Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0006301

Physical Location & Seq

Genomic Coordinates Reverse (-)

72032143 .. 72034614

Gene Structure 2472 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0601400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 864 bp

ATGGCGGGAAGCGACCCCCGGAAGCACCTCATGAACTTGATTCACGACTTCGCCTCCGAGAAGTCTCAGGGAGAGCGAAGAGTGGTCGGCCTGAGGAAGCGAATCGAGGAGCTGACGTCTGAGCTTGAGGTCAGAAATGCGGAGCTCGAAGAAGCCAAGCGGACCAAGGAGTCCATTGAGCAAGAGGTTCGAGGCTACGAAGTTGAATTGGCTATGAATGAAGCTACGATTCAAACGCTTGAGTCAAGGATTTCGCTGACGCAAGAGGAGGTTTCCACAGTTGGATCTGATTTGGAAGCTCTTAAGAACAAAGAAGCTTCTGCACGAGATGAGTTCATAAGCCAAATGTTTGAGCTAAACTCTAAGATAAGGAAGTTCCAAGAGTCAATTGCTGGGAAAATTCATGAGGAGAATTATATGGAAACTGAAGCTGGTGATGAAGGTCAGGAACTAGTAAGGGAGGAGGTTTCTGAGGTATCTTTAAGAGCACTTGAGGAAATGCTTGCCTGTGTTGTATCTGAGACAGCTAAAGTAGAAGAAGAATACAAATCAGAACAGAATATTCAAAAGCAAGTCCAGCAGGAGTCCGTTGATTGTGAAAGGAAGGTATTCCTGATGGAGGAGACATTGAACATAACAAAGGAATTGCAAGATTTGACAAGATATCCTTTTCAAGATACCAGACTTTATGACTATCACTTCCACATTGTTGTGGCTTTAACTGGAAACAAGCAGACTTCTGAATTGGAACAGACTTATGCTACCCTTTGTGAGAACTTGCAGATGAGATGTGCATGTCCAAGTTGTCATCTAGACAATGTGGAGGCCCTGGGGGGACTTACTCAATCAAATGAAGCATATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000724 GO:0000725 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006323 GO:0006325 GO:0006333 GO:0006334 GO:0006338 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007275 GO:0008150 GO:0008152 GO:0008283 GO:0009555 GO:0009888 GO:0009934 GO:0009987 GO:0010026 GO:0016043 GO:0022603 GO:0022607 GO:0030154 GO:0031497 GO:0031507 GO:0032501 GO:0032502 GO:0032991 GO:0033186 GO:0033554 GO:0034622 GO:0034641 GO:0034728 GO:0042393 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0045787 GO:0046483 GO:0048229 GO:0048366 GO:0048367 GO:0048509 GO:0048518 GO:0048522 GO:0048731 GO:0048827 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051276 GO:0051716 GO:0051726 GO:0065003 GO:0065004 GO:0065007 GO:0070828 GO:0071103 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090558 GO:0099402 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CAF1A

Protein Analysis

287

Amino Acids

32.93

Weight (kDa)

4.67

Isoelectric Point (pI)

