Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0002339

Physical Location & Seq

Genomic Coordinates Forward (+)

55286292 .. 55289895

Gene Structure 3604 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG388500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGTATGGGAGAAAAGCCAGCCAATTGGTCAAAGAAATTGCAAGCGGCGAAAAGGGGCAGCTCACACCTTTCAGTAGTGACCTGTTTGATGAAGTAATTGAAGAATGTAAACAGCATTATCATGAGCTTGAATGCTTGATAAGGAGAATGGAGGAACAAGGATTGAATGTCGAGACAGCTAAAAATGAGGACCACTATGGGGCACTCATCCACCACCTCTCTTTAGTTCGCAACAAACGCTGTTTGATGGCATACCTGTACAACCGAGCAGAAATTTTACGAGCTCTGATGTGGAAGGTAGGGTCTGTAATTCCTGAAGAAATAAAAGAGAAACTCAGCTACTCAGAGAAAGAGTACATTACAAAACATTCAGCATCTTTAAAAAAATATATGGCAAGTGTGGAACTCGATTTGGAAGTGGATATGGTGCCGCCGAAAGATCCCTACATCAAGGTGAGAGTTCTTGATGACATGGGTGGAGAGATACTACTCAGCGATGACAAGAAAGCAAATTTTACTCGTCACTCAATGCATTTTCTTAAACGAACTGATGCCGAACAGCTCATCTCACAGGTATGCTCTTACACCCGACAGCTTCAATACTCCATTTGGATTCCCAATTTTCTAACCAAGGTACTGAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Sld5

Protein Analysis

214

Amino Acids

24.95

Weight (kDa)

6.46

Isoelectric Point (pI)

53.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sld5	PF05916	63 - 134	1.3e-13	GINS complex protein helical bundle domain
PSF1_C	PF24997	146 - 193	1.4e-26	PSF1 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

