Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0009169

Physical Location & Seq

Genomic Coordinates Forward (+)

42530688 .. 42531692

Gene Structure 1005 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00421340.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGCCGTTGGGGAAGTACGACTGCGAATACTGCGACAAGCAATTCCAAGACACTCCATACGCTCGGAGACGCCATCTTCAGAGCCTCCAACACCTCCGAGCCAAAGCTCAATGGTACGACTCTTTCAAAGATCCCAATGATGCTTATGCACAAAGCTTGGGAAGAGGGGTCTGCAACCGCTTTATCAAAACGGGGTTTTGCCAATATGGGGATGCTTGTAAGTATTTTCACCCCAAGAACAACCAGCAGAATACAATTACTCAAGGGGCATCAGGTGTAACTGATACGTGCATAGTCAGTCTTCAACTTTTCAAGGGAATCAAAAGGCTGCAGGCAGCTCTTTGCGAGTTGGATCCGTACACTAGTTGTTTCTGCTTCAATCTTGCTGCTAAGTTGTTCTCATGTTGCTTGTCAGATGTGGTGGTGAGAGATAACATGGGAATGTCATGGGGAAATCTACCTCCATCGCTAATGCCTCCTCCGGAGGGTGGATATCCTCCGCTTCCTTTTGTGGACTGGGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005689 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCCH zf-U1

Protein Analysis

174

Amino Acids

19.66

Weight (kDa)

8.27

Isoelectric Point (pI)

