Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0004562

Physical Location & Seq

Genomic Coordinates Forward (+)

58052216 .. 58058878

Gene Structure 6663 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG318000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 528 bp

ATGCTCAAAACACTTGAGAGGTACCAGAAGTGCAACTATGGAGCACCGGAGACAAATGTATCTACAAGGGAGGCCTTGGAATTGAGTAGCCAGCAGGAGTATTTGAAGCTCAAGGCACGTTATGAAGCCCTACAAAGAAACCAAAGGAATCTTCTTGGAGAAGATCTTGGCCCTTTAAGTAGCAAAGAGCTTGAATCACTTGAAAGGCAGCTGGATCTGTCATTGAAGCAGATCAGATCAACACGGACCCAATGCATGCTGGATCAGCTCACAGATCTTCAGCGAAAGGAACACATGCTTAATGAAGCAAACAGGACACTGAAACAAAGGTTGTTTGAGGGATACAATGTACATCAACTCCAACTGAATGCAAATGCTGAGGATGTGGGATATGGCCGGCAACAAGCTCATCATCAACCTCAGGGCGAGGGCTTCTTCCAACCCTTAGAGTGCGAGCCCACGTTACAAATTGGGTACGTATCTAGGTTTTCTTATATCACAGTACTGCAGCATCTCTTCTGGGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001708 GO:0003002 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0009653 GO:0009791 GO:0009889 GO:0009908 GO:0009987 GO:0010093 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0035670 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045165 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048444 GO:0048449 GO:0048467 GO:0048481 GO:0048608 GO:0048646 GO:0048731 GO:0048827 GO:0048832 GO:0048833 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0090701 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1903506 GO:1905392 GO:1905393 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

K-box SRF-TF

Protein Analysis

175

Amino Acids

20.5

Weight (kDa)

6.53

Isoelectric Point (pI)

37.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
K-box	PF01486	29 - 111	2.6e-26	K-box region