62.99

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006301)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G65470 AT1G65470
fragaria_vesca	FvH4_6g00081 FvH4_6g00081 FvH4_6g00081 FvH4_6g00081 FvH4_6g00081 FvH4_6g00081
malus_domestica	MD00G1017400.v1.1 MD12G1261700.v1.1
prunus_persica	Prupe.6G365000_v2.0.a1 Prupe.6G365000_v2.0.a1
pyrus_communis	pycom04g21970 pycom12g24210
rosa_chinensis	RchiOBHm_Chr3g0447421
rosa_laevigata	RLG00000026000
rosa_multiflora	Rmu_ssc0000473.1_g000021
rosa_roxburghii	Rroxscaffold_6G00425620
rosa_rugosa	Rorug02G0601300 Rorug02G0601400 Rorug02G0601500 Rorug02G0601600
rosa_samantha	Rh3AG001500 Rh3BG001200 Rh3CG001200 Rh3DG001400
rosa_wichuraiana	Rw3G000090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	169
AatII	GACGTC	1 cut(s)	119
AciI	CCGC	3 cut(s)	5, 140, 160
AclWI	GGATC	1 cut(s)	292
AcsI	RAATTY	1 cut(s)	399
AcuI	CTGAAG	1 cut(s)	447
AcyI	GRCGYC	1 cut(s)	116
AfiI	CCNNNNNNNGG	1 cut(s)	619
AflII	CTTAAG	1 cut(s)	302
AgsI	TTSAA	5 cut(s)	206, 233, 566, 631, 674
AhlI	ACTAGT	1 cut(s)	451
AjnI	CCWGG	1 cut(s)	828
AluBI	AGCT	9 cut(s)	112, 124, 145, 224, 299, 317, 355, 431, 527
AluI	AGCT	9 cut(s)	112, 124, 145, 224, 299, 317, 355, 431, 527
Alw21I	GWGCWC	2 cut(s)	147, 490
Alw26I	GTCTC	3 cut(s)	69, 515, 617
AlwI	GGATC	1 cut(s)	292
AoxI	GGCC	2 cut(s)	88, 825
ApoI	RAATTY	1 cut(s)	399
Asp700I	GAANNNNTTC	1 cut(s)	608
AspS9I	GGNCC	2 cut(s)	162, 826
AsuC2I	CCSGG	1 cut(s)	19
AsuHPI	GGTGA	1 cut(s)	446
AvaII	GGWCC	1 cut(s)	162
AxyI	CCTNAGG	1 cut(s)	92
BanII	GRGCYC	1 cut(s)	147
BauI	CACGAG	1 cut(s)	324
Bbv12I	GWGCWC	2 cut(s)	147, 490
BccI	CCATC	1 cut(s)	610
BcgI	CGANNNNNNTGC	2 cut(s)	170, 204
BciT130I	CCWGG	1 cut(s)	830
BcnI	CCSGG	1 cut(s)	19
BcoDI	GTCTC	3 cut(s)	69, 515, 617
BcuI	ACTAGT	1 cut(s)	451
BfaI	CTAG	2 cut(s)	452, 812
BfrI	CTTAAG	1 cut(s)	302
Bme1390I	CCNGG	2 cut(s)	19, 830
Bme18I	GGWCC	1 cut(s)	162
BmgT120I	GGNCC	2 cut(s)	162, 826
BmrFI	CCNGG	2 cut(s)	19, 830
BplI	GAGNNNNNCTC	2 cut(s)	344, 376
BpuEI	CTTGAG	3 cut(s)	146, 260, 512
BpuMI	CCSGG	1 cut(s)	19
BsaHI	GRCGYC	1 cut(s)	116
BsaJI	CCNNGG	4 cut(s)	17, 165, 828, 829
BsaXI	ACNNNNNCTCC	4 cut(s)	38, 68, 101, 131
Bsc4I	CCNNNNNNNGG	1 cut(s)	619
Bse1I	ACTGG	1 cut(s)	727
Bse21I	CCTNAGG	1 cut(s)	92
BseBI	CCWGG	1 cut(s)	830
BseDI	CCNNGG	4 cut(s)	17, 165, 828, 829
BseLI	CCNNNNNNNGG	1 cut(s)	619
BseMII	CTCAG	5 cut(s)	80, 83, 111, 462, 510
BseNI	ACTGG	1 cut(s)	727
BseRI	GAGGAG	5 cut(s)	122, 281, 422, 476, 635
BseYI	CCCAGC	1 cut(s)	392
BsgI	GTGCAG	1 cut(s)	306
BshFI	GGCC	2 cut(s)	90, 827
BsiHKAI	GWGCWC	2 cut(s)	147, 490
BsiSI	CCGG	1 cut(s)	19