54.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-U1	PF06220	5 - 39	1.8e-06	U1 zinc finger
zf-CCCH	PF00642	56 - 79	7.7e-06	Zinc finger C-x8-C-x5-C-x3-H type (and similar)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0009169)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G26749 AT5G26749
fragaria_vesca	FvH4_6g08160 FvH4_6g08160 FvH4_6g08160 FvH4_6g08160
malus_domestica	MD12G1202300.v1.1
prunus_persica	Prupe.6G307100_v2.0.a1
pyrus_communis	pycom12g18890
rosa_chinensis	RchiOBHm_Chr3g0458031
rosa_laevigata	RLG00000025178
rosa_multiflora	Rmu_sc0000384.1_g000012
rosa_roxburghii	Rroxscaffold_6G00421340
rosa_rugosa	Rorug03G0024400 Rorug03G0024400 Rorug03G0024500
rosa_samantha	Rh3AG084900 Rh3BG087700 Rh3CG088200 Rh3DG088600
rosa_wichuraiana	Rw0G012410 Rw3G007230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	481
AciI	CCGC	2 cut(s)	178, 500
AclWI	GGATC	3 cut(s)	125, 347, 360
AcuI	CTGAAG	1 cut(s)	62
AcyI	GRCGYC	1 cut(s)	70
AfaI	GTAC	3 cut(s)	17, 116, 359
AfiI	CCNNNNNNNGG	3 cut(s)	208, 485, 488
AgsI	TTSAA	4 cut(s)	127, 305, 313, 379
AhlI	ACTAGT	1 cut(s)	362
AluBI	AGCT	3 cut(s)	107, 156, 338
AluI	AGCT	3 cut(s)	107, 156, 338
Alw26I	GTCTC	1 cut(s)	61
AlwI	GGATC	3 cut(s)	125, 347, 360
Aor13HI	TCCGGA	1 cut(s)	481
ApeKI	GCWGC	3 cut(s)	328, 335, 386
AsuHPI	GGTGA	2 cut(s)	221, 436
BamHI	GGATCC	1 cut(s)	352
BbsI	GAAGAC	1 cut(s)	293
BbvI	GCAGC	3 cut(s)	315, 347, 373
BccI	CCATC	2 cut(s)	81, 472
BcoDI	GTCTC	1 cut(s)	61
BcuI	ACTAGT	1 cut(s)	362
BfaI	CTAG	1 cut(s)	363
BfmI	CTRYAG	1 cut(s)	329
BisI	GCNGC	3 cut(s)	329, 336, 387
BlsI	GCNGC	3 cut(s)	330, 337, 388
BmiI	GGNNCC	1 cut(s)	354
BmsI	GCATC	3 cut(s)	130, 202, 278
BpiI	GAAGAC	1 cut(s)	293
BpuEI	CTTGAG	1 cut(s)	246
BsaAI	YACGTR	1 cut(s)	288
BsaHI	GRCGYC	1 cut(s)	70
BsaWI	WCCGGW	1 cut(s)	481
Bsc4I	CCNNNNNNNGG	3 cut(s)	208, 485, 488
Bse1I	ACTGG	1 cut(s)	521
BseAI	TCCGGA	1 cut(s)	481
BseGI	GGATG	1 cut(s)	217
BseLI	CCNNNNNNNGG	3 cut(s)	208, 485, 488
BseNI	ACTGG	1 cut(s)	521
BseRI	GAGGAG	1 cut(s)	468
BseXI	GCAGC	3 cut(s)	315, 347, 373
BsiSI	CCGG	1 cut(s)	482
BslI	CCNNNNNNNGG	3 cut(s)	208, 485, 488
BsmAI	GTCTC	1 cut(s)	61
BsmBI	CGTCTC	1 cut(s)	61
Bsp13I	TCCGGA	1 cut(s)	481
Bsp143I	GATC	2 cut(s)	130, 352
BspACI	CCGC	2 cut(s)	178, 500
BspEI	TCCGGA	1 cut(s)	481
BspLI	GGNNCC	1 cut(s)	354
BspMAI	CTGCAG	1 cut(s)	333
BspPI	GGATC	3 cut(s)	125, 347, 360
BsrI	ACTGG	1 cut(s)	521
BssMI	GATC	2 cut(s)	130, 352
BssNI	GRCGYC	1 cut(s)	70
Bst6I	CTCTTC	1 cut(s)	157
BstACI	GRCGYC	1 cut(s)	70
BstBAI	YACGTR	1 cut(s)	288
BstC8I	GCNNGC	1 cut(s)	333
BstDEI	CTNAG	1 cut(s)	390
BstF5I	GGATG	1 cut(s)	217
BstKTI	GATC	2 cut(s)	133, 355
BstMAI	GTCTC	1 cut(s)	61
BstMBI	GATC	2 cut(s)	130, 352
BstMWI	GCNNNNNNNGC	1 cut(s)	30
BstSFI	CTRYAG	1 cut(s)	329
BstV1I	GCAGC	3 cut(s)	315, 347, 373
BstV2I	GAAGAC	1 cut(s)	293
BstX2I	RGATCY	2 cut(s)	130, 352
BstYI	RGATCY	2 cut(s)	130, 352
BtgZI	GCGATG	1 cut(s)	450
BtsCI	GGATG	1 cut(s)	217
Cac8I	GCNNGC	1 cut(s)	333
