Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0004427

Physical Location & Seq

Genomic Coordinates Forward (+)

50504838 .. 50510141

Gene Structure 5304 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG330100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGGCTTCCGATGCTGATATGGAGGATTACGGATTCGAGTACTCGGATGAGGAGCCTGAGGAACAGGACGTTGACATCGAGAATCAATATTACAACTCTAAAGGTTTGGTTGAGACTGATCCAGAAGGAGCACTTTCAGGATTTGAGGAAGTAGTTCGCATGGAGCCCGAGAAGGCCGAGTGGATCATGGGAATTATTCGTGAGTGTGGTGGCAAGATGCATATGGCAGAGCGTCAGTGGGCAGAGGCCGCCACAGATTTTTTTGAAGCTTTTAAGAACTATGATGAAGCTGGGAACCAGAGGCGTATTCAGTGCTTGAAATATTTAGTCCTGGCTAATATGCTGATGGAGTCCGAGGTTAATCCATTTGATGGTCAAGAAGCAAAGCCGTATAAAAATGATCCTGAGATCTTGGCAATGACAAATCTCATAGCAGCATATCAACGAAATGAGATCTTAGAGTTTGAGAAAATTCTTAAGAGTAATAGGAGGACAATTATGGATGATCCATTCATTCGAAACTATATTGAAGATTTGTTGAAGAATGTCAGAACTCAAGTTCTGCTTAAACTAATCAAGCCGTACACAAGGATCCGAATTCCTTTCATATCAAAGGAACTCAATGTCCCTGAGAAAGATGTTGAGCAGCTCTTGGTTTCACTAATATTGGATAACCGAATCGATGGACATATTGATCAAGTGAACCGGCTCTTAGAGCGTGGTGACAGGTCAAAGGGAATGAAGAAGTATGCTGCCGTAGATAAATGGAACACGCAGCTGAGGTCTCTTTACCAAACAATTGGTAACCGAGTATATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000338 GO:0003674 GO:0003712 GO:0003714 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0006464 GO:0006508 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0019538 GO:0030163 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0045892 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0070646 GO:0070647 GO:0071704 GO:0080090 GO:0140110 GO:1901564 GO:1901565 GO:1901575 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PCI

Protein Analysis

272

Amino Acids

31.81

Weight (kDa)

4.78

Isoelectric Point (pI)

42.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCI	PF01399	159 - 239	6.8e-24	PCI domain
COPS2_C	PF25983	247 - 271	7.5e-14	COP9 signalosome complex subunit 2, C-terminal helix

