Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0003506

Physical Location & Seq

Genomic Coordinates Forward (+)

21238909 .. 21240143

Gene Structure 1235 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG211200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGGAAGGAGGCAAGAAAACAAAAGGCAGGCAAAAGATTCCAATAAAAAAGATTGAGAACGTTAACGAACGTCAAGTGACGTTTTCTAAAAGAAAATCTGGCGTTATAAAAAAAGCCAGTGAAATGTCGACCCTCACTGGTGCACATGTTTGTTTAGTGATATTCTCCGAGGCCGGGAAACCCTACTCTTTCGGCAGTCCCTCTATTGAATCTGTAGCCGGCCGATTCTTGCCGGAGCTACAAAACCAAAACCAAATTAGTGATGATGCCCGGGCTGTACTTGAGGCTAATCGCCAGGCAAGAGTCGACGGTATCCTCAGGATACACAACGACTTAGAAAGCAAGCTGAAAGAAGACAGAGATCGAGCAAAGGAGCTTCGGAAAAGAGAAAGGGCAAGAACAAGCAAAGATCAGGGCGGCCTTTGCTGGTGGGAGAAACCTATGGAGGGGCTTGAGTTGGCGGAACTCAAACAGATGCATTCTTCATTTGAACGTCTCCAGAATTATCTAGCCTCCTATCTCAAAAGCACCGTCTCTGCTGGTGGCTCCTCATCTGGCGGCGCAACCGGTATCCCTCCTGGTACATTGCCTGCACGCTTCGGATTGGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009791 GO:0009888 GO:0009889 GO:0009960 GO:0010154 GO:0010468 GO:0010556 GO:0010817 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032879 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051049 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0080090 GO:0140110 GO:1903506 GO:2000012 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04011 ko04111 map04011 map04111

Pfam Domains

Protein Families

SRF-TF

Protein Analysis

203

Amino Acids

22.46

Weight (kDa)

9.69

Isoelectric Point (pI)

