Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0015158

Physical Location & Seq

Genomic Coordinates Forward (+)

37575769 .. 37580367

Gene Structure 4599 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG300500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 774 bp

ATGTCGGGTATGGGAGACGGGTACGTGGGCACGGCCCAAGACGCCGTGAGGATCCGAAGGCTGGAGAAGCAAAGAGAAGCTGAGCGCCAGAAAATCCAAGAGCTCAAGACCAAGTCTGCCTCCGATAAAGGCCAGCCCGGCCTCCTCCAATTCGGCTCAAGTACTTCTGAGATTCTTGAGACGGCGTTCAAGAAAGAGACGGTTGGTTTGGTCACCAGGGAGCAATACGTTGAGAAGAGAGTAAATATTCGGAACAAAATCGAGGAGGAAGAGAAGGAAAAGCTTCAGAAGCTTCAACAGGAAGAGGAGGAATTTCAGTTACAGAAGCGTAAGAAGAGGAAGGTCAAGGGGATTAATCGATTGTCCTTTGCCGATGACATTGAGGATGGTAGTGAAGAGGAAGATGGAGAAAATAAAAGTACAGAGACTACAAGATTATGGTCTGGTAGATTTGGCAAAGATCCTACTGTGGAAACTAGCTTTCTGCCAGATAGTGAGCGGGAGGCAGAGGAACAAGCTGAGCGTGAAAGGTTGCGAAAACAGTGGTTTCTTGAGCAGGAGAAGATACGAAATGAGCCACTTCAAATTACTTACAGTTACTGGGATGGAGCAGGGCATAGGCGGACGATCCAGGTTCGAAAGGGGGATAAAATAGGAGATTTTCTTCGCTCTGTTCAACAGCAACTAGCACCTGAGTTTCGAGAAGTTCGAACTACCTCAGTGGAGAATTTGCTATATGTAAAAGAAGATCTTATCATTCCGCATGTAAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000160 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009314 GO:0009416 GO:0009628 GO:0009637 GO:0009639 GO:0009719 GO:0009723 GO:0009725 GO:0009755 GO:0009873 GO:0009892 GO:0009987 GO:0010033 GO:0010099 GO:0010114 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016441 GO:0016458 GO:0019222 GO:0023052 GO:0031047 GO:0031050 GO:0032870 GO:0034641 GO:0035194 GO:0035195 GO:0035196 GO:0035556 GO:0040029 GO:0042221 GO:0042752 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0048580 GO:0048583 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051239 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071369 GO:0071407 GO:0071495 GO:0071704 GO:0090304 GO:1901360 GO:1901698 GO:1901699 GO:2000026 GO:2000030

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

XAP5

Protein Analysis

257

Amino Acids

30.09

Weight (kDa)

6.02

Isoelectric Point (pI)

61.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XAP5	PF04921	193 - 255	1.2e-16	XAP5, circadian clock regulator C-terminal 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: OG0015158)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21150
fragaria_vesca	FvH4_1g25110
malus_domestica	MD12G1008800.v1.1 MD14G1006100.v1.1
prunus_persica	Prupe.7G010600_v2.0.a1 Prupe.7G010600_v2.0.a1
pyrus_communis	pycom12g00660 pycom14g00480
rosa_chinensis	RchiOBHm_Chr2g0122771
rosa_multiflora	Rmu_sc0008259.1_g000003
rosa_roxburghii	Rroxscaffold_2G00121240
rosa_rugosa	Rorug02G0242300
rosa_samantha	Rh2AG300500 Rh2CG287200
rosa_wichuraiana	Rw2G023870 Rw2G024110

