Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001616

Physical Location & Seq

Genomic Coordinates Forward (+)

36132596 .. 36150129

Gene Structure 17534 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG328600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 657 bp

ATGTTGATGTTGATGGGCGATTTCAATGTCGGCCAAGAGGAAAGAGTGATGTTGATGGAGGCTTCTGCAAATCAAAAGAGATTAGCTATACAAGCATTCTTGAGAAGTTCATCAGTAGTTGTGACTGCGCCGACGAGTAGCGGAAAGACTTTGATAGCAGAAGCTGCTGCTGTAGCAACCGTAGCCAAGGGAAGAAGATTGTTCTACACAACTCCGCTTAAGGCCTTATTGAATCAGAAGTTTCGCGAATTTCGTGAAACTTTTGGTGAAAATAATGTTGGTCTTCTCACGGGAGATTCGGCAGTAAACGAAGATGCTCAGGTTTTTATTATGACCATAGAGATTTTGCGCAACATGTTGTATCAGAGGTACATTGATTATGAATTTATGCAGCAAGCATGGGGCCAGCTTGTTGTGATCTACTCACGAATATTAGAGAATCCGTACCAACAACTGGATCGATATTTAAACAGTTTTAAGGAGTTAGCTGGAAGTCGGCCTCTCTCAGATTTGAGAACAGCTGAAGAAGCTGCTGCTGCTGGTGCCACTTCAGAGGATGGTGTACAAGCAAACGGGCTTCCTAGACGTTACAAGTTTACAATTATAAGCAGTGCTGCCATTAAAGCATCTATAATACTTGTTGCTATCGGACCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000373 GO:0000375 GO:0000377 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006810 GO:0007275 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009790 GO:0009791 GO:0009793 GO:0009892 GO:0009987 GO:0010154 GO:0010467 GO:0010468 GO:0010494 GO:0010496 GO:0010497 GO:0010501 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016071 GO:0016441 GO:0016458 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019222 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0035770 GO:0036464 GO:0040029 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048316 GO:0048519 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0051179 GO:0051234 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD DSHCT Helicase_C

Protein Analysis

218

Amino Acids

24.16

Weight (kDa)

7.88

Isoelectric Point (pI)

