Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0016959

Physical Location & Seq

Genomic Coordinates Forward (+)

463945 .. 464783

Gene Structure 839 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG006900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 702 bp

ATGGGAAAAACACTTCATAAGTTCATCCACAAGTTCCCCAAATTAAACCTTGCAGCACATGTGCAGCCAATTACTCGAACTGTACTGAGGGTTGAGCTTACTATAACGCCTGACTTTCAATGGGAGGACAAATTTCATGGCTTCGTGGAGCCATTTTGGAAGCAGTATGTTGATGACGATCATACTTTGAACTTTAAATTTACTAACCCCTTCCGCCTCACTACAGTCACTACTTCATTCGTATTGTACCTCATTTTACCTGAAAAGTATCCTCCACCAACAGAGTTATTGGACCTGCAACCACTTCCTGTGACCACATTAAGGAATCCGCTATATGAAGCTCTGTATCAAGATTTCAAGCAGTTTAATACTGTCCAGACTCAGTTGCTTGCACCAACAGGGAGTGGGAAGACCATTTCTGATGAGTTTGCTGTATTGAGGGATCATCAGAAGGCCTCTGAAAGTGGCATTGTGTATATTGCCCCTGTTGAAGGTCTTGCCAAGGAATGGCACACTGACTGGCAAAAGAAGTTTGGAATGAGACCAAACTGTCTTAATCTGCGTGTTGTTGAATTAACAGGGGAAAGAGCCACAGATTTAAAGCTACCTGAAAAAGGTCAGATTATCATCAGACTCCAGATAAATGGGATGCTTTATCTCGCGGATGGAAACAGAGGAACCATGTACAACAACGACACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000354 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005682 GO:0005911 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009506 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0022613 GO:0022618 GO:0030054 GO:0030532 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0042623 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0046483 GO:0046540 GO:0055044 GO:0065003 GO:0070013 GO:0070035 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097525 GO:0097526 GO:0120114 GO:0140098 GO:1901360 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DEAD Helicase_C Sec63

Protein Analysis

233

Amino Acids

26.92

Weight (kDa)

7.06

Isoelectric Point (pI)

27.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sec63	PF02889	8 - 57	1.5e-10	Sec63 Brl domain
DEAD	PF00270	129 - 197	1.3e-06	DEAD/DEAH box helicase

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

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Orthologous Genes (Group: OG0016959)

