAA	1 cut(s)	10
AjnI	CCWGG	1 cut(s)	373
AluBI	AGCT	5 cut(s)	156, 173, 194, 314, 362
AluI	AGCT	5 cut(s)	156, 173, 194, 314, 362
Alw26I	GTCTC	2 cut(s)	76, 288
AoxI	GGCC	2 cut(s)	121, 320
ApeKI	GCWGC	1 cut(s)	359
AspS9I	GGNCC	1 cut(s)	121
AsuHPI	GGTGA	1 cut(s)	289
BanII	GRGCYC	1 cut(s)	382
BbvI	GCAGC	1 cut(s)	371
BccI	CCATC	1 cut(s)	236
BceAI	ACGGC	1 cut(s)	108
BciT130I	CCWGG	1 cut(s)	375
BciVI	GTATCC	1 cut(s)	403
BcoDI	GTCTC	2 cut(s)	76, 288
BfaI	CTAG	2 cut(s)	366, 405
BfmI	CTRYAG	1 cut(s)	255
BfuI	GTATCC	1 cut(s)	403
BisI	GCNGC	2 cut(s)	323, 360
BlsI	GCNGC	2 cut(s)	324, 361
Bme1390I	CCNGG	1 cut(s)	375
BmgT120I	GGNCC	1 cut(s)	121
BmiI	GGNNCC	1 cut(s)	379
BmrFI	CCNGG	1 cut(s)	375
BmsI	GCATC	2 cut(s)	144, 346
BpmI	CTGGAG	1 cut(s)	396
BsaI	GGTCTC	2 cut(s)	76, 288
BsaJI	CCNNGG	1 cut(s)	434
Bsc4I	CCNNNNNNNGG	2 cut(s)	217, 218
Bse1I	ACTGG	2 cut(s)	44, 243
BseBI	CCWGG	1 cut(s)	375
BseDI	CCNNGG	1 cut(s)	434
BseGI	GGATG	3 cut(s)	40, 247, 361
BseLI	CCNNNNNNNGG	2 cut(s)	217, 218
BseNI	ACTGG	2 cut(s)	44, 243
BseRI	GAGGAG	2 cut(s)	145, 255
BseXI	GCAGC	1 cut(s)	371
BsgI	GTGCAG	1 cut(s)	45
BshFI	GGCC	2 cut(s)	123, 322
BslFI	GGGAC	1 cut(s)	194
BslI	CCNNNNNNNGG	2 cut(s)	217, 218
BsmAI	GTCTC	2 cut(s)	76, 288
BsmFI	GGGAC	1 cut(s)	194
BsnI	GGCC	2 cut(s)	123, 322
Bso31I	GGTCTC	2 cut(s)	76, 288
Bsp1286I	GDGCHC	1 cut(s)	382
BspACI	CCGC	2 cut(s)	323, 352
BspANI	GGCC	2 cut(s)	123, 322
BspLI	GGNNCC	1 cut(s)	379
BspMAI	CTGCAG	1 cut(s)	259
BspTNI	GGTCTC	2 cut(s)	76, 288
BsrI	ACTGG	2 cut(s)	44, 243
BssECI	CCNNGG	1 cut(s)	434
BssT1I	CCWWGG	1 cut(s)	434
Bst2UI	CCWGG	1 cut(s)	375
BstDEI	CTNAG	1 cut(s)	205
BstEII	GGTNACC	1 cut(s)	277
BstF5I	GGATG	3 cut(s)	40, 247, 361
BstMAI	GTCTC	2 cut(s)	76, 288
BstNI	CCWGG	1 cut(s)	375
BstNSI	RCATGY	1 cut(s)	329
BstPI	GGTNACC	1 cut(s)	277
BstSCI	CCNGG	1 cut(s)	373
BstSFI	CTRYAG	1 cut(s)	255
BstV1I	GCAGC	1 cut(s)	371
BsuI	GTATCC	1 cut(s)	403
BsuRI	GGCC	2 cut(s)	123, 322
BtgZI	GCGATG	1 cut(s)	121
BtsCI	GGATG	3 cut(s)	40, 247, 361
BtsIMutI	CAGTG	1 cut(s)	236
Cfr13I	GGNCC	1 cut(s)	121
Csp6I	GTAC	1 cut(s)	202
CviAII	CATG	2 cut(s)	299, 326
CviQI	GTAC	1 cut(s)	202
DdeI	CTNAG	1 cut(s)	205
Eco130I	CCWWGG	1 cut(s)	434
Eco24I	GRGCYC	1 cut(s)	382
Eco31I	GGTCTC	2 cut(s)	76, 288
Eco91I	GGTNACC	1 cut(s)	277