36.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	27 - 122	6.8e-14	DEAD/DEAH box helicase
ResIII	PF04851	35 - 120	2.1e-06	Type III restriction enzyme, res subunit
HAT_PRP39_N	PF23240	113 - 161	5.9e-07	PRP39 N-terminal HAT repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001616)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0102891
rosa_laevigata	RLG00000003325 RLG00000010663 RLG00000014743 RLG00000021608 RLG00000028731
rosa_multiflora	Rmu_co8212272.1_g000001 Rmu_co8257291.1_g000001 Rmu_sc0000375.1_g000004 Rmu_sc0001619.1_g000004 Rmu_sc0002160.1_g000017 Rmu_sc0002960.1_g000003 Rmu_sc0004031.1_g000010 Rmu_sc0011657.1_g000008 Rmu_sc0014046.1_g000004
rosa_roxburghii	Rroxscaffold_1G00024170 Rroxscaffold_2G00149140 Rroxscaffold_5G00382470
rosa_rugosa	Rorug02G0226400 Rorug02G0226500 Rorug04G0046600 Rorug05G0408800 Rorug05G0408900 Rorug06G0089500 Rorug06G0089600 Rorug06G0089700.1 Rorug06G0089800
rosa_samantha	Rh1BG120900 Rh2AG219500 Rh2AG390100 Rh2BG229500 Rh2CG165000 Rh2DG225900 Rh2DG381600 Rh3BG369300 Rh3CG331600 Rh3DG328600 Rh4AG016000 Rh4AG058100 Rh4BG056900 Rh4CG112600 Rh4CG219300 Rh4CG219400 Rh4DG021700 Rh5DG477800 Rh5DG495600 Rh7AG221500 Rh7AG324600 Rh7CG341400
rosa_wichuraiana	Rw1G015160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	605
Acc16I	TGCGCA	1 cut(s)	350
AccB1I	GGYRCC	1 cut(s)	542
AccB7I	CCANNNNNTGG	1 cut(s)	454
AccII	CGCG	1 cut(s)	246
AciI	CCGC	2 cut(s)	141, 215
AclWI	GGATC	1 cut(s)	465
AcoI	YGGCCR	1 cut(s)	31
AcsI	RAATTY	2 cut(s)	248, 383
AcuI	CTGAAG	2 cut(s)	534, 543
AfaI	GTAC	3 cut(s)	371, 446, 564
AfiI	CCNNNNNNNGG	1 cut(s)	454
AflII	CTTAAG	1 cut(s)	218
AflIII	ACRYGT	1 cut(s)	354
AgsI	TTSAA	2 cut(s)	25, 232
AjuI	GAANNNNNNNTTGG	2 cut(s)	261, 293
AluBI	AGCT	6 cut(s)	86, 164, 409, 488, 521, 530
AluI	AGCT	6 cut(s)	86, 164, 409, 488, 521, 530
AlwI	GGATC	1 cut(s)	465
AlwNI	CAGNNNCTG	1 cut(s)	164
AoxI	GGCC	4 cut(s)	31, 222, 403, 497
ApeKI	GCWGC	7 cut(s)	164, 167, 391, 530, 533, 536, 614
ApoI	RAATTY	2 cut(s)	248, 383
AspLEI	GCGC	2 cut(s)	130, 351
AspS9I	GGNCC	2 cut(s)	403, 650
AsuHPI	GGTGA	1 cut(s)	278
AvaII	GGWCC	1 cut(s)	650
BanI	GGYRCC	1 cut(s)	542
BbsI	GAAGAC	1 cut(s)	275
BbvI	GCAGC	7 cut(s)	151, 154, 403, 517, 520, 523, 601
BccI	CCATC	3 cut(s)	7, 49, 551
BfaI	CTAG	1 cut(s)	582
BfmI	CTRYAG	1 cut(s)	171
BfrI	CTTAAG	1 cut(s)	218
BisI	GCNGC	7 cut(s)	165, 168, 392, 531, 534, 537, 615
BlsI	GCNGC	7 cut(s)	166, 169, 393, 532, 535, 538, 616
Bme18I	GGWCC	1 cut(s)	650
BmgT120I	GGNCC	2 cut(s)	403, 650
BmiI	GGNNCC	3 cut(s)	404, 544, 652
BmsI	GCATC	2 cut(s)	304, 635
BpiI	GAAGAC	1 cut(s)	275
Bpu10I	CCTNAGC	1 cut(s)	318
BpuEI	CTTGAG	1 cut(s)	121
Bsa29I	ATCGAT	1 cut(s)	460
BsaJI	CCNNGG	1 cut(s)	186
Bsc4I	CCNNNNNNNGG	1 cut(s)	454
Bse1I	ACTGG	1 cut(s)	459
BseCI	ATCGAT	1 cut(s)	460
BseDI	CCNNGG	1 cut(s)	186
BseGI	GGATG	1 cut(s)	562
BseLI	CCNNNNNNNGG	1 cut(s)	454