Species	Orthologous Gene IDs
pyrus_communis	pycom04g21220 pycom12g23610
rosa_chinensis	RchiOBHm_Chr3g0448021
rosa_multiflora	Rmu_sc0005582.1_g000010 Rmu_sc0005969.1_g000017
rosa_rugosa	Rorug02G0607800
rosa_samantha	Rh3AG006900 Rh3AG007000 Rh3BG006600 Rh3BG006700 Rh3CG006800 Rh3CG006900 Rh3DG007200 Rh3DG007300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	549
Acc36I	ACCTGC	1 cut(s)	303
AccB7I	CCANNNNNTGG	1 cut(s)	507
AccII	CGCG	1 cut(s)	662
AciI	CCGC	3 cut(s)	214, 329, 662
AclWI	GGATC	1 cut(s)	450
AcsI	RAATTY	2 cut(s)	131, 197
AfaI	GTAC	3 cut(s)	84, 248, 686
AfiI	CCNNNNNNNGG	4 cut(s)	321, 491, 507, 614
AflIII	ACRYGT	1 cut(s)	58
AgsI	TTSAA	5 cut(s)	119, 190, 358, 491, 572
AluBI	AGCT	3 cut(s)	97, 341, 604
AluI	AGCT	3 cut(s)	97, 341, 604
Alw26I	GTCTC	1 cut(s)	535
AlwI	GGATC	1 cut(s)	450
AoxI	GGCC	1 cut(s)	453
ApeKI	GCWGC	2 cut(s)	53, 64
ApoI	RAATTY	2 cut(s)	131, 197
AspS9I	GGNCC	1 cut(s)	292
AvaII	GGWCC	1 cut(s)	292
BbsI	GAAGAC	1 cut(s)	416
BbvI	GCAGC	2 cut(s)	65, 76
BccI	CCATC	1 cut(s)	659
BciVI	GTATCC	1 cut(s)	279
BcoDI	GTCTC	1 cut(s)	535
BfmI	CTRYAG	1 cut(s)	222
BfuAI	ACCTGC	1 cut(s)	303
BfuI	GTATCC	1 cut(s)	279
BisI	GCNGC	2 cut(s)	54, 65
BlsI	GCNGC	2 cut(s)	55, 66
Bme18I	GGWCC	1 cut(s)	292
BmgT120I	GGNCC	1 cut(s)	292
BmiI	GGNNCC	2 cut(s)	150, 679
BmsI	GCATC	1 cut(s)	639
BpiI	GAAGAC	1 cut(s)	416
BpmI	CTGGAG	1 cut(s)	620
BsaBI	GATNNNNATC	2 cut(s)	177, 626
BsaI	GGTCTC	1 cut(s)	535
BsaJI	CCNNGG	1 cut(s)	501
Bsc4I	CCNNNNNNNGG	4 cut(s)	321, 491, 507, 614
Bse1I	ACTGG	1 cut(s)	524
Bse8I	GATNNNNATC	2 cut(s)	177, 626
BseDI	CCNNGG	1 cut(s)	501
BseGI	GGATG	3 cut(s)	24, 654, 670
BseJI	GATNNNNATC	2 cut(s)	177, 626
BseLI	CCNNNNNNNGG	4 cut(s)	321, 491, 507, 614
BseMII	CTCAG	2 cut(s)	77, 395
BseNI	ACTGG	1 cut(s)	524
BseXI	GCAGC	2 cut(s)	65, 76
BsgI	GTGCAG	1 cut(s)	83
Bsh1236I	CGCG	1 cut(s)	662
BshFI	GGCC	1 cut(s)	455
BslI	CCNNNNNNNGG	4 cut(s)	321, 491, 507, 614
BsmAI	GTCTC	1 cut(s)	535
BsnI	GGCC	1 cut(s)	455
Bso31I	GGTCTC	1 cut(s)	535
Bsp1407I	TGTACA	1 cut(s)	684
Bsp143I	GATC	2 cut(s)	178, 442
BspACI	CCGC	3 cut(s)	214, 329, 662
BspANI	GGCC	1 cut(s)	455
BspCNI	CTCAG	2 cut(s)	78, 394
BspFNI	CGCG	1 cut(s)	662
BspLI	GGNNCC	2 cut(s)	150, 679
BspMI	ACCTGC	1 cut(s)	303
BspPI	GGATC	1 cut(s)	450
BspTNI	GGTCTC	1 cut(s)	535
BsrGI	TGTACA	1 cut(s)	684
BsrI	ACTGG	1 cut(s)	524
BssECI	CCNNGG	1 cut(s)	501
BssMI	GATC	2 cut(s)	178, 442
BssT1I	CCWWGG	1 cut(s)	501
Bst4CI	ACNGT	4 cut(s)	82, 226, 373, 551
BstAUI	TGTACA	1 cut(s)	684
BstC8I	GCNNGC	1 cut(s)	390
BstDEI	CTNAG	2 cut(s)	86, 381
BstENI	CCTNNNNNAGG	2 cut(s)	489, 612
BstF5I	GGATG	3 cut(s)	24, 654, 670
BstFNI	CGCG	1 cut(s)	662
BstKTI	GATC	2 cut(s)	181, 445
BstMAI	GTCTC	1 cut(s)	535
BstMBI	GATC	2 cut(s)	178, 442
BstNSI	RCATGY	1 cut(s)	62
BstSFI	CTRYAG	1 cut(s)	222
BstUI	CGCG	1 cut(s)	662
BstV1I	GCAGC	2 cut(s)	65, 76
BstV2I	GAAGAC	1 cut(s)	416
BstXI	CCANNNNNNTGG	1 cut(s)	644
BsuI	GTATCC	1 cut(s)	279
BsuRI	GGCC	1 cut(s)	455
BtsCI	GGATG	3 cut(s)	24, 654, 670
BtsIMutI	CAGTG	1 cut(s)	513
BveI	ACCTGC	1 cut(s)	303
Cac8I	GCNNGC	1 cut(s)	390
Cfr13I	GGNCC	1 cut(s)	292
Csp6I	GTAC	3 cut(s)	83, 247, 685