CseI	GACGC	1 cut(s)	78
Csp6I	GTAC	3 cut(s)	16, 115, 358
CviAII	CATG	3 cut(s)	402, 436, 447
CviJI	RGCY	6 cut(s)	84, 101, 107, 156, 328, 338
CviKI_1	RGCY	6 cut(s)	84, 101, 107, 156, 328, 338
CviQI	GTAC	3 cut(s)	16, 115, 358
DdeI	CTNAG	1 cut(s)	390
DpnI	GATC	2 cut(s)	132, 354
DpnII	GATC	2 cut(s)	130, 352
Eam1104I	CTCTTC	1 cut(s)	157
EarI	CTCTTC	1 cut(s)	157
Eco32I	GATATC	1 cut(s)	494
Eco57I	CTGAAG	1 cut(s)	62
EcoRV	GATATC	1 cut(s)	494
Esp3I	CGTCTC	1 cut(s)	61
FaeI	CATG	3 cut(s)	405, 439, 450
FaiI	YATR	7 cut(s)	58, 147, 207, 293, 403, 437, 448
FatI	CATG	3 cut(s)	401, 435, 446
Fnu4HI	GCNGC	3 cut(s)	329, 336, 387
FokI	GGATG	1 cut(s)	224
Fsp4HI	GCNGC	3 cut(s)	329, 336, 387
FspBI	CTAG	1 cut(s)	363
GluI	GCNGC	3 cut(s)	329, 336, 387
HapII	CCGG	1 cut(s)	482
HgaI	GACGC	1 cut(s)	78
Hin1I	GRCGYC	1 cut(s)	70
Hin1II	CATG	3 cut(s)	405, 439, 450
HindIII	AAGCTT	1 cut(s)	154
HinfI	GANTC	2 cut(s)	119, 318
HpaII	CCGG	1 cut(s)	482
HphI	GGTGA	2 cut(s)	221, 436
Hpy166II	GTNNAC	2 cut(s)	360, 514
Hpy188I	TCNGA	4 cut(s)	66, 81, 98, 415
Hpy188III	TCNNGA	1 cut(s)	482
Hpy8I	GTNNAC	2 cut(s)	360, 514
HpyCH4IV	ACGT	1 cut(s)	287
HpyCH4V	TGCA	4 cut(s)	149, 174, 291, 331
HpyF10VI	GCNNNNNNNGC	1 cut(s)	30
HpyF3I	CTNAG	1 cut(s)	390
HpySE526I	ACGT	1 cut(s)	287
Hsp92I	GRCGYC	1 cut(s)	70
Hsp92II	CATG	3 cut(s)	405, 439, 450
Kpn2I	TCCGGA	1 cut(s)	481
Kzo9I	GATC	2 cut(s)	130, 352
LpnPI	CCDG	5 cut(s)	257, 258, 317, 495, 502
Lsp1109I	GCAGC	3 cut(s)	315, 347, 373
LweI	GCATC	3 cut(s)	130, 202, 278
MaeI	CTAG	1 cut(s)	363
MaeII	ACGT	1 cut(s)	287
MaeIII	GTNAC	1 cut(s)	277
MalI	GATC	2 cut(s)	132, 354
MboI	GATC	2 cut(s)	130, 352
MboII	GAAGA	3 cut(s)	68, 174, 293
MflI	RGATCY	2 cut(s)	130, 352
MluCI	AATT	2 cut(s)	41, 255
MlyI	GAGTC	1 cut(s)	113
MmeI	TCCRAC	2 cut(s)	112, 330
MnlI	CCTC	8 cut(s)	95, 104, 158, 471, 478, 486, 489, 507
MroI	TCCGGA	1 cut(s)	481
MslI	CAYNNNNRTG	1 cut(s)	440
MspI	CCGG	1 cut(s)	482
MwoI	GCNNNNNNNGC	1 cut(s)	30
NdeII	GATC	2 cut(s)	130, 352
NlaIII	CATG	3 cut(s)	405, 439, 450
NlaIV	GGNNCC	1 cut(s)	354
PfeI	GAWTC	1 cut(s)	318
PkrI	GCNGC	3 cut(s)	330, 337, 388
PleI	GAGTC	1 cut(s)	113
PpsI	GAGTC	1 cut(s)	113
Ppu21I	YACGTR	1 cut(s)	288
PspN4I	GGNNCC	1 cut(s)	354
PstI	CTGCAG	1 cut(s)	333
PsuI	RGATCY	2 cut(s)	130, 352
RsaI	GTAC	3 cut(s)	17, 116, 359
RsaNI	GTAC	3 cut(s)	16, 115, 358
RseI	CAYNNNNRTG	1 cut(s)	440
SatI	GCNGC	3 cut(s)	329, 336, 387
Sau3AI	GATC	2 cut(s)	130, 352
SchI	GAGTC	1 cut(s)	113
SetI	ASST	7 cut(s)	96, 109, 158, 277, 290, 340, 463
SfaNI	GCATC	3 cut(s)	130, 202, 278
SfcI	CTRYAG	1 cut(s)	329
SmiMI	CAYNNNNRTG	1 cut(s)	440
SmlI	CTYRAG	1 cut(s)	261
SmoI	CTYRAG	1 cut(s)	261
SpeI	ACTAGT	1 cut(s)	362
Sse9I	AATT	2 cut(s)	41, 255
SsiI	CCGC	2 cut(s)	178, 500
SspMI	CTAG	1 cut(s)	363
TaiI	ACGT	1 cut(s)	290
TasI	AATT	2 cut(s)	41, 255
TfiI	GAWTC	1 cut(s)	318
TseI	GCWGC	3 cut(s)	328, 335, 386
TspGWI	ACGGA	1 cut(s)	345
XspI	CTAG	1 cut(s)	363

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