BseMII	CTCAG	2 cut(s)	332, 519
BseNI	ACTGG	1 cut(s)	459
BseXI	GCAGC	7 cut(s)	151, 154, 403, 517, 520, 523, 601
Bsh1236I	CGCG	1 cut(s)	246
BshFI	GGCC	4 cut(s)	33, 224, 405, 499
BshNI	GGYRCC	1 cut(s)	542
BshVI	ATCGAT	1 cut(s)	460
BslI	CCNNNNNNNGG	1 cut(s)	454
BsmI	GAATGC	1 cut(s)	95
BsnI	GGCC	4 cut(s)	33, 224, 405, 499
Bsp1407I	TGTACA	1 cut(s)	562
Bsp143I	GATC	2 cut(s)	417, 457
Bsp68I	TCGCGA	1 cut(s)	246
BspACI	CCGC	2 cut(s)	141, 215
BspANI	GGCC	4 cut(s)	33, 224, 405, 499
BspCNI	CTCAG	2 cut(s)	331, 518
BspDI	ATCGAT	1 cut(s)	460
BspFNI	CGCG	1 cut(s)	246
BspLI	GGNNCC	3 cut(s)	404, 544, 652
BspPI	GGATC	1 cut(s)	465
BspT107I	GGYRCC	1 cut(s)	542
BspTI	CTTAAG	1 cut(s)	218
BsrGI	TGTACA	1 cut(s)	562
BsrI	ACTGG	1 cut(s)	459
BssECI	CCNNGG	1 cut(s)	186
BssMI	GATC	2 cut(s)	417, 457
BssT1I	CCWWGG	1 cut(s)	186
Bst4CI	ACNGT	2 cut(s)	181, 473
BstAFI	CTTAAG	1 cut(s)	218
BstAPI	GCANNNNNTGC	1 cut(s)	164
BstAUI	TGTACA	1 cut(s)	562
BstC8I	GCNNGC	2 cut(s)	396, 407
BstDEI	CTNAG	2 cut(s)	318, 505
BstF5I	GGATG	1 cut(s)	562
BstFNI	CGCG	1 cut(s)	246
BstHHI	GCGC	2 cut(s)	130, 351
BstKTI	GATC	2 cut(s)	420, 460
BstMBI	GATC	2 cut(s)	417, 457
BstMWI	GCNNNNNNNGC	8 cut(s)	92, 164, 173, 182, 527, 536, 542, 623
BstNSI	RCATGY	1 cut(s)	358
BstSFI	CTRYAG	1 cut(s)	171
BstUI	CGCG	1 cut(s)	246
BstV1I	GCAGC	7 cut(s)	151, 154, 403, 517, 520, 523, 601
BstV2I	GAAGAC	1 cut(s)	275
Bsu15I	ATCGAT	1 cut(s)	460
BsuRI	GGCC	4 cut(s)	33, 224, 405, 499
BsuTUI	ATCGAT	1 cut(s)	460
BtsCI	GGATG	1 cut(s)	562
BtsI	GCAGTG	1 cut(s)	616
BtsIMutI	CAGTG	1 cut(s)	616
BtuMI	TCGCGA	1 cut(s)	246
Cac8I	GCNNGC	2 cut(s)	396, 407
CaiI	CAGNNNCTG	1 cut(s)	164
CfoI	GCGC	2 cut(s)	130, 351
Cfr13I	GGNCC	2 cut(s)	403, 650
ClaI	ATCGAT	1 cut(s)	460
Csp6I	GTAC	3 cut(s)	370, 445, 563
CviAII	CATG	2 cut(s)	355, 399
CviQI	GTAC	3 cut(s)	370, 445, 563
DdeI	CTNAG	2 cut(s)	318, 505
DpnI	GATC	2 cut(s)	419, 459
DpnII	GATC	2 cut(s)	417, 457
DraI	TTTAAA	1 cut(s)	468
EaeI	YGGCCR	1 cut(s)	31
Eco130I	CCWWGG	1 cut(s)	186
Eco147I	AGGCCT	1 cut(s)	224
Eco47I	GGWCC	1 cut(s)	650
Eco57I	CTGAAG	2 cut(s)	534, 543
EcoT14I	CCWWGG	1 cut(s)	186
ErhI	CCWWGG	1 cut(s)	186
FaeI	CATG	2 cut(s)	358, 402
FaiI	YATR	9 cut(s)	89, 332, 338, 356, 381, 389, 400, 605, 632
FatI	CATG	2 cut(s)	354, 398
Fnu4HI	GCNGC	7 cut(s)	165, 168, 392, 531, 534, 537, 615
FokI	GGATG	1 cut(s)	569
Fsp4HI	GCNGC	7 cut(s)	165, 168, 392, 531, 534, 537, 615
FspBI	CTAG	1 cut(s)	582
FspI	TGCGCA	1 cut(s)	350
GlaI	GCGC	2 cut(s)	129, 350
GluI	GCNGC	7 cut(s)	165, 168, 392, 531, 534, 537, 615
HaeIII	GGCC	4 cut(s)	33, 224, 405, 499
HhaI	GCGC	2 cut(s)	130, 351
Hin1II	CATG	2 cut(s)	358, 402
Hin6I	GCGC	2 cut(s)	128, 349
HinP1I	GCGC	2 cut(s)	128, 349
HinfI	GANTC	3 cut(s)	232, 296, 439
HphI	GGTGA	1 cut(s)	278
Hpy166II	GTNNAC	3 cut(s)	307, 563, 597
Hpy188I	TCNGA	5 cut(s)	237, 366, 508, 553, 650
Hpy188III	TCNNGA	4 cut(s)	100, 245, 254, 426
Hpy8I	GTNNAC	3 cut(s)	307, 563, 597
