Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001241

Physical Location & Seq

Genomic Coordinates Forward (+)

17815480 .. 17817370

Gene Structure 1891 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG197900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 807 bp

ATGAGACATCTGTATTTCGTATTCGAGTTTATTGGATTTCTTATTGGGTTTCCGATCGGTCTTCTACTGGGTTTCTTCATATTCATATACTCATCACAGCCTGAGGATGTGAAGGATCCAGATATAAAATCACTAAACGAGTGTGATCCAAACTCTCTGGTTGATCTTTTCTCAGAGATTCCTCCATGGGTGAAGCACCCTGACTTTGAAAGAATTGATTGGTTGAACAAGGCTTTACATGATATGTGGCCTTACCTTGATAAGGCAATATGCAAGATTATCAGAGAAACAGCAGAGCCAATATTTGCAGAGTACGTTGGAAAATATCAGATAAGATCCATAGGATTTCAAAGCTTGAATCTTGGAAGTCTTCCTCCTACAATTTATGGTATTAGAGTGCACGAAACCAATGAAAATGAACTAGTAATTGAACCTGCTATTAGATGGGCAGGAATTCCACACATAACTGTTGTGGTAAAAATATTGTCAGTTCGACTTATAGTTCAGCTGATGGATGTCCAAGTATTTGCAACGCCAAGGATGATCTTAAGGCCTCTTGTACCAACATTCCCATGTTTTGGAAACATAACAATGACTTTGATAGACAAGCCACATGTGGACTTTGGACTCAGATTACTGGGAGGGGATGTTATGGCAATCCCCGGTTTCTATCAATTTGTTCAGGTCATTCACTCTCTCTCTGTAATCTGTAAGTTGGAGTTGTTTAACTTATATTTCAAGCTTAATGTTGATTTTTTGAGTGAAGGAGAAGTAGACAACATCATTCATGGTGTTAGATACATATAA

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

C2 SMP_LBD

Protein Analysis

268

Amino Acids

30.81

Weight (kDa)

5.46

Isoelectric Point (pI)

31.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMP_LBD	PF17047	68 - 230	5.5e-17	Synaptotagmin-like mitochondrial-lipid-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Image