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	499
AciI	CCGC	3 cut(s)	499, 622, 761
AclWI	GGATC	4 cut(s)	46, 59, 455, 622
AcsI	RAATTY	2 cut(s)	311, 727
AcuI	CTGAAG	1 cut(s)	269
AcyI	GRCGYC	1 cut(s)	42
AfaI	GTAC	3 cut(s)	23, 163, 421
AfiI	CCNNNNNNNGG	1 cut(s)	61
AgsI	TTSAA	4 cut(s)	190, 296, 584, 677
AjnI	CCWGG	2 cut(s)	215, 630
AluBI	AGCT	6 cut(s)	80, 103, 283, 292, 480, 518
AluI	AGCT	6 cut(s)	80, 103, 283, 292, 480, 518
Alw21I	GWGCWC	1 cut(s)	105
Alw26I	GTCTC	4 cut(s)	9, 173, 191, 419
AlwI	GGATC	4 cut(s)	46, 59, 455, 622
AlwNI	CAGNNNCTG	1 cut(s)	600
AoxI	GGCC	3 cut(s)	33, 130, 139
ApoI	RAATTY	2 cut(s)	311, 727
ArsI	GACNNNNNNTTYG	2 cut(s)	190, 222
AseI	ATTAAT	1 cut(s)	354
Asp700I	GAANNNNTTC	1 cut(s)	282
AspLEI	GCGC	1 cut(s)	87
AspS9I	GGNCC	1 cut(s)	34
AsuC2I	CCSGG	1 cut(s)	138
AsuHPI	GGTGA	1 cut(s)	205
AsuII	TTCGAA	2 cut(s)	637, 709
BaeGI	GKGCMC	1 cut(s)	32
BamHI	GGATCC	1 cut(s)	51
BanII	GRGCYC	1 cut(s)	105
Bbv12I	GWGCWC	1 cut(s)	105
BccI	CCATC	3 cut(s)	380, 398, 599
BceAI	ACGGC	3 cut(s)	29, 48, 198
BciT130I	CCWGG	2 cut(s)	217, 632
BcnI	CCSGG	1 cut(s)	138
BcoDI	GTCTC	4 cut(s)	9, 173, 191, 419
BfaI	CTAG	2 cut(s)	477, 686
BfoI	RGCGCY	1 cut(s)	88
BglI	GCCNNNNNGGC	1 cut(s)	138
BglII	AGATCT	1 cut(s)	748
BlpI	GCTNAGC	2 cut(s)	81, 519
BmcAI	AGTACT	1 cut(s)	163
Bme1390I	CCNGG	3 cut(s)	138, 217, 632
BmgT120I	GGNCC	1 cut(s)	34
BmiI	GGNNCC	1 cut(s)	53
BmrFI	CCNGG	3 cut(s)	138, 217, 632
BmrI	ACTGGG	1 cut(s)	610
BmuI	ACTGGG	1 cut(s)	610
BpmI	CTGGAG	1 cut(s)	83
Bpu1102I	GCTNAGC	2 cut(s)	81, 519
Bpu14I	TTCGAA	2 cut(s)	637, 709
BpuEI	CTTGAG	4 cut(s)	89, 142, 197, 572
BpuMI	CCSGG	1 cut(s)	138
Bsa29I	ATCGAT	1 cut(s)	358
BsaAI	YACGTR	1 cut(s)	25
BsaHI	GRCGYC	1 cut(s)	42
BsaJI	CCNNGG	1 cut(s)	216
Bsc4I	CCNNNNNNNGG	1 cut(s)	61
Bse1I	ACTGG	1 cut(s)	605
BseBI	CCWGG	2 cut(s)	217, 632
BseCI	ATCGAT	1 cut(s)	358
BseDI	CCNNGG	1 cut(s)	216
BseGI	GGATG	2 cut(s)	391, 610
BseLI	CCNNNNNNNGG	1 cut(s)	61
BseMII	CTCAG	5 cut(s)	72, 159, 510, 684, 732
BseNI	ACTGG	1 cut(s)	605