Hpy99I	CGWCG	1 cut(s)	136
HpyCH4III	ACNGT	2 cut(s)	181, 473
HpyCH4IV	ACGT	1 cut(s)	586
HpyCH4V	TGCA	2 cut(s)	68, 391
HpyF10VI	GCNNNNNNNGC	8 cut(s)	92, 164, 173, 182, 527, 536, 542, 623
HpyF3I	CTNAG	2 cut(s)	318, 505
HpySE526I	ACGT	1 cut(s)	586
Hsp92II	CATG	2 cut(s)	358, 402
HspAI	GCGC	2 cut(s)	128, 349
Kzo9I	GATC	2 cut(s)	417, 457
LpnPI	CCDG	5 cut(s)	305, 419, 440, 474, 525
Lsp1109I	GCAGC	7 cut(s)	151, 154, 403, 517, 520, 523, 601
LweI	GCATC	2 cut(s)	304, 635
MaeI	CTAG	1 cut(s)	582
MaeII	ACGT	1 cut(s)	586
MaeIII	GTNAC	2 cut(s)	121, 587
MalI	GATC	2 cut(s)	419, 459
MboI	GATC	2 cut(s)	417, 457
MboII	GAAGA	5 cut(s)	204, 207, 275, 323, 536
MluCI	AATT	3 cut(s)	248, 383, 600
MnlI	CCTC	5 cut(s)	31, 52, 360, 510, 547
MseI	TTAA	4 cut(s)	219, 467, 477, 621
MspA1I	CMGCKG	1 cut(s)	521
MspCI	CTTAAG	1 cut(s)	218
Mva1269I	GAATGC	1 cut(s)	95
MvnI	CGCG	1 cut(s)	246
MwoI	GCNNNNNNNGC	8 cut(s)	92, 164, 173, 182, 527, 536, 542, 623
NdeII	GATC	2 cut(s)	417, 457
NlaIII	CATG	2 cut(s)	358, 402
NlaIV	GGNNCC	3 cut(s)	404, 544, 652
NmuCI	GTSAC	1 cut(s)	121
NruI	TCGCGA	1 cut(s)	246
NsbI	TGCGCA	1 cut(s)	350
NspI	RCATGY	1 cut(s)	358
PceI	AGGCCT	1 cut(s)	224
PciI	ACATGT	1 cut(s)	354
PcsI	WCGNNNNNNNCGW	1 cut(s)	250
PctI	GAATGC	1 cut(s)	95
PfeI	GAWTC	3 cut(s)	232, 296, 439
PflMI	CCANNNNNTGG	1 cut(s)	454
PkrI	GCNGC	7 cut(s)	166, 169, 393, 532, 535, 538, 616
PscI	ACATGT	1 cut(s)	354
PsiI	TTATAA	1 cut(s)	605
PspN4I	GGNNCC	3 cut(s)	404, 544, 652
PspPI	GGNCC	2 cut(s)	403, 650
PstNI	CAGNNNCTG	1 cut(s)	164
PvuII	CAGCTG	1 cut(s)	521
RruI	TCGCGA	1 cut(s)	246
RsaI	GTAC	3 cut(s)	371, 446, 564
RsaNI	GTAC	3 cut(s)	370, 445, 563
SaqAI	TTAA	4 cut(s)	219, 467, 477, 621
SatI	GCNGC	7 cut(s)	165, 168, 392, 531, 534, 537, 615
Sau3AI	GATC	2 cut(s)	417, 457
Sau96I	GGNCC	2 cut(s)	403, 650
SetI	ASST	9 cut(s)	88, 166, 324, 371, 411, 490, 523, 532, 589
SfaNI	GCATC	2 cut(s)	304, 635
SfcI	CTRYAG	1 cut(s)	171
SinI	GGWCC	1 cut(s)	650
SmlI	CTYRAG	2 cut(s)	100, 218
SmoI	CTYRAG	2 cut(s)	100, 218
Sse9I	AATT	3 cut(s)	248, 383, 600
SseBI	AGGCCT	1 cut(s)	224
SsiI	CCGC	2 cut(s)	141, 215
SspI	AATATT	1 cut(s)	432
SspMI	CTAG	1 cut(s)	582
StuI	AGGCCT	1 cut(s)	224
StyI	CCWWGG	1 cut(s)	186
TaaI	ACNGT	2 cut(s)	181, 473
TaiI	ACGT	1 cut(s)	589
TaqI	TCGA	1 cut(s)	460
TasI	AATT	3 cut(s)	248, 383, 600
TatI	WGTACW	1 cut(s)	562
TfiI	GAWTC	3 cut(s)	232, 296, 439
Tru1I	TTAA	4 cut(s)	219, 467, 477, 621
Tru9I	TTAA	4 cut(s)	219, 467, 477, 621
TscAI	CASTG	1 cut(s)	616
TseFI	GTSAC	1 cut(s)	121
TseI	GCWGC	7 cut(s)	164, 167, 391, 530, 533, 536, 614
Tsp45I	GTSAC	1 cut(s)	121
TspDTI	ATGAA	2 cut(s)	99, 396
TspGWI	ACGGA	1 cut(s)	432
TspRI	CASTG	1 cut(s)	616
Van91I	CCANNNNNTGG	1 cut(s)	454
Vha464I	CTTAAG	1 cut(s)	218
VpaK11BI	GGWCC	1 cut(s)	650
XapI	RAATTY	2 cut(s)	248, 383
XceI	RCATGY	1 cut(s)	358
XspI	CTAG	1 cut(s)	582

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