Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001063

Physical Location & Seq

Genomic Coordinates Reverse (-)

8751323 .. 8770443

Gene Structure 19121 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG107300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGGGAGTCATTGGTGAAGTGCCTGATATTATACTCAGATGTGTTAGTCGAGATGAGGCCGCCTTGGCTGTGGCTCAAAAGGTTTTCAAGGGTTTGTACGAGAATGCAACAAACCAGATTCATGTTGGCGCACATCTAGCAATGCTGATTGCGATTCGTGATGTTTGCAAGCTTGTCTTTACGCAGCTCAATAGTTGGAAGCAAGATGCATTGCAATCGCTTCATGATCTTATTACATCAAAGAGATATAGAGCATGGCAGAAGCCACTTGAAAAAATTATGTTTAAATATGTGGAGCTTTGTGTTGACTTGCGCAAGGGTAGATTTGCCAAGGATGGTCTGATTCAGTACCGTATTATATGTCAACAAGTACATGTCAGTTCCTTGGAAGAGGTGATCAAGCACTTCATGCATCTGTCAACTGAGAAAGCTGAGCAGGCACGTACCCAGGCTCAAGCATTAGAAGAAGCACTTGATGTTGATGACCTCGAAGCAGATAAGAGGCCTGAAGATCTAATGCTGAGTTATGTCAGTGGAGAGAAAGGAAAAGATAGGTCTGATCGTGAAGTTGTTACTCCTTGGTTCAAGTTTTTGTGGGAAACCTACAGAACAGTGCTTGAGATCTTGCGCAACAACTCAAAGTTGGAGGCCCTTTATGCGGTACTGTATTTCTTGTTCAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001732 GO:0002181 GO:0002183 GO:0002188 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003743 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005852 GO:0005886 GO:0006412 GO:0006413 GO:0006518 GO:0006807 GO:0008135 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016020 GO:0016043 GO:0019538 GO:0022607 GO:0022613 GO:0022618 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043603 GO:0043604 GO:0043614 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0065003 GO:0071540 GO:0071541 GO:0071704 GO:0071826 GO:0071840 GO:0071944 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

PCI

Protein Analysis

227

Amino Acids

26.33

Weight (kDa)

7.01

Isoelectric Point (pI)

23.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ARM_Cnot1	PF25097	8 - 66	3.8e-10	Cnot1 ARM repeat
eIF3a_PCI_TPR-like	PF22591	67 - 220	6.3e-55	eIF3a, PCI domain, TPR-like region