BseRI	GAGGAG	3 cut(s)	134, 278, 320
BseSI	GKGCMC	1 cut(s)	32
BshFI	GGCC	3 cut(s)	35, 132, 141
BshVI	ATCGAT	1 cut(s)	358
BsiHKAI	GWGCWC	1 cut(s)	105
BsiSI	CCGG	1 cut(s)	138
BslI	CCNNNNNNNGG	1 cut(s)	61
BsmAI	GTCTC	4 cut(s)	9, 173, 191, 419
BsmBI	CGTCTC	3 cut(s)	9, 173, 191
BsnI	GGCC	3 cut(s)	35, 132, 141
Bsp119I	TTCGAA	2 cut(s)	637, 709
Bsp1286I	GDGCHC	2 cut(s)	32, 105
Bsp143I	GATC	4 cut(s)	51, 460, 627, 748
Bsp1720I	GCTNAGC	2 cut(s)	81, 519
BspACI	CCGC	3 cut(s)	499, 622, 761
BspANI	GGCC	3 cut(s)	35, 132, 141
BspCNI	CTCAG	5 cut(s)	73, 160, 511, 685, 731
BspDI	ATCGAT	1 cut(s)	358
BspLI	GGNNCC	1 cut(s)	53
BspPI	GGATC	4 cut(s)	46, 59, 455, 622
BspT104I	TTCGAA	2 cut(s)	637, 709
BsrBI	CCGCTC	1 cut(s)	499
BsrI	ACTGG	1 cut(s)	605
BssECI	CCNNGG	1 cut(s)	216
BssMI	GATC	4 cut(s)	51, 460, 627, 748
BssNI	GRCGYC	1 cut(s)	42
Bst2UI	CCWGG	2 cut(s)	217, 632
Bst4CI	ACNGT	4 cut(s)	202, 469, 543, 596
Bst6I	CTCTTC	5 cut(s)	230, 264, 297, 329, 390
BstACI	GRCGYC	1 cut(s)	42
BstBAI	YACGTR	1 cut(s)	25
BstBI	TTCGAA	2 cut(s)	637, 709
BstC8I	GCNNGC	1 cut(s)	134
BstDEI	CTNAG	5 cut(s)	81, 168, 519, 693, 718
BstEII	GGTNACC	1 cut(s)	211
BstF5I	GGATG	2 cut(s)	391, 610
BstH2I	RGCGCY	1 cut(s)	88
BstHHI	GCGC	1 cut(s)	87
BstKTI	GATC	4 cut(s)	54, 463, 630, 751
BstMAI	GTCTC	4 cut(s)	9, 173, 191, 419
BstMBI	GATC	4 cut(s)	51, 460, 627, 748
BstMWI	GCNNNNNNNGC	4 cut(s)	41, 67, 138, 289
BstNI	CCWGG	2 cut(s)	217, 632
BstNSI	RCATGY	1 cut(s)	767
BstPI	GGTNACC	1 cut(s)	211
BstSCI	CCNGG	3 cut(s)	136, 215, 630
BstSLI	GKGCMC	1 cut(s)	32
BstX2I	RGATCY	3 cut(s)	51, 460, 748
BstYI	RGATCY	3 cut(s)	51, 460, 748
Bsu15I	ATCGAT	1 cut(s)	358
BsuRI	GGCC	3 cut(s)	35, 132, 141
BsuTUI	ATCGAT	1 cut(s)	358
BtsCI	GGATG	2 cut(s)	391, 610
BtsIMutI	CAGTG	2 cut(s)	548, 726
Cac8I	GCNNGC	1 cut(s)	134
CaiI	CAGNNNCTG	1 cut(s)	600
CfoI	GCGC	1 cut(s)	87
Cfr13I	GGNCC	1 cut(s)	34
ClaI	ATCGAT	1 cut(s)	358
CseI	GACGC	1 cut(s)	50
Csp6I	GTAC	3 cut(s)	22, 162, 420
CviAII	CATG	1 cut(s)	764
CviQI	GTAC	3 cut(s)	22, 162, 420