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: OG0004562)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G24260 AT1G24260 AT1G24260
fragaria_vesca	FvH4_4g23530 FvH4_4g23530 FvH4_4g23530 FvH4_4g23530 FvH4_4g23530 FvH4_4g23530 FvH4_4g23530 FvH4_4g23530 FvH4_4g23530 FvH4_4g23530 FvH4_4g23530
malus_domestica	MD13G1121500.v1.1 MD16G1121800.v1.1
prunus_persica	Prupe.1G223600_v2.0.a1
pyrus_communis	pycom13g10590 pycom16g10420
rosa_chinensis	RchiOBHm_Chr4g0429931
rosa_laevigata	RLG00000007020
rosa_multiflora	Rmu_sc0010155.1_g000006 Rmu_sc0035068.1_g000001
rosa_roxburghii	Rroxscaffold_5G00371760
rosa_rugosa	Rorug04G0239200 Rorug04G0239200
rosa_samantha	Rh4AG295800 Rh4BG302300 Rh4CG318000 Rh4DG299700
rosa_wichuraiana	Rw4G025620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	21
AccB1I	GGYRCC	1 cut(s)	21
AclWI	GGATC	2 cut(s)	222, 270
AcoI	YGGCCR	1 cut(s)	394
AcuI	CTGAAG	1 cut(s)	263
AfaI	GTAC	4 cut(s)	23, 351, 476, 504
AgsI	TTSAA	4 cut(s)	106, 194, 203, 226
AjuI	GAANNNNNNNTTGG	2 cut(s)	135, 167
AluBI	AGCT	5 cut(s)	109, 190, 211, 268, 407
AluI	AGCT	5 cut(s)	109, 190, 211, 268, 407
Alw21I	GWGCWC	1 cut(s)	46
Alw26I	GTCTC	1 cut(s)	44
AlwI	GGATC	2 cut(s)	222, 270
AoxI	GGCC	3 cut(s)	72, 169, 394
ApeKI	GCWGC	2 cut(s)	208, 508
Asp718I	GGTACC	1 cut(s)	21
AspS9I	GGNCC	2 cut(s)	170, 246
AvaII	GGWCC	1 cut(s)	246
AxyI	CCTNAGG	1 cut(s)	420
BaeI	ACNNNNGTAYC	2 cut(s)	42, 75
BanI	GGYRCC	1 cut(s)	21
BanII	GRGCYC	1 cut(s)	459
Bbv12I	GWGCWC	1 cut(s)	46
BbvCI	CCTCAGC	1 cut(s)	378
BbvI	GCAGC	2 cut(s)	220, 520
BciVI	GTATCC	1 cut(s)	335
BcoDI	GTCTC	1 cut(s)	44
BfaI	CTAG	1 cut(s)	483
BfmI	CTRYAG	1 cut(s)	506
BfuI	GTATCC	1 cut(s)	335
BglII	AGATCT	2 cut(s)	163, 274
BisI	GCNGC	2 cut(s)	209, 509
BlsI	GCNGC	2 cut(s)	210, 510
BmcAI	AGTACT	1 cut(s)	504
Bme18I	GGWCC	1 cut(s)	246
BmgT120I	GGNCC	2 cut(s)	170, 246
BmiI	GGNNCC	2 cut(s)	23, 248
BmsI	GCATC	1 cut(s)	520
Bpu10I	CCTNAGC	1 cut(s)	378
BpuEI	CTTGAG	2 cut(s)	35, 95
BsaAI	YACGTR	1 cut(s)	478
BsaJI	CCNNGG	1 cut(s)	75
BsaWI	WCCGGW	1 cut(s)	46
BsaXI	ACNNNNNCTCC	2 cut(s)	342, 372
Bse118I	RCCGGY	1 cut(s)	396
Bse21I	CCTNAGG	1 cut(s)	420
BseDI	CCNNGG	1 cut(s)	75
BseGI	GGATG	1 cut(s)	388
BseMII	CTCAG	2 cut(s)	369, 434
BseXI	GCAGC	2 cut(s)	220, 520
BshFI	GGCC	3 cut(s)	74, 171, 396
BshNI	GGYRCC	1 cut(s)	21
BsiHKAI	GWGCWC	1 cut(s)	46
BsiSI	CCGG	2 cut(s)	47, 397
BsmAI	GTCTC	1 cut(s)	44
BsmI	GAATGC	1 cut(s)	373
BsnI	GGCC	3 cut(s)	74, 171, 396
Bsp1286I	GDGCHC	2 cut(s)	46, 459
Bsp1407I	TGTACA	1 cut(s)	349