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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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: OG0001063)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G11420
fragaria_vesca	FvH4_6g07021 FvH4_6g07021 FvH4_6g07021 FvH4_6g07021 FvH4_6g07021
malus_domestica	MD04G1196800.v1.1 MD12G1209700.v1.1
prunus_persica	Prupe.6G317100_v2.0.a1 Prupe.6G317100_v2.0.a1
pyrus_communis	pycom04g17400 pycom12g19700
rosa_chinensis	RchiOBHm_Chr2g0109021 RchiOBHm_Chr3g0456551 RchiOBHm_Chr5g0047251 RchiOBHm_Chr6g0248701
rosa_laevigata	RLG00000025294 RLG00000028631
rosa_multiflora	Rmu_sc0000361.1_g000030 Rmu_sc0000670.1_g000004 Rmu_sc0000955.1_g000029 Rmu_sc0002045.1_g000025 Rmu_sc0002607.1_g000004 Rmu_sc0005473.1_g000001
rosa_roxburghii	Rroxscaffold_1G00037410 Rroxscaffold_2G00104310 Rroxscaffold_3G00230480 Rroxscaffold_3G00256140 Rroxscaffold_6G00422630
rosa_rugosa	Rorug03G0013900 Rorug04G0204200
rosa_samantha	Rh1BG180500 Rh1DG210500 Rh2CG210900 Rh2DG107300 Rh2DG455500 Rh3AG074600 Rh3AG217800 Rh3BG076300 Rh3CG076000 Rh3DG078100 Rh4AG261300 Rh4BG267100 Rh4DG188600 Rh4DG191400 Rh4DG263400 Rh5BG322700 Rh5BG536200 Rh5BG542500 Rh5CG559400 Rh5CG565100 Rh5DG333700 Rh5DG412500 Rh6AG116300 Rh6BG110500 Rh6CG264500
rosa_wichuraiana	Rw3G006380 Rw5G047630 Rw6G003410 Rw6G025160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	314, 629
AciI	CCGC	2 cut(s)	60, 659
AcuI	CTGAAG	1 cut(s)	528
AfaI	GTAC	5 cut(s)	98, 350, 372, 445, 663
AfiI	CCNNNNNNNGG	1 cut(s)	658
AflIII	ACRYGT	1 cut(s)	373
AgsI	TTSAA	3 cut(s)	88, 272, 586
AjnI	CCWGG	1 cut(s)	447
AluBI	AGCT	4 cut(s)	172, 187, 298, 431
AluI	AGCT	4 cut(s)	172, 187, 298, 431
AoxI	GGCC	3 cut(s)	57, 503, 648
ApeKI	GCWGC	1 cut(s)	184
AspLEI	GCGC	3 cut(s)	131, 315, 630
AspS9I	GGNCC	1 cut(s)	649
AsuHPI	GGTGA	2 cut(s)	26, 406
BbvI	GCAGC	1 cut(s)	196
BccI	CCATC	1 cut(s)	329
BcgI	CGANNNNNNTGC	2 cut(s)	198, 232
BciT130I	CCWGG	1 cut(s)	449
BclI	TGATCA	1 cut(s)	396
BfaI	CTAG	1 cut(s)	137
BfmI	CTRYAG	1 cut(s)	604
BglI	GCCNNNNNGGC	1 cut(s)	65
BglII	AGATCT	2 cut(s)	511, 621
BisI	GCNGC	2 cut(s)	60, 185
BlpI	GCTNAGC	1 cut(s)	432
BlsI	GCNGC	2 cut(s)	61, 186
Bme1390I	CCNGG	1 cut(s)	449
BmgT120I	GGNCC	1 cut(s)	649
BmrFI	CCNGG	1 cut(s)	449
BmsI	GCATC	2 cut(s)	196, 421
Bpu1102I	GCTNAGC	1 cut(s)	432
BpuEI	CTTGAG	2 cut(s)	438, 638
BsaAI	YACGTR	1 cut(s)	443
BsaJI	CCNNGG	5 cut(s)	63, 330, 384, 447, 578
Bsc4I	CCNNNNNNNGG	1 cut(s)	658
Bse3DI	GCAATG	2 cut(s)	147, 209
BseBI	CCWGG	1 cut(s)	449
BseDI	CCNNGG	5 cut(s)	63, 330, 384, 447, 578
BseGI	GGATG	1 cut(s)	340
BseLI	CCNNNNNNNGG	1 cut(s)	658
BseMI	GCAATG	2 cut(s)	147, 209
BseMII	CTCAG	4 cut(s)	49, 414, 423, 512
BseXI	GCAGC	1 cut(s)	196
BshFI	GGCC	3 cut(s)	59, 505, 650