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Publication-ready

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Orthologous Genes (Group: OG0001241)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G04220 AT5G04220 AT5G04220
fragaria_vesca	FvH4_6g16032 FvH4_7g19170 FvH4_7g19170 FvH4_7g19180 FvH4_7g19180 FvH4_7g19180
malus_domestica	MD01G1107100.v1.1 MD01G1107200.v1.1 MD07G1172800.v1.1 MD07G1173000.v1.1 MD12G1117500.v1.1
prunus_persica	Prupe.2G211900_v2.0.a1 Prupe.2G212000_v2.0.a1 Prupe.2G212000_v2.0.a1 Prupe.6G235800_v2.0.a1 Prupe.6G235800_v2.0.a1 Prupe.6G235800_v2.0.a1
pyrus_communis	pycom01g13380 pycom01g13390 pycom01g13400 pycom07g16760 pycom12g11620
rosa_chinensis	RchiOBHm_Chr1g0363021 RchiOBHm_Chr1g0363031 RchiOBHm_Chr3g0469781
rosa_laevigata	RLG00000015212 RLG00000024321 RLG00000027600 RLG00000027601
rosa_multiflora	Rmu_co8490065.1_g000001 Rmu_sc0004472.1_g000002 Rmu_sc0004472.1_g000003 Rmu_sc0024252.1_g000005 Rmu_sc0036506.1_g000001
rosa_roxburghii	Rroxscaffold_4G00293530 Rroxscaffold_6G00411490
rosa_rugosa	Rorug01G0303600 Rorug01G0303700 Rorug01G0303800 Rorug01G0303900 Rorug03G0104400
rosa_samantha	Rh1AG312800 Rh1AG312900 Rh1CG292800 Rh1CG292900 Rh3AG153500 Rh3BG177600 Rh3CG168400 Rh3DG197900 Rh3DG198000
rosa_wichuraiana	Rw1G027710 Rw1G027720 Rw3G014470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	442
AccB7I	CCANNNNNTGG	1 cut(s)	578
AccI	GTMKAC	1 cut(s)	774
AclWI	GGATC	4 cut(s)	110, 123, 140, 330
AcsI	RAATTY	1 cut(s)	453
AfaI	GTAC	2 cut(s)	314, 561
AfiI	CCNNNNNNNGG	2 cut(s)	262, 578
AflII	CTTAAG	1 cut(s)	547
AflIII	ACRYGT	1 cut(s)	613
AgsI	TTSAA	6 cut(s)	209, 226, 350, 358, 431, 739
AhlI	ACTAGT	1 cut(s)	421
AluBI	AGCT	3 cut(s)	354, 508, 742
AluI	AGCT	3 cut(s)	354, 508, 742
Alw21I	GWGCWC	1 cut(s)	402
Alw44I	GTGCAC	1 cut(s)	398
AlwI	GGATC	4 cut(s)	110, 123, 140, 330
AoxI	GGCC	2 cut(s)	248, 551
ApaLI	GTGCAC	1 cut(s)	398
ApoI	RAATTY	1 cut(s)	453
AsuC2I	CCSGG	1 cut(s)	663
AsuHPI	GGTGA	1 cut(s)	202
AxyI	CCTNAGG	1 cut(s)	102
BaeGI	GKGCMC	1 cut(s)	402
BamHI	GGATCC	1 cut(s)	115
BbsI	GAAGAC	2 cut(s)	53, 362
Bbv12I	GWGCWC	1 cut(s)	402
BccI	CCATC	2 cut(s)	438, 505
BcnI	CCSGG	1 cut(s)	663
BcuI	ACTAGT	1 cut(s)	421
BfaI	CTAG	1 cut(s)	422
BfrI	CTTAAG	1 cut(s)	547
BfuAI	ACCTGC	1 cut(s)	442
Bme1390I	CCNGG	1 cut(s)	663
BmiI	GGNNCC	1 cut(s)	117
BmrFI	CCNGG	1 cut(s)	663
BmrI	ACTGGG	2 cut(s)	77, 647
BmuI	ACTGGG	2 cut(s)	77, 647
BpiI	GAAGAC	2 cut(s)	53, 362
BpuMI	CCSGG	1 cut(s)	663
BsaJI	CCNNGG	3 cut(s)	185, 536, 661
BsaXI	ACNNNNNCTCC	2 cut(s)	633, 663
Bsc4I	CCNNNNNNNGG	2 cut(s)	262, 578
Bse1I	ACTGG	2 cut(s)	72, 642