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: OG0004427)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G26990
fragaria_vesca	FvH4_4g27570
malus_domestica	MD00G1108200.v1.1 MD03G1163800.v1.1 MD11G1176300.v1.1
prunus_persica	Prupe.6G156800_v2.0.a1 Prupe.6G156800_v2.0.a1
pyrus_communis	pycom11g15960 pycom11g16000
rosa_chinensis	RchiOBHm_Chr4g0435421 RchiOBHm_Chr5g0050051
rosa_laevigata	RLG00000006594 RLG00000034682
rosa_multiflora	Rmu_sc0000333.1_g000008 Rmu_sc0001940.1_g000023 Rmu_sc0009623.1_g000002 Rmu_sc0016267.1_g000001 Rmu_sc0036582.1_g000002
rosa_roxburghii	Rroxscaffold_1G00031080 Rroxscaffold_5G00376660
rosa_rugosa	Rorug04G0284900 Rorug05G0256900
rosa_samantha	Rh4AG340600 Rh4BG348900 Rh4CG363400 Rh4DG343100 Rh5AG330100 Rh5BG340800 Rh5CG367400 Rh5DG353500
rosa_wichuraiana	Rw4G029700 Rw5G031150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	371
AciI	CCGC	1 cut(s)	249
AclWI	GGATC	6 cut(s)	113, 191, 395, 500, 586, 599
AcsI	RAATTY	2 cut(s)	471, 597
AfaI	GTAC	2 cut(s)	41, 584
AfiI	CCNNNNNNNGG	1 cut(s)	371
AflII	CTTAAG	1 cut(s)	476
AgsI	TTSAA	4 cut(s)	266, 319, 530, 541
AjnI	CCWGG	1 cut(s)	330
AloI	GAACNNNNNNTCC	2 cut(s)	609, 641
AluBI	AGCT	4 cut(s)	269, 290, 649, 778
AluI	AGCT	4 cut(s)	269, 290, 649, 778
Alw21I	GWGCWC	1 cut(s)	133
Alw26I	GTCTC	2 cut(s)	107, 789
AlwI	GGATC	6 cut(s)	113, 191, 395, 500, 586, 599
Ama87I	CYCGRG	1 cut(s)	167
AoxI	GGCC	2 cut(s)	174, 246
ApeKI	GCWGC	4 cut(s)	434, 646, 752, 775
ApoI	RAATTY	2 cut(s)	471, 597
Asp700I	GAANNNNTTC	1 cut(s)	153
AsuHPI	GGTGA	1 cut(s)	734
AsuII	TTCGAA	1 cut(s)	517
AvaI	CYCGRG	1 cut(s)	167
AxyI	CCTNAGG	1 cut(s)	57
BamHI	GGATCC	1 cut(s)	591
BanII	GRGCYC	1 cut(s)	168
Bbv12I	GWGCWC	1 cut(s)	133
BbvCI	CCTCAGC	1 cut(s)	779
BbvI	GCAGC	4 cut(s)	446, 658, 739, 787
BccI	CCATC	3 cut(s)	340, 365, 677
BceAI	ACGGC	3 cut(s)	373, 565, 740
BciT130I	CCWGG	1 cut(s)	332
BclI	TGATCA	1 cut(s)	694
BcoDI	GTCTC	2 cut(s)	107, 789
BfrI	CTTAAG	1 cut(s)	476
BglII	AGATCT	2 cut(s)	408, 453
BisI	GCNGC	5 cut(s)	249, 435, 647, 753, 776
BlsI	GCNGC	5 cut(s)	250, 436, 648, 754, 777
BmcAI	AGTACT	1 cut(s)	41
Bme1390I	CCNGG	1 cut(s)	332
BmeT110I	CYCGRG	1 cut(s)	167
BmiI	GGNNCC	4 cut(s)	54, 165, 296, 593
BmrFI	CCNGG	1 cut(s)	332
BmsI	GCATC	1 cut(s)	207
Bpu10I	CCTNAGC	1 cut(s)	779