CviAII	CATG	3 cut(s)	59, 137, 682
CviJI	RGCY	8 cut(s)	67, 97, 141, 151, 341, 455, 590, 604
CviKI_1	RGCY	8 cut(s)	67, 97, 141, 151, 341, 455, 590, 604
CviQI	GTAC	3 cut(s)	83, 247, 685
DdeI	CTNAG	2 cut(s)	86, 381
DpnI	GATC	2 cut(s)	180, 444
DpnII	GATC	2 cut(s)	178, 442
DraI	TTTAAA	2 cut(s)	196, 600
DrdI	GACNNNNNNGTC	1 cut(s)	549
DseDI	GACNNNNNNGTC	1 cut(s)	549
EciI	GGCGGA	1 cut(s)	203
Eco130I	CCWWGG	1 cut(s)	501
Eco147I	AGGCCT	1 cut(s)	455
Eco31I	GGTCTC	1 cut(s)	535
Eco47I	GGWCC	1 cut(s)	292
EcoNI	CCTNNNNNAGG	2 cut(s)	489, 612
EcoT14I	CCWWGG	1 cut(s)	501
ErhI	CCWWGG	1 cut(s)	501
FaeI	CATG	3 cut(s)	62, 140, 685
FatI	CATG	3 cut(s)	58, 136, 681
Fnu4HI	GCNGC	2 cut(s)	54, 65
FokI	GGATG	3 cut(s)	11, 661, 677
Fsp4HI	GCNGC	2 cut(s)	54, 65
GluI	GCNGC	2 cut(s)	54, 65
GsuI	CTGGAG	1 cut(s)	620
HaeIII	GGCC	1 cut(s)	455
Hin1II	CATG	3 cut(s)	62, 140, 685
HinfI	GANTC	3 cut(s)	325, 379, 633
Hpy188I	TCNGA	5 cut(s)	421, 450, 460, 621, 632
Hpy188III	TCNNGA	3 cut(s)	350, 376, 637
HpyAV	CCTTC	3 cut(s)	220, 445, 485
HpyCH4III	ACNGT	4 cut(s)	82, 226, 373, 551
HpyCH4V	TGCA	4 cut(s)	53, 64, 298, 392
HpyF3I	CTNAG	2 cut(s)	86, 381
Hsp92II	CATG	3 cut(s)	62, 140, 685
Kzo9I	GATC	2 cut(s)	178, 442
LmnI	GCTCC	1 cut(s)	148
Lsp1109I	GCAGC	2 cut(s)	65, 76
LweI	GCATC	1 cut(s)	639
MaeIII	GTNAC	2 cut(s)	226, 310
MalI	GATC	2 cut(s)	180, 444
MboI	GATC	2 cut(s)	178, 442
MboII	GAAGA	1 cut(s)	421
MluCI	AATT	5 cut(s)	41, 69, 131, 197, 572
MlyI	GAGTC	2 cut(s)	373, 627
MnlI	CCTC	8 cut(s)	81, 118, 227, 260, 282, 432, 466, 668
MseI	TTAA	7 cut(s)	44, 195, 320, 366, 555, 575, 599
MvnI	CGCG	1 cut(s)	662
NdeII	GATC	2 cut(s)	178, 442
NlaIII	CATG	3 cut(s)	62, 140, 685
NlaIV	GGNNCC	2 cut(s)	150, 679
NmuCI	GTSAC	2 cut(s)	226, 310
NspI	RCATGY	1 cut(s)	62
PceI	AGGCCT	1 cut(s)	455
PciI	ACATGT	1 cut(s)	58
PfeI	GAWTC	1 cut(s)	325
PflMI	CCANNNNNTGG	1 cut(s)	507
PkrI	GCNGC	2 cut(s)	55, 66
PleI	GAGTC	2 cut(s)	373, 627
PpsI	GAGTC	2 cut(s)	373, 627
PscI	ACATGT	1 cut(s)	58
PspN4I	GGNNCC	2 cut(s)	150, 679
PspPI	GGNCC	1 cut(s)	292
RsaI	GTAC	3 cut(s)	84, 248, 686
RsaNI	GTAC	3 cut(s)	83, 247, 685
SaqAI	TTAA	7 cut(s)	44, 195, 320, 366, 555, 575, 599
SatI	GCNGC	2 cut(s)	54, 65
Sau3AI	GATC	2 cut(s)	178, 442
Sau96I	GGNCC	1 cut(s)	292
SchI	GAGTC	2 cut(s)	373, 627
SfaNI	GCATC	1 cut(s)	639
SfcI	CTRYAG	1 cut(s)	222
SinI	GGWCC	1 cut(s)	292
Sse9I	AATT	5 cut(s)	41, 69, 131, 197, 572
SseBI	AGGCCT	1 cut(s)	455
SsiI	CCGC	3 cut(s)	214, 329, 662
StuI	AGGCCT	1 cut(s)	455
StyI	CCWWGG	1 cut(s)	501
TaaI	ACNGT	4 cut(s)	82, 226, 373, 551
TaqI	TCGA	1 cut(s)	76
TasI	AATT	5 cut(s)	41, 69, 131, 197, 572
TatI	WGTACW	2 cut(s)	82, 684
TfiI	GAWTC	1 cut(s)	325
Tru1I	TTAA	7 cut(s)	44, 195, 320, 366, 555, 575, 599
Tru9I	TTAA	7 cut(s)	44, 195, 320, 366, 555, 575, 599
TscAI	CASTG	1 cut(s)	520
TseFI	GTSAC	2 cut(s)	226, 310
TseI	GCWGC	2 cut(s)	53, 64
Tsp45I	GTSAC	2 cut(s)	226, 310
TspDTI	ATGAA	5 cut(s)	5, 13, 125, 225, 351
TspRI	CASTG	1 cut(s)	520
Van91I	CCANNNNNTGG	1 cut(s)	507
VpaK11BI	GGWCC	1 cut(s)	292
XagI	CCTNNNNNAGG	2 cut(s)	489, 612
XapI	RAATTY	2 cut(s)	131, 197
XceI	RCATGY	1 cut(s)	62

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