Bse21I	CCTNAGG	1 cut(s)	102
BseDI	CCNNGG	3 cut(s)	185, 536, 661
BseGI	GGATG	4 cut(s)	112, 520, 546, 652
BseLI	CCNNNNNNNGG	2 cut(s)	262, 578
BseMII	CTCAG	3 cut(s)	93, 186, 643
BseNI	ACTGG	2 cut(s)	72, 642
BseSI	GKGCMC	1 cut(s)	402
Bsh1285I	CGRYCG	1 cut(s)	57
BshFI	GGCC	2 cut(s)	250, 553
BsiEI	CGRYCG	1 cut(s)	57
BsiHKAI	GWGCWC	1 cut(s)	402
BsiSI	CCGG	1 cut(s)	663
BslI	CCNNNNNNNGG	2 cut(s)	262, 578
BsnI	GGCC	2 cut(s)	250, 553
Bsp1286I	GDGCHC	1 cut(s)	402
Bsp143I	GATC	6 cut(s)	54, 115, 145, 163, 335, 543
Bsp19I	CCATGG	1 cut(s)	185
BspANI	GGCC	2 cut(s)	250, 553
BspCNI	CTCAG	3 cut(s)	94, 185, 642
BspLI	GGNNCC	1 cut(s)	117
BspMI	ACCTGC	1 cut(s)	442
BspPI	GGATC	4 cut(s)	110, 123, 140, 330
BspTI	CTTAAG	1 cut(s)	547
BsrI	ACTGG	2 cut(s)	72, 642
BssECI	CCNNGG	3 cut(s)	185, 536, 661
BssMI	GATC	6 cut(s)	54, 115, 145, 163, 335, 543
BssT1I	CCWWGG	2 cut(s)	185, 536
Bst4CI	ACNGT	1 cut(s)	469
BstAFI	CTTAAG	1 cut(s)	547
BstDEI	CTNAG	3 cut(s)	102, 172, 629
BstDSI	CCRYGG	1 cut(s)	185
BstENI	CCTNNNNNAGG	1 cut(s)	260
BstF5I	GGATG	4 cut(s)	112, 520, 546, 652
BstKTI	GATC	6 cut(s)	57, 118, 148, 166, 338, 546
BstMBI	GATC	6 cut(s)	54, 115, 145, 163, 335, 543
BstMCI	CGRYCG	1 cut(s)	57
BstNSI	RCATGY	1 cut(s)	617
BstSCI	CCNGG	1 cut(s)	661
BstSLI	GKGCMC	1 cut(s)	402
BstV2I	GAAGAC	2 cut(s)	53, 362
BstX2I	RGATCY	2 cut(s)	115, 335
BstYI	RGATCY	2 cut(s)	115, 335
Bsu36I	CCTNAGG	1 cut(s)	102
BsuRI	GGCC	2 cut(s)	250, 553
BtgI	CCRYGG	1 cut(s)	185
BtsCI	GGATG	4 cut(s)	112, 520, 546, 652
BveI	ACCTGC	1 cut(s)	442
Csp6I	GTAC	2 cut(s)	313, 560
CviAII	CATG	5 cut(s)	186, 239, 573, 614, 788
CviJI	RGCY	9 cut(s)	100, 233, 250, 298, 354, 508, 553, 610, 742
CviKI_1	RGCY	9 cut(s)	100, 233, 250, 298, 354, 508, 553, 610, 742
CviQI	GTAC	2 cut(s)	313, 560
DdeI	CTNAG	3 cut(s)	102, 172, 629
DpnI	GATC	6 cut(s)	56, 117, 147, 165, 337, 545
DpnII	GATC	6 cut(s)	54, 115, 145, 163, 335, 543
Eco130I	CCWWGG	2 cut(s)	185, 536
Eco147I	AGGCCT	1 cut(s)	553
Eco81I	CCTNAGG	1 cut(s)	102
EcoNI	CCTNNNNNAGG	1 cut(s)	260
EcoRI	GAATTC	1 cut(s)	453
EcoT14I	CCWWGG	2 cut(s)	185, 536
ErhI	CCWWGG	2 cut(s)	185, 536
FaeI	CATG	5 cut(s)	189, 242, 576, 617, 791
FatI	CATG	5 cut(s)	185, 238, 572, 613, 787
FblI	GTMKAC	1 cut(s)	774
FokI	GGATG	4 cut(s)	119, 527, 553, 659
FspBI	CTAG	1 cut(s)	422
HaeIII	GGCC	2 cut(s)	250, 553
HapII	CCGG	1 cut(s)	663
Hin1II	CATG	5 cut(s)	189, 242, 576, 617, 791
HindIII	AAGCTT	2 cut(s)	352, 740
HinfI	GANTC	3 cut(s)	178, 358, 627
HpaII	CCGG	1 cut(s)	663
HphI	GGTGA	1 cut(s)	202
Hpy166II	GTNNAC	3 cut(s)	400, 619, 775
Hpy188I	TCNGA	5 cut(s)	54, 175, 284, 330, 632