Bpu14I	TTCGAA	1 cut(s)	517
BpuEI	CTTGAG	1 cut(s)	540
Bsa29I	ATCGAT	1 cut(s)	681
BsaI	GGTCTC	1 cut(s)	789
BsaJI	CCNNGG	1 cut(s)	354
Bsc4I	CCNNNNNNNGG	1 cut(s)	371
Bse118I	RCCGGY	1 cut(s)	705
Bse21I	CCTNAGG	1 cut(s)	57
Bse3DI	GCAATG	1 cut(s)	423
BseBI	CCWGG	1 cut(s)	332
BseCI	ATCGAT	1 cut(s)	681
BseDI	CCNNGG	1 cut(s)	354
BseGI	GGATG	2 cut(s)	52, 508
BseLI	CCNNNNNNNGG	1 cut(s)	371
BseMI	GCAATG	1 cut(s)	423
BseMII	CTCAG	4 cut(s)	48, 396, 621, 770
BseRI	GAGGAG	1 cut(s)	65
BseXI	GCAGC	4 cut(s)	446, 658, 739, 787
BseYI	CCCAGC	1 cut(s)	290
BshFI	GGCC	2 cut(s)	176, 248
BshVI	ATCGAT	1 cut(s)	681
BsiHKAI	GWGCWC	1 cut(s)	133
BsiHKCI	CYCGRG	1 cut(s)	167
BsiSI	CCGG	1 cut(s)	706
BslFI	GGGAC	1 cut(s)	611
BslI	CCNNNNNNNGG	1 cut(s)	371
BsmAI	GTCTC	2 cut(s)	107, 789
BsmFI	GGGAC	1 cut(s)	611
BsnI	GGCC	2 cut(s)	176, 248
Bso31I	GGTCTC	1 cut(s)	789
BsoBI	CYCGRG	1 cut(s)	167
Bsp119I	TTCGAA	1 cut(s)	517
Bsp1286I	GDGCHC	2 cut(s)	133, 168
Bsp143I	GATC	8 cut(s)	118, 183, 400, 408, 453, 505, 591, 694
BspACI	CCGC	1 cut(s)	249
BspANI	GGCC	2 cut(s)	176, 248
BspCNI	CTCAG	4 cut(s)	49, 397, 622, 771
BspDI	ATCGAT	1 cut(s)	681
BspLI	GGNNCC	4 cut(s)	54, 165, 296, 593
BspPI	GGATC	6 cut(s)	113, 191, 395, 500, 586, 599
BspT104I	TTCGAA	1 cut(s)	517
BspTI	CTTAAG	1 cut(s)	476
BspTNI	GGTCTC	1 cut(s)	789
BsrDI	GCAATG	1 cut(s)	423
BsrFI	RCCGGY	1 cut(s)	705
BssAI	RCCGGY	1 cut(s)	705
BssECI	CCNNGG	1 cut(s)	354
BssMI	GATC	8 cut(s)	118, 183, 400, 408, 453, 505, 591, 694
Bst2UI	CCWGG	1 cut(s)	332
BstAFI	CTTAAG	1 cut(s)	476
BstBI	TTCGAA	1 cut(s)	517
BstDEI	CTNAG	6 cut(s)	57, 405, 457, 630, 712, 779
BstEII	GGTNACC	1 cut(s)	803
BstF5I	GGATG	2 cut(s)	52, 508
BstKTI	GATC	8 cut(s)	121, 186, 403, 411, 456, 508, 594, 697
BstMAI	GTCTC	2 cut(s)	107, 789
BstMBI	GATC	8 cut(s)	118, 183, 400, 408, 453, 505, 591, 694
BstMWI	GCNNNNNNNGC	3 cut(s)	11, 248, 715
BstNI	CCWGG	1 cut(s)	332
BstPI	GGTNACC	1 cut(s)	803
BstSCI	CCNGG	1 cut(s)	330
BstV1I	GCAGC	4 cut(s)	446, 658, 739, 787
BstX2I	RGATCY	3 cut(s)	408, 453, 591
BstXI	CCANNNNNNTGG	1 cut(s)	800
BstYI	RGATCY	3 cut(s)	408, 453, 591
Bsu15I	ATCGAT	1 cut(s)	681
Bsu36I	CCTNAGG	1 cut(s)	57
BsuRI	GGCC	2 cut(s)	176, 248
BsuTUI	ATCGAT	1 cut(s)	681
BtsCI	GGATG	2 cut(s)	52, 508
BtsIMutI	CAGTG	2 cut(s)	242, 317
Cfr10I	RCCGGY	1 cut(s)	705