DdeI	CTNAG	5 cut(s)	81, 168, 519, 693, 718
DpnI	GATC	4 cut(s)	53, 462, 629, 750
DpnII	GATC	4 cut(s)	51, 460, 627, 748
Eam1104I	CTCTTC	5 cut(s)	230, 264, 297, 329, 390
EarI	CTCTTC	5 cut(s)	230, 264, 297, 329, 390
EciI	GGCGGA	1 cut(s)	637
Ecl136II	GAGCTC	1 cut(s)	103
Eco24I	GRGCYC	1 cut(s)	105
Eco53kI	GAGCTC	1 cut(s)	103
Eco57I	CTGAAG	1 cut(s)	269
Eco91I	GGTNACC	1 cut(s)	211
EcoICRI	GAGCTC	1 cut(s)	103
EcoO65I	GGTNACC	1 cut(s)	211
EcoRII	CCWGG	2 cut(s)	215, 630
EcoT38I	GRGCYC	1 cut(s)	105
Esp3I	CGTCTC	3 cut(s)	9, 173, 191
FaeI	CATG	1 cut(s)	767
FaiI	YATR	6 cut(s)	11, 439, 618, 736, 738, 765
FalI	AAGNNNNNCTT	2 cut(s)	735, 767
FatI	CATG	1 cut(s)	763
FauI	CCCGC	1 cut(s)	492
FokI	GGATG	2 cut(s)	398, 617
FriOI	GRGCYC	1 cut(s)	105
FspBI	CTAG	2 cut(s)	477, 686
GlaI	GCGC	1 cut(s)	86
GsuI	CTGGAG	1 cut(s)	83
HaeII	RGCGCY	1 cut(s)	88
HaeIII	GGCC	3 cut(s)	35, 132, 141
HapII	CCGG	1 cut(s)	138
HgaI	GACGC	1 cut(s)	50
HhaI	GCGC	1 cut(s)	87
Hin1I	GRCGYC	1 cut(s)	42
Hin1II	CATG	1 cut(s)	767
Hin6I	GCGC	1 cut(s)	85
HinP1I	GCGC	1 cut(s)	85
HindIII	AAGCTT	2 cut(s)	281, 290
HinfI	GANTC	1 cut(s)	172
HpaII	CCGG	1 cut(s)	138
HphI	GGTGA	1 cut(s)	205
Hpy188I	TCNGA	5 cut(s)	56, 124, 169, 252, 288
Hpy188III	TCNNGA	5 cut(s)	106, 176, 190, 551, 701
HpyAV	CCTTC	3 cut(s)	51, 268, 334
HpyCH4III	ACNGT	4 cut(s)	202, 469, 543, 596
HpyCH4IV	ACGT	2 cut(s)	24, 228
HpyF10VI	GCNNNNNNNGC	4 cut(s)	41, 67, 138, 289
HpyF3I	CTNAG	5 cut(s)	81, 168, 519, 693, 718
HpySE526I	ACGT	2 cut(s)	24, 228
Hsp92I	GRCGYC	1 cut(s)	42
Hsp92II	CATG	1 cut(s)	767
HspAI	GCGC	1 cut(s)	85
Kzo9I	GATC	4 cut(s)	51, 460, 627, 748
LmnI	GCTCC	2 cut(s)	220, 608
MaeI	CTAG	2 cut(s)	477, 686
MaeII	ACGT	2 cut(s)	24, 228
MaeIII	GTNAC	3 cut(s)	211, 318, 596
MalI	GATC	4 cut(s)	53, 462, 629, 750
MbiI	CCGCTC	1 cut(s)	499
MboI	GATC	4 cut(s)	51, 460, 627, 748
MboII	GAAGA	9 cut(s)	247, 281, 314, 346, 407, 413, 574, 656, 758
MflI	RGATCY	3 cut(s)	51, 460, 748
MhlI	GDGCHC	2 cut(s)	32, 105
MluCI	AATT	4 cut(s)	149, 311, 585, 727
MroXI	GAANNNNTTC	1 cut(s)	282