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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: OG0002339)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G80190 AT1G80190 AT1G80190 AT1G80190 AT1G80190 AT1G80190
fragaria_vesca	FvH4_1g25440 FvH4_1g25440 FvH4_1g25440 FvH4_1g25440 FvH4_1g25440 FvH4_6g30230
malus_domestica	MD17G1206800.v1.1
prunus_persica	Prupe.3G081400_v2.0.a1 Prupe.3G081400_v2.0.a1 Prupe.3G081400_v2.0.a1 Prupe.3G081400_v2.0.a1 Prupe.3G081400_v2.0.a1
pyrus_communis	pycom17g20960
rosa_chinensis	RchiOBHm_Chr2g0123461 RchiOBHm_Chr2g0136471
rosa_laevigata	RLG00000018757 RLG00000019534
rosa_multiflora	Rmu_co8456461.1_g000001 Rmu_sc0001998.1_g000001 Rmu_sc0005876.1_g000002 Rmu_sc0038680.1_g000001
rosa_roxburghii	Rroxscaffold_2G00108260 Rroxscaffold_2G00120610
rosa_rugosa	Rorug02G0246000 Rorug02G0330800 Rorug02G0330900
rosa_samantha	Rh2AG304600 Rh2AG381800 Rh2BG312700 Rh2BG388500 Rh2CG291100 Rh2CG368200 Rh2DG328600 Rh2DG405000
rosa_wichuraiana	Rw2G024410 Rw2G031210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	427
AciI	CCGC	2 cut(s)	45, 431
AclWI	GGATC	1 cut(s)	434
AcsI	RAATTY	2 cut(s)	273, 511
AcuI	CTGAAG	1 cut(s)	336
AfaI	GTAC	3 cut(s)	260, 356, 636
AfiI	CCNNNNNNNGG	1 cut(s)	199
AgsI	TTSAA	4 cut(s)	101, 131, 166, 599
AluBI	AGCT	7 cut(s)	61, 127, 179, 284, 339, 562, 595
AluI	AGCT	7 cut(s)	61, 127, 179, 284, 339, 562, 595
Alw21I	GWGCWC	1 cut(s)	286
Alw26I	GTCTC	1 cut(s)	167
AlwI	GGATC	1 cut(s)	434
ApeKI	GCWGC	1 cut(s)	58
ApoI	RAATTY	2 cut(s)	273, 511
AspS9I	GGNCC	1 cut(s)	190
AsuHPI	GGTGA	1 cut(s)	466
AvaII	GGWCC	1 cut(s)	190
BaeGI	GKGCMC	1 cut(s)	205
BanI	GGYRCC	1 cut(s)	427
BanII	GRGCYC	1 cut(s)	286
Bbv12I	GWGCWC	1 cut(s)	286
BbvI	GCAGC	1 cut(s)	70
BccI	CCATC	1 cut(s)	241
BcoDI	GTCTC	1 cut(s)	167
BisI	GCNGC	3 cut(s)	46, 59, 431
BlsI	GCNGC	3 cut(s)	47, 60, 432
Bme18I	GGWCC	1 cut(s)	190
BmgT120I	GGNCC	1 cut(s)	190
BmiI	GGNNCC	1 cut(s)	429
BmsI	GCATC	2 cut(s)	383, 541
BsaJI	CCNNGG	1 cut(s)	630
Bsc4I	CCNNNNNNNGG	1 cut(s)	199
BseDI	CCNNGG	1 cut(s)	630
BseGI	GGATG	1 cut(s)	207
BseLI	CCNNNNNNNGG	1 cut(s)	199
BseMII	CTCAG	3 cut(s)	349, 357, 505
BseSI	GKGCMC	1 cut(s)	205
BseXI	GCAGC	1 cut(s)	70
BshNI	GGYRCC	1 cut(s)	427
BsiHKAI	GWGCWC	1 cut(s)	286
BslI	CCNNNNNNNGG	1 cut(s)	199
BsmAI	GTCTC	1 cut(s)	167
BsmI	GAATGC	1 cut(s)	137
Bsp1286I	GDGCHC	2 cut(s)	205, 286
Bsp1407I	TGTACA	1 cut(s)	258
Bsp143I	GATC	1 cut(s)	439
BspACI	CCGC	2 cut(s)	45, 431
BspCNI	CTCAG	3 cut(s)	348, 356, 504
BspHI	TCATGA	1 cut(s)	121
BspLI	GGNNCC	1 cut(s)	429
BspPI	GGATC	1 cut(s)	434
BspT107I	GGYRCC	1 cut(s)	427
BsrGI	TGTACA	1 cut(s)	258
BssECI	CCNNGG	1 cut(s)	630
BssMI	GATC	1 cut(s)	439
BssT1I	CCWWGG	1 cut(s)	630
BstAUI	TGTACA	1 cut(s)	258
BstC8I	GCNNGC	2 cut(s)	19, 43
BstDEI	CTNAG	3 cut(s)	335, 343, 491
BstF5I	GGATG	1 cut(s)	207
BstKTI	GATC	1 cut(s)	442
BstMAI	GTCTC	1 cut(s)	167
BstMBI	GATC	1 cut(s)	439
BstMWI	GCNNNNNNNGC	1 cut(s)	237
BstSLI	GKGCMC	1 cut(s)	205
BstV1I	GCAGC	1 cut(s)	70
BstX2I	RGATCY	1 cut(s)	439
BstXI	CCANNNNNNTGG	1 cut(s)	25
BstYI	RGATCY	1 cut(s)	439
BtgZI	GCGATG	1 cut(s)	510
BtsCI	GGATG	1 cut(s)	207
Cac8I	GCNNGC	2 cut(s)	19, 43
CciI	TCATGA	1 cut(s)	121
Cfr13I	GGNCC	1 cut(s)	190