ClaI	ATCGAT	1 cut(s)	681
CseI	GACGC	1 cut(s)	221
Csp6I	GTAC	2 cut(s)	40, 583
CviAII	CATG	2 cut(s)	160, 187
CviQI	GTAC	2 cut(s)	40, 583
DdeI	CTNAG	6 cut(s)	57, 405, 457, 630, 712, 779
DpnI	GATC	8 cut(s)	120, 185, 402, 410, 455, 507, 593, 696
DpnII	GATC	8 cut(s)	118, 183, 400, 408, 453, 505, 591, 694
Eco24I	GRGCYC	1 cut(s)	168
Eco31I	GGTCTC	1 cut(s)	789
Eco81I	CCTNAGG	1 cut(s)	57
Eco88I	CYCGRG	1 cut(s)	167
Eco91I	GGTNACC	1 cut(s)	803
EcoO65I	GGTNACC	1 cut(s)	803
EcoRI	GAATTC	1 cut(s)	597
EcoRII	CCWGG	1 cut(s)	330
EcoT22I	ATGCAT	1 cut(s)	222
EcoT38I	GRGCYC	1 cut(s)	168
FaeI	CATG	2 cut(s)	163, 190
FalI	AAGNNNNNCTT	4 cut(s)	117, 149, 549, 581
FaqI	GGGAC	1 cut(s)	611
FatI	CATG	2 cut(s)	159, 186
FauNDI	CATATG	1 cut(s)	222
FbaI	TGATCA	1 cut(s)	694
Fnu4HI	GCNGC	5 cut(s)	249, 435, 647, 753, 776
FokI	GGATG	2 cut(s)	59, 515
FriOI	GRGCYC	1 cut(s)	168
Fsp4HI	GCNGC	5 cut(s)	249, 435, 647, 753, 776
GluI	GCNGC	5 cut(s)	249, 435, 647, 753, 776
GsaI	CCCAGC	1 cut(s)	294
HaeIII	GGCC	2 cut(s)	176, 248
HapII	CCGG	1 cut(s)	706
HgaI	GACGC	1 cut(s)	221
Hin1II	CATG	2 cut(s)	163, 190
HincII	GTYRAC	1 cut(s)	73
HindII	GTYRAC	1 cut(s)	73
HindIII	AAGCTT	1 cut(s)	267
HinfI	GANTC	4 cut(s)	33, 82, 350, 678
HpaII	CCGG	1 cut(s)	706
HphI	GGTGA	1 cut(s)	734
Hpy166II	GTNNAC	3 cut(s)	73, 585, 703
Hpy188I	TCNGA	5 cut(s)	10, 46, 355, 551, 596
Hpy188III	TCNNGA	6 cut(s)	79, 122, 138, 200, 377, 404
Hpy8I	GTNNAC	3 cut(s)	73, 585, 703
HpyAV	CCTTC	2 cut(s)	119, 166
HpyCH4IV	ACGT	1 cut(s)	69
HpyCH4V	TGCA	1 cut(s)	220
HpyF10VI	GCNNNNNNNGC	3 cut(s)	11, 248, 715
HpyF3I	CTNAG	6 cut(s)	57, 405, 457, 630, 712, 779
HpySE526I	ACGT	1 cut(s)	69
Hsp92II	CATG	2 cut(s)	163, 190
Ksp22I	TGATCA	1 cut(s)	694
Kzo9I	GATC	8 cut(s)	118, 183, 400, 408, 453, 505, 591, 694
LmnI	GCTCC	3 cut(s)	52, 128, 163
Lsp1109I	GCAGC	4 cut(s)	446, 658, 739, 787
LweI	GCATC	1 cut(s)	207
MaeII	ACGT	1 cut(s)	69
MaeIII	GTNAC	2 cut(s)	722, 803
MalI	GATC	8 cut(s)	120, 185, 402, 410, 455, 507, 593, 696
MboI	GATC	8 cut(s)	118, 183, 400, 408, 453, 505, 591, 694
MboII	GAAGA	3 cut(s)	542, 553, 754
MfeI	CAATTG	1 cut(s)	798
MflI	RGATCY	3 cut(s)	408, 453, 591
MhlI	GDGCHC	2 cut(s)	133, 168
MluCI	AATT	5 cut(s)	192, 471, 495, 597, 798
MlyI	GAGTC	1 cut(s)	359
MnlI	CCTC	9 cut(s)	16, 43, 52, 139, 238, 294, 349, 483, 774