Bsp143I	GATC	6 cut(s)	163, 214, 231, 236, 262, 274
BspANI	GGCC	3 cut(s)	74, 171, 396
BspCNI	CTCAG	2 cut(s)	370, 433
BspLI	GGNNCC	2 cut(s)	23, 248
BspMAI	CTGCAG	1 cut(s)	510
BspPI	GGATC	2 cut(s)	222, 270
BspT107I	GGYRCC	1 cut(s)	21
BsrFI	RCCGGY	1 cut(s)	396
BsrGI	TGTACA	1 cut(s)	349
BssAI	RCCGGY	1 cut(s)	396
BssECI	CCNNGG	1 cut(s)	75
BssMI	GATC	6 cut(s)	163, 214, 231, 236, 262, 274
BssT1I	CCWWGG	1 cut(s)	75
Bst4CI	ACNGT	1 cut(s)	502
Bst6I	CTCTTC	1 cut(s)	521
BstAUI	TGTACA	1 cut(s)	349
BstBAI	YACGTR	1 cut(s)	478
BstC8I	GCNNGC	4 cut(s)	92, 257, 398, 455
BstDEI	CTNAG	3 cut(s)	378, 420, 445
BstF5I	GGATG	1 cut(s)	388
BstKTI	GATC	6 cut(s)	166, 217, 234, 239, 265, 277
BstMAI	GTCTC	1 cut(s)	44
BstMBI	GATC	6 cut(s)	163, 214, 231, 236, 262, 274
BstMWI	GCNNNNNNNGC	1 cut(s)	265
BstNSI	RCATGY	2 cut(s)	259, 298
BstSFI	CTRYAG	1 cut(s)	506
BstSNI	TACGTA	1 cut(s)	478
BstV1I	GCAGC	2 cut(s)	220, 520
BstX2I	RGATCY	3 cut(s)	163, 214, 274
BstYI	RGATCY	3 cut(s)	163, 214, 274
Bsu36I	CCTNAGG	1 cut(s)	420
BsuI	GTATCC	1 cut(s)	335
BsuRI	GGCC	3 cut(s)	74, 171, 396
BtsCI	GGATG	1 cut(s)	388
BtsIMutI	CAGTG	1 cut(s)	317
Cac8I	GCNNGC	4 cut(s)	92, 257, 398, 455
Cfr10I	RCCGGY	1 cut(s)	396
Cfr13I	GGNCC	2 cut(s)	170, 246
Csp6I	GTAC	4 cut(s)	22, 350, 475, 503
CviAII	CATG	2 cut(s)	256, 295
CviQI	GTAC	4 cut(s)	22, 350, 475, 503
DdeI	CTNAG	3 cut(s)	378, 420, 445
DpnI	GATC	6 cut(s)	165, 216, 233, 238, 264, 276
DpnII	GATC	6 cut(s)	163, 214, 231, 236, 262, 274
EaeI	YGGCCR	1 cut(s)	394
Eam1104I	CTCTTC	1 cut(s)	521
EarI	CTCTTC	1 cut(s)	521
Eco105I	TACGTA	1 cut(s)	478
Eco130I	CCWWGG	1 cut(s)	75
Eco147I	AGGCCT	1 cut(s)	74
Eco24I	GRGCYC	1 cut(s)	459
Eco47I	GGWCC	1 cut(s)	246
Eco57I	CTGAAG	1 cut(s)	263
Eco81I	CCTNAGG	1 cut(s)	420
EcoT14I	CCWWGG	1 cut(s)	75
EcoT22I	ATGCAT	1 cut(s)	257
EcoT38I	GRGCYC	1 cut(s)	459
ErhI	CCWWGG	1 cut(s)	75
FaeI	CATG	2 cut(s)	259, 298
FaiI	YATR	6 cut(s)	39, 123, 257, 296, 393, 495
FatI	CATG	2 cut(s)	255, 294
Fnu4HI	GCNGC	2 cut(s)	209, 509
FokI	GGATG	1 cut(s)	395
FriOI	GRGCYC	1 cut(s)	459
Fsp4HI	GCNGC	2 cut(s)	209, 509
FspBI	CTAG	1 cut(s)	483
GluI	GCNGC	2 cut(s)	209, 509
HaeIII	GGCC	3 cut(s)	74, 171, 396
HapII	CCGG	2 cut(s)	47, 397
Hin1II	CATG	2 cut(s)	259, 298
HinfI	GANTC	2 cut(s)	148, 194
HpaII	CCGG	2 cut(s)	47, 397
Hpy188I	TCNGA	1 cut(s)	236
HpyCH4III	ACNGT	1 cut(s)	502
HpyCH4IV	ACGT	3 cut(s)	118, 461, 477
HpyCH4V	TGCA	4 cut(s)	33, 255, 371, 508
HpyF10VI	GCNNNNNNNGC	1 cut(s)	265
HpyF3I	CTNAG	3 cut(s)	378, 420, 445
HpySE526I	ACGT	3 cut(s)	118, 461, 477