BslI	CCNNNNNNNGG	1 cut(s)	658
BsmI	GAATGC	1 cut(s)	109
BsnI	GGCC	3 cut(s)	59, 505, 650
Bsp143I	GATC	5 cut(s)	226, 396, 511, 559, 621
Bsp1720I	GCTNAGC	1 cut(s)	432
BspACI	CCGC	2 cut(s)	60, 659
BspANI	GGCC	3 cut(s)	59, 505, 650
BspCNI	CTCAG	4 cut(s)	48, 415, 424, 513
BspHI	TCATGA	1 cut(s)	223
BsrDI	GCAATG	2 cut(s)	147, 209
BssECI	CCNNGG	5 cut(s)	63, 330, 384, 447, 578
BssMI	GATC	5 cut(s)	226, 396, 511, 559, 621
BssT1I	CCWWGG	4 cut(s)	63, 330, 384, 578
Bst2UI	CCWGG	1 cut(s)	449
Bst4CI	ACNGT	3 cut(s)	353, 613, 666
Bst6I	CTCTTC	1 cut(s)	384
BstAPI	GCANNNNNTGC	1 cut(s)	409
BstBAI	YACGTR	1 cut(s)	443
BstC8I	GCNNGC	2 cut(s)	170, 438
BstDEI	CTNAG	4 cut(s)	35, 423, 432, 521
BstF5I	GGATG	1 cut(s)	340
BstHHI	GCGC	3 cut(s)	131, 315, 630
BstKTI	GATC	5 cut(s)	229, 399, 514, 562, 624
BstMBI	GATC	5 cut(s)	226, 396, 511, 559, 621
BstMWI	GCNNNNNNNGC	5 cut(s)	65, 137, 409, 437, 656
BstNI	CCWGG	1 cut(s)	449
BstNSI	RCATGY	1 cut(s)	377
BstSCI	CCNGG	1 cut(s)	447
BstSFI	CTRYAG	1 cut(s)	604
BstV1I	GCAGC	1 cut(s)	196
BstX2I	RGATCY	2 cut(s)	511, 621
BstYI	RGATCY	2 cut(s)	511, 621
BsuRI	GGCC	3 cut(s)	59, 505, 650
BtsCI	GGATG	1 cut(s)	340
BtsIMutI	CAGTG	2 cut(s)	538, 618
Cac8I	GCNNGC	2 cut(s)	170, 438
CciI	TCATGA	1 cut(s)	223
CfoI	GCGC	3 cut(s)	131, 315, 630
Cfr13I	GGNCC	1 cut(s)	649
Csp6I	GTAC	5 cut(s)	97, 349, 371, 444, 662
CviAII	CATG	5 cut(s)	122, 224, 255, 374, 409
CviQI	GTAC	5 cut(s)	97, 349, 371, 444, 662
DdeI	CTNAG	4 cut(s)	35, 423, 432, 521
DpnI	GATC	5 cut(s)	228, 398, 513, 561, 623
DpnII	GATC	5 cut(s)	226, 396, 511, 559, 621
DraI	TTTAAA	1 cut(s)	286
Eam1104I	CTCTTC	1 cut(s)	384
EarI	CTCTTC	1 cut(s)	384
Eco130I	CCWWGG	4 cut(s)	63, 330, 384, 578
Eco147I	AGGCCT	1 cut(s)	505
Eco57I	CTGAAG	1 cut(s)	528
EcoO109I	RGGNCCY	1 cut(s)	649
EcoRII	CCWGG	1 cut(s)	447
EcoT14I	CCWWGG	4 cut(s)	63, 330, 384, 578
EcoT22I	ATGCAT	2 cut(s)	211, 414
ErhI	CCWWGG	4 cut(s)	63, 330, 384, 578
FaeI	CATG	5 cut(s)	125, 227, 258, 377, 412
FalI	AAGNNNNNCTT	4 cut(s)	161, 193, 456, 488
FatI	CATG	5 cut(s)	121, 223, 254, 373, 408
FbaI	TGATCA	1 cut(s)	396
Fnu4HI	GCNGC	2 cut(s)	60, 185
FokI	GGATG	1 cut(s)	347
Fsp4HI	GCNGC	2 cut(s)	60, 185
FspBI	CTAG	1 cut(s)	137
FspI	TGCGCA	2 cut(s)	314, 629
GlaI	GCGC	3 cut(s)	130, 314, 629
GluI	GCNGC	2 cut(s)	60, 185
HaeIII	GGCC	3 cut(s)	59, 505, 650
HhaI	GCGC	3 cut(s)	131, 315, 630
Hin1II	CATG	5 cut(s)	125, 227, 258, 377, 412
Hin6I	GCGC	3 cut(s)	129, 313, 628
HinP1I	GCGC	3 cut(s)	129, 313, 628
HincII	GTYRAC	3 cut(s)	307, 365, 420
HindII	GTYRAC	3 cut(s)	307, 365, 420
HindIII	AAGCTT	1 cut(s)	170
HinfI	GANTC	4 cut(s)	6, 118, 154, 343
HphI	GGTGA	2 cut(s)	26, 406
Hpy166II	GTNNAC	3 cut(s)	307, 365, 420
Hpy188I	TCNGA	4 cut(s)	38, 342, 559, 680
Hpy188III	TCNNGA	4 cut(s)	50, 158, 224, 563