Hpy188III	TCNNGA	1 cut(s)	119
Hpy8I	GTNNAC	3 cut(s)	400, 619, 775
HpyAV	CCTTC	2 cut(s)	106, 758
HpyCH4III	ACNGT	1 cut(s)	469
HpyCH4IV	ACGT	1 cut(s)	315
HpyCH4V	TGCA	4 cut(s)	273, 308, 400, 530
HpyF3I	CTNAG	3 cut(s)	102, 172, 629
HpySE526I	ACGT	1 cut(s)	315
Hsp92II	CATG	5 cut(s)	189, 242, 576, 617, 791
Kzo9I	GATC	6 cut(s)	54, 115, 145, 163, 335, 543
MaeI	CTAG	1 cut(s)	422
MaeII	ACGT	1 cut(s)	315
MalI	GATC	6 cut(s)	56, 117, 147, 165, 337, 545
MboI	GATC	6 cut(s)	54, 115, 145, 163, 335, 543
MboII	GAAGA	3 cut(s)	53, 67, 362
MflI	RGATCY	2 cut(s)	115, 335
MhlI	GDGCHC	1 cut(s)	402
MluCI	AATT	5 cut(s)	213, 381, 426, 453, 674
MlyI	GAGTC	1 cut(s)	621
MmeI	TCCRAC	2 cut(s)	298, 696
MnlI	CCTC	5 cut(s)	97, 192, 384, 564, 635
MseI	TTAA	3 cut(s)	548, 726, 744
MslI	CAYNNNNRTG	2 cut(s)	571, 590
MspA1I	CMGCKG	1 cut(s)	508
MspCI	CTTAAG	1 cut(s)	547
MspI	CCGG	1 cut(s)	663
MspR9I	CCNGG	1 cut(s)	663
NciI	CCSGG	1 cut(s)	663
NcoI	CCATGG	1 cut(s)	185
NdeII	GATC	6 cut(s)	54, 115, 145, 163, 335, 543
NlaIII	CATG	5 cut(s)	189, 242, 576, 617, 791
NlaIV	GGNNCC	1 cut(s)	117
NspI	RCATGY	1 cut(s)	617
PceI	AGGCCT	1 cut(s)	553
PciI	ACATGT	1 cut(s)	613
PfeI	GAWTC	2 cut(s)	178, 358
PflMI	CCANNNNNTGG	1 cut(s)	578
Ple19I	CGATCG	1 cut(s)	57
PleI	GAGTC	1 cut(s)	621
PpsI	GAGTC	1 cut(s)	621
PscI	ACATGT	1 cut(s)	613
PspN4I	GGNNCC	1 cut(s)	117
PsuI	RGATCY	2 cut(s)	115, 335
PvuI	CGATCG	1 cut(s)	57
PvuII	CAGCTG	1 cut(s)	508
RsaI	GTAC	2 cut(s)	314, 561
RsaNI	GTAC	2 cut(s)	313, 560
RseI	CAYNNNNRTG	2 cut(s)	571, 590
SaqAI	TTAA	3 cut(s)	548, 726, 744
Sau3AI	GATC	6 cut(s)	54, 115, 145, 163, 335, 543
SchI	GAGTC	1 cut(s)	621
ScrFI	CCNGG	1 cut(s)	663
SduI	GDGCHC	1 cut(s)	402
SetI	ASST	7 cut(s)	258, 318, 356, 436, 510, 687, 744
SmiMI	CAYNNNNRTG	2 cut(s)	571, 590
SmlI	CTYRAG	1 cut(s)	547
SmoI	CTYRAG	1 cut(s)	547
SpeI	ACTAGT	1 cut(s)	421
Sse9I	AATT	5 cut(s)	213, 381, 426, 453, 674
SseBI	AGGCCT	1 cut(s)	553
SspI	AATATT	2 cut(s)	303, 483
SspMI	CTAG	1 cut(s)	422
StuI	AGGCCT	1 cut(s)	553
StyD4I	CCNGG	1 cut(s)	661
StyI	CCWWGG	2 cut(s)	185, 536
TaaI	ACNGT	1 cut(s)	469
TaiI	ACGT	1 cut(s)	318
TaqI	TCGA	2 cut(s)	24, 493
TaqII	GACCGA	1 cut(s)	47
TasI	AATT	5 cut(s)	213, 381, 426, 453, 674
TfiI	GAWTC	2 cut(s)	178, 358
Tru1I	TTAA	3 cut(s)	548, 726, 744
Tru9I	TTAA	3 cut(s)	548, 726, 744
TspDTI	ATGAA	5 cut(s)	67, 73, 426, 432, 776
Van91I	CCANNNNNTGG	1 cut(s)	578
Vha464I	CTTAAG	1 cut(s)	547
VneI	GTGCAC	1 cut(s)	398
XagI	CCTNNNNNAGG	1 cut(s)	260
XapI	RAATTY	1 cut(s)	453
XceI	RCATGY	1 cut(s)	617
XmiI	GTMKAC	1 cut(s)	774
XspI	CTAG	1 cut(s)	422

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