Csp6I	GTAC	3 cut(s)	259, 355, 635
CviAII	CATG	2 cut(s)	122, 472
CviJI	RGCY	9 cut(s)	17, 21, 61, 127, 179, 284, 339, 562, 595
CviKI_1	RGCY	9 cut(s)	17, 21, 61, 127, 179, 284, 339, 562, 595
CviQI	GTAC	3 cut(s)	259, 355, 635
DdeI	CTNAG	3 cut(s)	335, 343, 491
DpnI	GATC	1 cut(s)	441
DpnII	GATC	1 cut(s)	439
DraI	TTTAAA	1 cut(s)	381
Ecl136II	GAGCTC	1 cut(s)	284
Eco130I	CCWWGG	1 cut(s)	630
Eco24I	GRGCYC	1 cut(s)	286
Eco47I	GGWCC	1 cut(s)	190
Eco53kI	GAGCTC	1 cut(s)	284
Eco57I	CTGAAG	1 cut(s)	336
EcoICRI	GAGCTC	1 cut(s)	284
EcoT14I	CCWWGG	1 cut(s)	630
EcoT22I	ATGCAT	1 cut(s)	534
EcoT38I	GRGCYC	1 cut(s)	286
ErhI	CCWWGG	1 cut(s)	630
FaeI	CATG	2 cut(s)	125, 475
FaiI	YATR	9 cut(s)	6, 123, 198, 253, 390, 392, 425, 473, 577
FatI	CATG	2 cut(s)	121, 471
Fnu4HI	GCNGC	3 cut(s)	46, 59, 431
FokI	GGATG	1 cut(s)	194
FriOI	GRGCYC	1 cut(s)	286
Fsp4HI	GCNGC	3 cut(s)	46, 59, 431
GluI	GCNGC	3 cut(s)	46, 59, 431
Hin1II	CATG	2 cut(s)	125, 475
HinfI	GANTC	1 cut(s)	613
HphI	GGTGA	1 cut(s)	466
Hpy166II	GTNNAC	1 cut(s)	110
Hpy188I	TCNGA	2 cut(s)	288, 346
Hpy188III	TCNNGA	4 cut(s)	122, 172, 314, 464
Hpy8I	GTNNAC	1 cut(s)	110
HpyAV	CCTTC	1 cut(s)	289
HpyCH4V	TGCA	2 cut(s)	41, 532
HpyF10VI	GCNNNNNNNGC	1 cut(s)	237
HpyF3I	CTNAG	3 cut(s)	335, 343, 491
Hsp92II	CATG	2 cut(s)	125, 475
Kzo9I	GATC	1 cut(s)	439
LpnPI	CCDG	5 cut(s)	31, 95, 269, 327, 557
Lsp1109I	GCAGC	1 cut(s)	70
LweI	GCATC	2 cut(s)	383, 541
MaeIII	GTNAC	2 cut(s)	77, 521
MalI	GATC	1 cut(s)	441
MboI	GATC	1 cut(s)	439
MboII	GAAGA	2 cut(s)	113, 329
MfeI	CAATTG	1 cut(s)	23
MflI	RGATCY	1 cut(s)	439
MhlI	GDGCHC	2 cut(s)	205, 286
MluCI	AATT	7 cut(s)	23, 36, 96, 273, 309, 511, 619
MnlI	CCTC	3 cut(s)	145, 181, 227
Mph1103I	ATGCAT	1 cut(s)	534
MseI	TTAA	2 cut(s)	380, 540
MslI	CAYNNNNRTG	3 cut(s)	120, 452, 574
MunI	CAATTG	1 cut(s)	23
Mva1269I	GAATGC	1 cut(s)	137
MwoI	GCNNNNNNNGC	1 cut(s)	237
NdeII	GATC	1 cut(s)	439
NlaIII	CATG	2 cut(s)	125, 475
NlaIV	GGNNCC	1 cut(s)	429
NmuCI	GTSAC	2 cut(s)	77, 521
NsiI	ATGCAT	1 cut(s)	534
PagI	TCATGA	1 cut(s)	121
PctI	GAATGC	1 cut(s)	137
PfeI	GAWTC	1 cut(s)	613
PkrI	GCNGC	3 cut(s)	47, 60, 432
Psp124BI	GAGCTC	1 cut(s)	286
PspN4I	GGNNCC	1 cut(s)	429
PspPI	GGNCC	1 cut(s)	190
PsuI	RGATCY	1 cut(s)	439
RsaI	GTAC	3 cut(s)	260, 356, 636
RsaNI	GTAC	3 cut(s)	259, 355, 635
RseI	CAYNNNNRTG	3 cut(s)	120, 452, 574
SacI	GAGCTC	1 cut(s)	286
SaqAI	TTAA	2 cut(s)	380, 540
SatI	GCNGC	3 cut(s)	46, 59, 431
Sau3AI	GATC	1 cut(s)	439
Sau96I	GGNCC	1 cut(s)	190
SduI	GDGCHC	2 cut(s)	205, 286
SfaNI	GCATC	2 cut(s)	383, 541
SinI	GGWCC	1 cut(s)	190
SmiMI	CAYNNNNRTG	3 cut(s)	120, 452, 574
Sse9I	AATT	7 cut(s)	23, 36, 96, 273, 309, 511, 619
SsiI	CCGC	2 cut(s)	45, 431
SstI	GAGCTC	1 cut(s)	286
StyI	CCWWGG	1 cut(s)	630
TaqI	TCGA	2 cut(s)	171, 408
TasI	AATT	7 cut(s)	23, 36, 96, 273, 309, 511, 619
TatI	WGTACW	2 cut(s)	258, 354
TauI	GCSGC	2 cut(s)	48, 433
TfiI	GAWTC	1 cut(s)	613
Tru1I	TTAA	2 cut(s)	380, 540
Tru9I	TTAA	2 cut(s)	380, 540
TseFI	GTSAC	2 cut(s)	77, 521
TseI	GCWGC	1 cut(s)	58
Tsp45I	GTSAC	2 cut(s)	77, 521
TspDTI	ATGAA	1 cut(s)	105
VpaK11BI	GGWCC	1 cut(s)	190
XapI	RAATTY	2 cut(s)	273, 511
Zsp2I	ATGCAT	1 cut(s)	534

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