Hpy8I	GTNNAC	3 cut(s)	307, 365, 420
HpyCH4III	ACNGT	3 cut(s)	353, 613, 666
HpyCH4IV	ACGT	1 cut(s)	442
HpyCH4V	TGCA	5 cut(s)	107, 168, 209, 214, 412
HpyF10VI	GCNNNNNNNGC	5 cut(s)	65, 137, 409, 437, 656
HpyF3I	CTNAG	4 cut(s)	35, 423, 432, 521
HpySE526I	ACGT	1 cut(s)	442
Hsp92II	CATG	5 cut(s)	125, 227, 258, 377, 412
HspAI	GCGC	3 cut(s)	129, 313, 628
Ksp22I	TGATCA	1 cut(s)	396
Kzo9I	GATC	5 cut(s)	226, 396, 511, 559, 621
LmnI	GCTCC	1 cut(s)	295
LpnPI	CCDG	6 cut(s)	36, 128, 422, 434, 461, 519
Lsp1109I	GCAGC	1 cut(s)	196
LweI	GCATC	2 cut(s)	196, 421
MaeI	CTAG	1 cut(s)	137
MaeII	ACGT	1 cut(s)	442
MaeIII	GTNAC	1 cut(s)	571
MalI	GATC	5 cut(s)	228, 398, 513, 561, 623
MboI	GATC	5 cut(s)	226, 396, 511, 559, 621
MboII	GAAGA	3 cut(s)	401, 476, 521
MflI	RGATCY	2 cut(s)	511, 621
MluCI	AATT	1 cut(s)	276
MlyI	GAGTC	1 cut(s)	15
MmeI	TCCRAC	2 cut(s)	176, 624
MnlI	CCTC	5 cut(s)	49, 385, 495, 497, 640
Mph1103I	ATGCAT	2 cut(s)	211, 414
MseI	TTAA	1 cut(s)	285
MspR9I	CCNGG	1 cut(s)	449
Mva1269I	GAATGC	1 cut(s)	109
MvaI	CCWGG	1 cut(s)	449
MwoI	GCNNNNNNNGC	5 cut(s)	65, 137, 409, 437, 656
NdeII	GATC	5 cut(s)	226, 396, 511, 559, 621
NlaIII	CATG	5 cut(s)	125, 227, 258, 377, 412
NsbI	TGCGCA	2 cut(s)	314, 629
NsiI	ATGCAT	2 cut(s)	211, 414
NspI	RCATGY	1 cut(s)	377
PagI	TCATGA	1 cut(s)	223
PceI	AGGCCT	1 cut(s)	505
PciI	ACATGT	1 cut(s)	373
PctI	GAATGC	1 cut(s)	109
PfeI	GAWTC	3 cut(s)	118, 154, 343
PkrI	GCNGC	2 cut(s)	61, 186
PleI	GAGTC	1 cut(s)	14
PpsI	GAGTC	1 cut(s)	14
Ppu21I	YACGTR	1 cut(s)	443
PscI	ACATGT	1 cut(s)	373
Psp6I	CCWGG	1 cut(s)	447
PspGI	CCWGG	1 cut(s)	447
PspPI	GGNCC	1 cut(s)	649
PsrI	GAACNNNNNNTAC	1 cut(s)	659
PsuI	RGATCY	2 cut(s)	511, 621
RsaI	GTAC	5 cut(s)	98, 350, 372, 445, 663
RsaNI	GTAC	5 cut(s)	97, 349, 371, 444, 662
SaqAI	TTAA	1 cut(s)	285
SatI	GCNGC	2 cut(s)	60, 185
Sau3AI	GATC	5 cut(s)	226, 396, 511, 559, 621
Sau96I	GGNCC	1 cut(s)	649
SchI	GAGTC	1 cut(s)	15
ScrFI	CCNGG	1 cut(s)	449
SfaNI	GCATC	2 cut(s)	196, 421
SfcI	CTRYAG	1 cut(s)	604
SmlI	CTYRAG	2 cut(s)	453, 617
SmoI	CTYRAG	2 cut(s)	453, 617
Sse9I	AATT	1 cut(s)	276
SseBI	AGGCCT	1 cut(s)	505
SsiI	CCGC	2 cut(s)	60, 659
SspMI	CTAG	1 cut(s)	137
StuI	AGGCCT	1 cut(s)	505
StyD4I	CCNGG	1 cut(s)	447
StyI	CCWWGG	4 cut(s)	63, 330, 384, 578
TaaI	ACNGT	3 cut(s)	353, 613, 666
TaiI	ACGT	1 cut(s)	445
TaqI	TCGA	2 cut(s)	49, 489
TasI	AATT	1 cut(s)	276
TatI	WGTACW	1 cut(s)	370
TauI	GCSGC	1 cut(s)	62
TfiI	GAWTC	3 cut(s)	118, 154, 343
Tru1I	TTAA	1 cut(s)	285
Tru9I	TTAA	1 cut(s)	285
TscAI	CASTG	2 cut(s)	538, 618
TseI	GCWGC	1 cut(s)	184
TspDTI	ATGAA	3 cut(s)	110, 212, 397
TspRI	CASTG	2 cut(s)	538, 618
XceI	RCATGY	1 cut(s)	377
XcmI	CCANNNNNNNNNTGG	1 cut(s)	122
XspI	CTAG	1 cut(s)	137
Zsp2I	ATGCAT	2 cut(s)	211, 414

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