BslFI	GGGAC	1 cut(s)	849
BslI	CCNNNNNNNGG	1 cut(s)	619
BsmAI	GTCTC	3 cut(s)	69, 515, 617
BsmFI	GGGAC	1 cut(s)	849
BsnI	GGCC	2 cut(s)	90, 827
Bsp1286I	GDGCHC	2 cut(s)	147, 490
Bsp143I	GATC	1 cut(s)	284
BspACI	CCGC	3 cut(s)	5, 140, 160
BspANI	GGCC	2 cut(s)	90, 827
BspCNI	CTCAG	5 cut(s)	79, 84, 112, 463, 511
BspHI	TCATGA	2 cut(s)	30, 403
BspPI	GGATC	1 cut(s)	292
BspTI	CTTAAG	1 cut(s)	302
BsrI	ACTGG	1 cut(s)	727
BssECI	CCNNGG	4 cut(s)	17, 165, 828, 829
BssMI	GATC	1 cut(s)	284
BssNI	GRCGYC	1 cut(s)	116
BssSI	CACGAG	1 cut(s)	324
BssT1I	CCWWGG	1 cut(s)	165
Bst2BI	CACGAG	1 cut(s)	324
Bst2UI	CCWGG	1 cut(s)	830
Bst4CI	ACNGT	1 cut(s)	280
Bst6I	CTCTTC	1 cut(s)	73
BstACI	GRCGYC	1 cut(s)	116
BstAFI	CTTAAG	1 cut(s)	302
BstC8I	GCNNGC	1 cut(s)	504
BstDEI	CTNAG	6 cut(s)	66, 92, 120, 363, 471, 519
BstENI	CCTNNNNNAGG	1 cut(s)	617
BstKTI	GATC	1 cut(s)	287
BstMAI	GTCTC	3 cut(s)	69, 515, 617
BstMBI	GATC	1 cut(s)	284
BstMWI	GCNNNNNNNGC	1 cut(s)	577
BstNI	CCWGG	1 cut(s)	830
BstNSI	RCATGY	1 cut(s)	798
BstSCI	CCNGG	2 cut(s)	17, 828
BstX2I	RGATCY	1 cut(s)	284
BstYI	RGATCY	1 cut(s)	284
Bsu36I	CCTNAGG	1 cut(s)	92
BsuRI	GGCC	2 cut(s)	90, 827
Cac8I	GCNNGC	1 cut(s)	504
CciI	TCATGA	2 cut(s)	30, 403
Cfr13I	GGNCC	2 cut(s)	162, 826
CseI	GACGC	1 cut(s)	268
CviAII	CATG	3 cut(s)	31, 404, 795
DdeI	CTNAG	6 cut(s)	66, 92, 120, 363, 471, 519
DpnI	GATC	1 cut(s)	286
DpnII	GATC	1 cut(s)	284
DrdI	GACNNNNNNGTC	1 cut(s)	169
DseDI	GACNNNNNNGTC	1 cut(s)	169
Eam1104I	CTCTTC	1 cut(s)	73
EarI	CTCTTC	1 cut(s)	73
Ecl136II	GAGCTC	1 cut(s)	145
Eco130I	CCWWGG	1 cut(s)	165
Eco24I	GRGCYC	1 cut(s)	147
Eco32I	GATATC	1 cut(s)	665
Eco47I	GGWCC	1 cut(s)	162
Eco53kI	GAGCTC	1 cut(s)	145
Eco57I	CTGAAG	1 cut(s)	447
Eco81I	CCTNAGG	1 cut(s)	92
EcoICRI	GAGCTC	1 cut(s)	145
EcoNI	CCTNNNNNAGG	1 cut(s)	617
EcoO109I	RGGNCCY	1 cut(s)	826
EcoRII	CCWGG	1 cut(s)	828
EcoRV	GATATC	1 cut(s)	665
EcoT14I	CCWWGG	1 cut(s)	165
EcoT38I	GRGCYC	1 cut(s)	147
ErhI	CCWWGG	1 cut(s)	165
FaeI	CATG	3 cut(s)	34, 407, 798
FalI	AAGNNNNNCTT	2 cut(s)	652, 684
FaqI	GGGAC	1 cut(s)	849
FatI	CATG	3 cut(s)	30, 403, 794
FriOI	GRGCYC	1 cut(s)	147
FspBI	CTAG	2 cut(s)	452, 812
GsaI	CCCAGC	1 cut(s)	396
HaeIII	GGCC	2 cut(s)	90, 827
HapII	CCGG	1 cut(s)	19
HgaI	GACGC	1 cut(s)	268
Hin1I	GRCGYC	1 cut(s)	116
Hin1II	CATG	3 cut(s)	34, 407, 798
HindIII	AAGCTT	1 cut(s)	315
HinfI	GANTC	7 cut(s)	40, 102, 170, 229, 242, 383, 584
HpaII	CCGG	1 cut(s)	19
HphI	GGTGA	1 cut(s)	446
Hpy188I	TCNGA	8 cut(s)	58, 121, 134, 289, 472, 520, 553, 742
Hpy188III	TCNNGA	7 cut(s)	31, 44, 404, 446, 613, 674, 812
HpyAV	CCTTC	2 cut(s)	434, 598
HpyCH4III	ACNGT	1 cut(s)	280