Mph1103I	ATGCAT	1 cut(s)	222
MroXI	GAANNNNTTC	1 cut(s)	153
MseI	TTAA	4 cut(s)	273, 360, 477, 567
MspA1I	CMGCKG	1 cut(s)	778
MspCI	CTTAAG	1 cut(s)	476
MspI	CCGG	1 cut(s)	706
MspR9I	CCNGG	1 cut(s)	332
MunI	CAATTG	1 cut(s)	798
MvaI	CCWGG	1 cut(s)	332
MwoI	GCNNNNNNNGC	3 cut(s)	11, 248, 715
NdeI	CATATG	1 cut(s)	222
NdeII	GATC	8 cut(s)	118, 183, 400, 408, 453, 505, 591, 694
NlaIII	CATG	2 cut(s)	163, 190
NlaIV	GGNNCC	4 cut(s)	54, 165, 296, 593
NmeAIII	GCCGAG	1 cut(s)	202
NmuCI	GTSAC	1 cut(s)	722
NsiI	ATGCAT	1 cut(s)	222
NspV	TTCGAA	1 cut(s)	517
PcsI	WCGNNNNNNNCGW	1 cut(s)	75
PdmI	GAANNNNTTC	1 cut(s)	153
PfeI	GAWTC	3 cut(s)	33, 82, 678
PflMI	CCANNNNNTGG	1 cut(s)	371
PkrI	GCNGC	5 cut(s)	250, 436, 648, 754, 777
PleI	GAGTC	1 cut(s)	358
PpsI	GAGTC	1 cut(s)	358
Psp6I	CCWGG	1 cut(s)	330
PspEI	GGTNACC	1 cut(s)	803
PspFI	CCCAGC	1 cut(s)	290
PspGI	CCWGG	1 cut(s)	330
PspN4I	GGNNCC	4 cut(s)	54, 165, 296, 593
PsuI	RGATCY	3 cut(s)	408, 453, 591
PvuII	CAGCTG	1 cut(s)	778
RsaI	GTAC	2 cut(s)	41, 584
RsaNI	GTAC	2 cut(s)	40, 583
SaqAI	TTAA	4 cut(s)	273, 360, 477, 567
SatI	GCNGC	5 cut(s)	249, 435, 647, 753, 776
Sau3AI	GATC	8 cut(s)	118, 183, 400, 408, 453, 505, 591, 694
ScaI	AGTACT	1 cut(s)	41
SchI	GAGTC	1 cut(s)	359
ScrFI	CCNGG	1 cut(s)	332
SduI	GDGCHC	2 cut(s)	133, 168
SetI	ASST	9 cut(s)	72, 106, 271, 292, 360, 651, 731, 780, 785
SfaNI	GCATC	1 cut(s)	207
SfuI	TTCGAA	1 cut(s)	517
SmlI	CTYRAG	2 cut(s)	476, 555
SmoI	CTYRAG	2 cut(s)	476, 555
Sse9I	AATT	5 cut(s)	192, 471, 495, 597, 798
SsiI	CCGC	1 cut(s)	249
SspI	AATATT	3 cut(s)	89, 323, 666
StyD4I	CCNGG	1 cut(s)	330
TaiI	ACGT	1 cut(s)	72
TaqI	TCGA	4 cut(s)	36, 78, 517, 681
TasI	AATT	5 cut(s)	192, 471, 495, 597, 798
TatI	WGTACW	1 cut(s)	39
TauI	GCSGC	1 cut(s)	251
TfiI	GAWTC	3 cut(s)	33, 82, 678
Tru1I	TTAA	4 cut(s)	273, 360, 477, 567
Tru9I	TTAA	4 cut(s)	273, 360, 477, 567
TscAI	CASTG	2 cut(s)	242, 317
TseFI	GTSAC	1 cut(s)	722
TseI	GCWGC	4 cut(s)	434, 646, 752, 775
Tsp45I	GTSAC	1 cut(s)	722
TspDTI	ATGAA	4 cut(s)	300, 502, 595, 755
TspGWI	ACGGA	1 cut(s)	45
TspRI	CASTG	2 cut(s)	242, 317
Van91I	CCANNNNNTGG	1 cut(s)	371
Vha464I	CTTAAG	1 cut(s)	476
XapI	RAATTY	2 cut(s)	471, 597
XmnI	GAANNNNTTC	1 cut(s)	153
ZrmI	AGTACT	1 cut(s)	41
Zsp2I	ATGCAT	1 cut(s)	222

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