EcoO65I	GGTNACC	1 cut(s)	277
EcoRII	CCWGG	1 cut(s)	373
EcoT14I	CCWWGG	1 cut(s)	434
EcoT38I	GRGCYC	1 cut(s)	382
ErhI	CCWWGG	1 cut(s)	434
FaeI	CATG	2 cut(s)	302, 329
FaiI	YATR	7 cut(s)	183, 248, 287, 300, 305, 327, 446
FaqI	GGGAC	1 cut(s)	194
FatI	CATG	2 cut(s)	298, 325
FauI	CCCGC	1 cut(s)	345
Fnu4HI	GCNGC	2 cut(s)	323, 360
FokI	GGATG	3 cut(s)	27, 254, 368
FriOI	GRGCYC	1 cut(s)	382
Fsp4HI	GCNGC	2 cut(s)	323, 360
FspBI	CTAG	2 cut(s)	366, 405
GluI	GCNGC	2 cut(s)	323, 360
GsuI	CTGGAG	1 cut(s)	396
HaeIII	GGCC	2 cut(s)	123, 322
Hin1II	CATG	2 cut(s)	302, 329
HindIII	AAGCTT	1 cut(s)	192
HinfI	GANTC	1 cut(s)	387
HphI	GGTGA	1 cut(s)	289
Hpy188I	TCNGA	1 cut(s)	160
Hpy99I	CGWCG	1 cut(s)	431
HpyCH4V	TGCA	3 cut(s)	62, 257, 359
HpyF3I	CTNAG	1 cut(s)	205
Hsp92II	CATG	2 cut(s)	302, 329
LmnI	GCTCC	3 cut(s)	132, 268, 377
LpnPI	CCDG	6 cut(s)	56, 57, 224, 225, 360, 387
Lsp1109I	GCAGC	1 cut(s)	371
LweI	GCATC	2 cut(s)	144, 346
MaeI	CTAG	2 cut(s)	366, 405
MaeIII	GTNAC	2 cut(s)	227, 277
MhlI	GDGCHC	1 cut(s)	382
MluCI	AATT	2 cut(s)	11, 414
MmeI	TCCRAC	1 cut(s)	28
MnlI	CCTC	6 cut(s)	78, 123, 181, 192, 276, 415
MseI	TTAA	2 cut(s)	92, 309
MspR9I	CCNGG	1 cut(s)	375
MvaI	CCWGG	1 cut(s)	375
NlaIII	CATG	2 cut(s)	302, 329
NlaIV	GGNNCC	1 cut(s)	379
NmuCI	GTSAC	1 cut(s)	277
NspI	RCATGY	1 cut(s)	329
PfeI	GAWTC	1 cut(s)	387
PkrI	GCNGC	2 cut(s)	324, 361
Psp6I	CCWGG	1 cut(s)	373
PspEI	GGTNACC	1 cut(s)	277
PspGI	CCWGG	1 cut(s)	373
PspN4I	GGNNCC	1 cut(s)	379
PspPI	GGNCC	1 cut(s)	121
PstI	CTGCAG	1 cut(s)	259
RsaI	GTAC	1 cut(s)	203
RsaNI	GTAC	1 cut(s)	202
SaqAI	TTAA	2 cut(s)	92, 309
SatI	GCNGC	2 cut(s)	323, 360
Sau96I	GGNCC	1 cut(s)	121
ScrFI	CCNGG	1 cut(s)	375
SduI	GDGCHC	1 cut(s)	382
SfaNI	GCATC	2 cut(s)	144, 346
SfcI	CTRYAG	1 cut(s)	255
Sse9I	AATT	2 cut(s)	11, 414
SsiI	CCGC	2 cut(s)	323, 352
SspMI	CTAG	2 cut(s)	366, 405
StyD4I	CCNGG	1 cut(s)	373
StyI	CCWWGG	1 cut(s)	434
TasI	AATT	2 cut(s)	11, 414
TauI	GCSGC	1 cut(s)	325
TfiI	GAWTC	1 cut(s)	387
Tru1I	TTAA	2 cut(s)	92, 309
Tru9I	TTAA	2 cut(s)	92, 309
TscAI	CASTG	1 cut(s)	243
TseFI	GTSAC	1 cut(s)	277
TseI	GCWGC	1 cut(s)	359
Tsp45I	GTSAC	1 cut(s)	277
TspDTI	ATGAA	2 cut(s)	29, 170
TspRI	CASTG	1 cut(s)	243
XceI	RCATGY	1 cut(s)	329
XspI	CTAG	2 cut(s)	366, 405

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