HpyCH4IV	ACGT	1 cut(s)	116
HpyCH4V	TGCA	4 cut(s)	323, 649, 781, 794
HpyF10VI	GCNNNNNNNGC	1 cut(s)	577
HpyF3I	CTNAG	6 cut(s)	66, 92, 120, 363, 471, 519
HpySE526I	ACGT	1 cut(s)	116
Hsp92I	GRCGYC	1 cut(s)	116
Hsp92II	CATG	3 cut(s)	34, 407, 798
Kzo9I	GATC	1 cut(s)	284
LmnI	GCTCC	2 cut(s)	109, 142
MaeI	CTAG	2 cut(s)	452, 812
MaeII	ACGT	1 cut(s)	116
MalI	GATC	1 cut(s)	286
MboI	GATC	1 cut(s)	284
MboII	GAAGA	4 cut(s)	90, 161, 548, 551
MfeI	CAATTG	1 cut(s)	387
MflI	RGATCY	1 cut(s)	284
MhlI	GDGCHC	2 cut(s)	147, 490
MluCI	AATT	6 cut(s)	206, 387, 399, 412, 644, 743
MlyI	GAGTC	4 cut(s)	179, 251, 392, 593
MmeI	TCCRAC	1 cut(s)	262
MroXI	GAANNNNTTC	1 cut(s)	608
MseI	TTAA	4 cut(s)	303, 482, 719, 862
MslI	CAYNNNNRTG	1 cut(s)	710
MspCI	CTTAAG	1 cut(s)	302
MspI	CCGG	1 cut(s)	19
MspR9I	CCNGG	2 cut(s)	19, 830
MunI	CAATTG	1 cut(s)	387
MvaI	CCWGG	1 cut(s)	830
MwoI	GCNNNNNNNGC	1 cut(s)	577
NciI	CCSGG	1 cut(s)	19
NdeII	GATC	1 cut(s)	284
NlaIII	CATG	3 cut(s)	34, 407, 798
NspI	RCATGY	1 cut(s)	798
PagI	TCATGA	2 cut(s)	30, 403
PasI	CCCWGGG	1 cut(s)	829
PdmI	GAANNNNTTC	1 cut(s)	608
PfeI	GAWTC	3 cut(s)	40, 102, 229
PleI	GAGTC	4 cut(s)	178, 250, 391, 592
PpsI	GAGTC	4 cut(s)	178, 250, 391, 592
Psp124BI	GAGCTC	1 cut(s)	147
Psp6I	CCWGG	1 cut(s)	828
PspFI	CCCAGC	1 cut(s)	392
PspGI	CCWGG	1 cut(s)	828
PspPI	GGNCC	2 cut(s)	162, 826
PsuI	RGATCY	1 cut(s)	284
RseI	CAYNNNNRTG	1 cut(s)	710
SacI	GAGCTC	1 cut(s)	147
SaqAI	TTAA	4 cut(s)	303, 482, 719, 862
Sau3AI	GATC	1 cut(s)	284
Sau96I	GGNCC	2 cut(s)	162, 826
SchI	GAGTC	4 cut(s)	179, 251, 392, 593
ScrFI	CCNGG	2 cut(s)	19, 830
SduI	GDGCHC	2 cut(s)	147, 490
SinI	GGWCC	1 cut(s)	162
SmiMI	CAYNNNNRTG	1 cut(s)	710
SmlI	CTYRAG	4 cut(s)	125, 239, 302, 491
SmoI	CTYRAG	4 cut(s)	125, 239, 302, 491
SpeI	ACTAGT	1 cut(s)	451
Sse9I	AATT	6 cut(s)	206, 387, 399, 412, 644, 743
SsiI	CCGC	3 cut(s)	5, 140, 160
SspI	AATATT	1 cut(s)	562
SspMI	CTAG	2 cut(s)	452, 812
SstI	GAGCTC	1 cut(s)	147
StyD4I	CCNGG	2 cut(s)	17, 828
StyI	CCWWGG	1 cut(s)	165
TaaI	ACNGT	1 cut(s)	280
TaiI	ACGT	1 cut(s)	119
TaqI	TCGA	3 cut(s)	105, 147, 190
TasI	AATT	6 cut(s)	206, 387, 399, 412, 644, 743
TfiI	GAWTC	3 cut(s)	40, 102, 229
Tru1I	TTAA	4 cut(s)	303, 482, 719, 862
Tru9I	TTAA	4 cut(s)	303, 482, 719, 862
TspDTI	ATGAA	6 cut(s)	47, 230, 234, 325, 392, 453
TspGWI	ACGGA	1 cut(s)	577
Vha464I	CTTAAG	1 cut(s)	302
VpaK11BI	GGWCC	1 cut(s)	162
XagI	CCTNNNNNAGG	1 cut(s)	617
XapI	RAATTY	1 cut(s)	399
XbaI	TCTAGA	1 cut(s)	811
XceI	RCATGY	1 cut(s)	798
XmnI	GAANNNNTTC	1 cut(s)	608
XspI	CTAG	2 cut(s)	452, 812
ZraI	GACGTC	1 cut(s)	117

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