Hsp92II	CATG	2 cut(s)	259, 298
KpnI	GGTACC	1 cut(s)	25
KroI	GCCGGC	1 cut(s)	396
KroNI	GCCGGC	1 cut(s)	398
Kzo9I	GATC	6 cut(s)	163, 214, 231, 236, 262, 274
LmnI	GCTCC	1 cut(s)	41
Lsp1109I	GCAGC	2 cut(s)	220, 520
LweI	GCATC	1 cut(s)	520
MaeI	CTAG	1 cut(s)	483
MaeII	ACGT	3 cut(s)	118, 461, 477
MaeIII	GTNAC	1 cut(s)	462
MalI	GATC	6 cut(s)	165, 216, 233, 238, 264, 276
MboI	GATC	6 cut(s)	163, 214, 231, 236, 262, 274
MboII	GAAGA	5 cut(s)	143, 173, 269, 427, 508
MflI	RGATCY	3 cut(s)	163, 214, 274
MhlI	GDGCHC	2 cut(s)	46, 459
MluCI	AATT	2 cut(s)	80, 468
MmeI	TCCRAC	2 cut(s)	385, 463
MnlI	CCTC	6 cut(s)	12, 64, 331, 373, 421, 429
Mph1103I	ATGCAT	1 cut(s)	257
MroNI	GCCGGC	1 cut(s)	396
MseI	TTAA	3 cut(s)	176, 300, 526
MspA1I	CMGCKG	1 cut(s)	211
MspI	CCGG	2 cut(s)	47, 397
Mva1269I	GAATGC	1 cut(s)	373
MwoI	GCNNNNNNNGC	1 cut(s)	265
NaeI	GCCGGC	1 cut(s)	398
NdeII	GATC	6 cut(s)	163, 214, 231, 236, 262, 274
NgoMIV	GCCGGC	1 cut(s)	396
NlaIII	CATG	2 cut(s)	259, 298
NlaIV	GGNNCC	2 cut(s)	23, 248
NsiI	ATGCAT	1 cut(s)	257
NspI	RCATGY	2 cut(s)	259, 298
PaeI	GCATGC	1 cut(s)	259
PceI	AGGCCT	1 cut(s)	74
PctI	GAATGC	1 cut(s)	373
PdiI	GCCGGC	1 cut(s)	398
PfeI	GAWTC	2 cut(s)	148, 194
PkrI	GCNGC	2 cut(s)	210, 510
Ppu21I	YACGTR	1 cut(s)	478
PspN4I	GGNNCC	2 cut(s)	23, 248
PspPI	GGNCC	2 cut(s)	170, 246
PstI	CTGCAG	1 cut(s)	510
PsuI	RGATCY	3 cut(s)	163, 214, 274
PvuII	CAGCTG	1 cut(s)	211
RsaI	GTAC	4 cut(s)	23, 351, 476, 504
RsaNI	GTAC	4 cut(s)	22, 350, 475, 503
SaqAI	TTAA	3 cut(s)	176, 300, 526
SatI	GCNGC	2 cut(s)	209, 509
Sau3AI	GATC	6 cut(s)	163, 214, 231, 236, 262, 274
Sau96I	GGNCC	2 cut(s)	170, 246
ScaI	AGTACT	1 cut(s)	504
SduI	GDGCHC	2 cut(s)	46, 459
SfaNI	GCATC	1 cut(s)	520
SfcI	CTRYAG	1 cut(s)	506
SinI	GGWCC	1 cut(s)	246
SmlI	CTYRAG	2 cut(s)	14, 110
SmoI	CTYRAG	2 cut(s)	14, 110
SnaBI	TACGTA	1 cut(s)	478
SphI	GCATGC	1 cut(s)	259
Sse9I	AATT	2 cut(s)	80, 468
SseBI	AGGCCT	1 cut(s)	74
SspMI	CTAG	1 cut(s)	483
StuI	AGGCCT	1 cut(s)	74
StyI	CCWWGG	1 cut(s)	75
TaaI	ACNGT	1 cut(s)	502
TaiI	ACGT	3 cut(s)	121, 464, 480
TasI	AATT	2 cut(s)	80, 468
TatI	WGTACW	2 cut(s)	349, 502
TfiI	GAWTC	2 cut(s)	148, 194
Tru1I	TTAA	3 cut(s)	176, 300, 526
Tru9I	TTAA	3 cut(s)	176, 300, 526
TscAI	CASTG	1 cut(s)	324
TseI	GCWGC	2 cut(s)	208, 508
TspDTI	ATGAA	2 cut(s)	138, 318
TspGWI	ACGGA	1 cut(s)	259
TspRI	CASTG	1 cut(s)	324
VpaK11BI	GGWCC	1 cut(s)	246
XceI	RCATGY	2 cut(s)	259, 298
XspI	CTAG	1 cut(s)	483
ZrmI	AGTACT	1 cut(s)	504
Zsp2I	ATGCAT	1 cut(s)	257

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