MseI	TTAA	1 cut(s)	354
MspI	CCGG	1 cut(s)	138
MspR9I	CCNGG	3 cut(s)	138, 217, 632
MvaI	CCWGG	2 cut(s)	217, 632
MwoI	GCNNNNNNNGC	4 cut(s)	41, 67, 138, 289
NciI	CCSGG	1 cut(s)	138
NdeII	GATC	4 cut(s)	51, 460, 627, 748
NlaIII	CATG	1 cut(s)	767
NlaIV	GGNNCC	1 cut(s)	53
NmuCI	GTSAC	1 cut(s)	211
NspI	RCATGY	1 cut(s)	767
NspV	TTCGAA	2 cut(s)	637, 709
PcsI	WCGNNNNNNNCGW	1 cut(s)	706
PdmI	GAANNNNTTC	1 cut(s)	282
PfeI	GAWTC	1 cut(s)	172
PflFI	GACNNNGTC	1 cut(s)	112
Ppu21I	YACGTR	1 cut(s)	25
PshBI	ATTAAT	1 cut(s)	354
Psp124BI	GAGCTC	1 cut(s)	105
Psp6I	CCWGG	2 cut(s)	215, 630
PspEI	GGTNACC	1 cut(s)	211
PspGI	CCWGG	2 cut(s)	215, 630
PspN4I	GGNNCC	1 cut(s)	53
PspPI	GGNCC	1 cut(s)	34
PstNI	CAGNNNCTG	1 cut(s)	600
PsuI	RGATCY	3 cut(s)	51, 460, 748
PsyI	GACNNNGTC	1 cut(s)	112
RsaI	GTAC	3 cut(s)	23, 163, 421
RsaNI	GTAC	3 cut(s)	22, 162, 420
SacI	GAGCTC	1 cut(s)	105
SaqAI	TTAA	1 cut(s)	354
Sau3AI	GATC	4 cut(s)	51, 460, 627, 748
Sau96I	GGNCC	1 cut(s)	34
ScaI	AGTACT	1 cut(s)	163
ScrFI	CCNGG	3 cut(s)	138, 217, 632
SduI	GDGCHC	2 cut(s)	32, 105
SfiI	GGCCNNNNNGGCC	1 cut(s)	138
SfuI	TTCGAA	2 cut(s)	637, 709
SmlI	CTYRAG	4 cut(s)	104, 157, 176, 551
SmoI	CTYRAG	4 cut(s)	104, 157, 176, 551
Sse9I	AATT	4 cut(s)	149, 311, 585, 727
SsiI	CCGC	3 cut(s)	499, 622, 761
SspI	AATATT	1 cut(s)	247
SspMI	CTAG	2 cut(s)	477, 686
SstI	GAGCTC	1 cut(s)	105
StyD4I	CCNGG	3 cut(s)	136, 215, 630
TaaI	ACNGT	4 cut(s)	202, 469, 543, 596
TaiI	ACGT	2 cut(s)	27, 231
TaqI	TCGA	5 cut(s)	261, 358, 637, 700, 709
TasI	AATT	4 cut(s)	149, 311, 585, 727
TatI	WGTACW	2 cut(s)	161, 419
TfiI	GAWTC	1 cut(s)	172
Tru1I	TTAA	1 cut(s)	354
Tru9I	TTAA	1 cut(s)	354
TscAI	CASTG	2 cut(s)	548, 726
TseFI	GTSAC	1 cut(s)	211
Tsp45I	GTSAC	1 cut(s)	211
TspRI	CASTG	2 cut(s)	548, 726
Tth111I	GACNNNGTC	1 cut(s)	112
VspI	ATTAAT	1 cut(s)	354
XapI	RAATTY	2 cut(s)	311, 727
XceI	RCATGY	1 cut(s)	767
XmnI	GAANNNNTTC	1 cut(s)	282
XspI	CTAG	2 cut(s)	477, 686
ZrmI	AGTACT	1 cut(s)	163

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