42.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	17 - 64	6.6e-23	SRF-type transcription factor (DNA-binding and dimerisation 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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003506)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28450 AT1G28460 AT1G29962 AT1G54760 AT3G04100
fragaria_vesca	FvH4_6g21070
malus_domestica	MD05G1287200.v1.1 MD10G1264600.v1.1 MD13G1257500.v1.1
prunus_persica	Prupe.1G087700_v2.0.a1 Prupe.4G077700_v2.0.a1 Prupe.5G243900_v2.0.a1
pyrus_communis	pycom05g26570 pycom10g22070
rosa_chinensis	RchiOBHm_Chr3g0477441 RchiOBHm_Chr3g0477451
rosa_laevigata	RLG00000023719 RLG00000023721
rosa_multiflora	Rmu_sc0005234.1_g000012 Rmu_ssc0000341.1_g000014 Rmu_ssc0000341.1_g000016
rosa_roxburghii	Rroxscaffold_6G00404150 Rroxscaffold_6G00404620 Rroxscaffold_6G00404630
rosa_rugosa	Rorug03G0160800 Rorug03G0160900
rosa_samantha	Rh3AG211100 Rh3AG211200 Rh3BG244500 Rh3BG244600 Rh3CG238300 Rh3CG238500 Rh3DG238000
rosa_wichuraiana	Rw3G019130 Rw3G019140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	107
AccI	GTMKAC	2 cut(s)	128, 306
AciI	CCGC	3 cut(s)	417, 461, 558
AclI	AACGTT	1 cut(s)	60
AcoI	YGGCCR	1 cut(s)	220
AfaI	GTAC	2 cut(s)	279, 583
AfiI	CCNNNNNNNGG	2 cut(s)	174, 446
AflIII	ACRYGT	1 cut(s)	145
AgeI	ACCGGT	1 cut(s)	566
AgsI	TTSAA	2 cut(s)	209, 491
AjnI	CCWGG	2 cut(s)	294, 577
AluBI	AGCT	3 cut(s)	238, 346, 376
AluI	AGCT	3 cut(s)	238, 346, 376
Alw21I	GWGCWC	1 cut(s)	145
Alw26I	GTCTC	2 cut(s)	500, 538
Alw44I	GTGCAC	1 cut(s)	141
Ama87I	CYCGRG	1 cut(s)	270
AoxI	GGCC	3 cut(s)	171, 220, 418
ApaLI	GTGCAC	1 cut(s)	141
ArsI	GACNNNNNNTTYG	2 cut(s)	516, 548
AsiGI	ACCGGT	1 cut(s)	566
AspLEI	GCGC	1 cut(s)	563
AsuC2I	CCSGG	3 cut(s)	175, 271, 272
AvaI	CYCGRG	1 cut(s)	270
AxyI	CCTNAGG	1 cut(s)	317
BaeGI	GKGCMC	1 cut(s)	145
BbsI	GAAGAC	1 cut(s)	360
Bbv12I	GWGCWC	1 cut(s)	145
BciT130I	CCWGG	2 cut(s)	296, 579
BciVI	GTATCC	3 cut(s)	315, 323, 581
BcnI	CCSGG	3 cut(s)	175, 271, 272
BcoDI	GTCTC	2 cut(s)	500, 538
BfaI	CTAG	1 cut(s)	509
BfmI	CTRYAG	1 cut(s)	213
BfuI	GTATCC	3 cut(s)	315, 323, 581
BisI	GCNGC	2 cut(s)	418, 559
BlsI	GCNGC	2 cut(s)	419, 560
Bme1390I	CCNGG	5 cut(s)	175, 271, 272, 296, 579
BmeT110I	CYCGRG	1 cut(s)	270
BmiI	GGNNCC	1 cut(s)	547
BmrFI	CCNGG	5 cut(s)	175, 271, 272, 296, 579
BmsI	GCATC	2 cut(s)	256, 465
BpiI	GAAGAC	1 cut(s)	360
BpmI	CTGGAG	1 cut(s)	482
BpuEI	CTTGAG	2 cut(s)	302, 473
BpuMI	CCSGG	3 cut(s)	175, 271, 272
BsaJI	CCNNGG	2 cut(s)	168, 270
BsaWI	WCCGGW	1 cut(s)	566
Bsc4I	CCNNNNNNNGG	2 cut(s)	174, 446
Bse118I	RCCGGY	2 cut(s)	218, 566
Bse1I	ACTGG	2 cut(s)	117, 142
Bse21I	CCTNAGG	1 cut(s)	317
Bse3DI	GCAATG	1 cut(s)	584
BseBI	CCWGG	2 cut(s)	296, 579
BseDI	CCNNGG	2 cut(s)	168, 270
BseLI	CCNNNNNNNGG	2 cut(s)	174, 446
BseMI	GCAATG	1 cut(s)	584
BseMII	CTCAG	1 cut(s)	331
BseNI	ACTGG	2 cut(s)	117, 142
BseRI	GAGGAG	1 cut(s)	538
BseSI	GKGCMC	1 cut(s)	145
BseX3I	CGGCCG	1 cut(s)	220
BsgI	GTGCAG	1 cut(s)	576
Bsh1285I	CGRYCG	1 cut(s)	223
BshFI	GGCC	3 cut(s)	173, 222, 420
BshTI	ACCGGT	1 cut(s)	566
BsiEI	CGRYCG	1 cut(s)	223
BsiHKAI	GWGCWC	1 cut(s)	145
BsiHKCI	CYCGRG	1 cut(s)	270
BsiSI	CCGG	5 cut(s)	174, 219, 233, 271, 567
BslFI	GGGAC	1 cut(s)	183
BslI	CCNNNNNNNGG	2 cut(s)	174, 446
BsmAI	GTCTC	2 cut(s)	500, 538
BsmBI	CGTCTC	2 cut(s)	500, 538
BsmFI	GGGAC	1 cut(s)	183
BsmI	GAATGC	1 cut(s)	478
BsnI	GGCC	3 cut(s)	173, 222, 420
BsoBI	CYCGRG	1 cut(s)	270
Bsp1286I	GDGCHC	1 cut(s)	145
Bsp143I	GATC	2 cut(s)	361, 409
BspACI	CCGC	3 cut(s)	417, 461, 558
BspANI	GGCC	3 cut(s)	173, 222, 420
BspCNI	CTCAG	1 cut(s)	330
BspLI	GGNNCC	1 cut(s)	547
BsrDI	GCAATG	1 cut(s)	584
BsrFI	RCCGGY	2 cut(s)	218, 566
BsrI	ACTGG	2 cut(s)	117, 142
BssAI	RCCGGY	2 cut(s)	218, 566
BssECI	CCNNGG	2 cut(s)	168, 270
BssMI	GATC	2 cut(s)	361, 409
Bst2UI	CCWGG	2 cut(s)	296, 579
Bst4CI	ACNGT	2 cut(s)	311, 532
BstC8I	GCNNGC	5 cut(s)	29, 220, 344, 591, 595
BstDEI	CTNAG	2 cut(s)	317, 334
BstHHI	GCGC	1 cut(s)	563
BstKTI	GATC	2 cut(s)	364, 412
BstMAI	GTCTC	2 cut(s)	500, 538
BstMBI	GATC	2 cut(s)	361, 409
BstMCI	CGRYCG	1 cut(s)	223
BstMWI	GCNNNNNNNGC	1 cut(s)	423
BstNI	CCWGG	2 cut(s)	296, 579
BstNSI	RCATGY	1 cut(s)	149
BstSCI	CCNGG	5 cut(s)	173, 269, 270, 294, 577
BstSFI	CTRYAG	1 cut(s)	213
BstSLI	GKGCMC	1 cut(s)	145
BstV2I	GAAGAC	1 cut(s)	360
BstZI	CGGCCG	1 cut(s)	220
Bsu36I	CCTNAGG	1 cut(s)	317
BsuI	GTATCC	3 cut(s)	315, 323, 581
BsuRI	GGCC	3 cut(s)	173, 222, 420
BtsIMutI	CAGTG	2 cut(s)	124, 135
Cac8I	GCNNGC	5 cut(s)	29, 220, 344, 591, 595
CfoI	GCGC	1 cut(s)	563
Cfr10I	RCCGGY	2 cut(s)	218, 566
Cfr9I	CCCGGG	1 cut(s)	270
Csp6I	GTAC	2 cut(s)	278, 582
CspAI	ACCGGT	1 cut(s)	566
CviAII	CATG	1 cut(s)	146
CviQI	GTAC	2 cut(s)	278, 582
DdeI	CTNAG	2 cut(s)	317, 334
DpnI	GATC	2 cut(s)	363, 411
DpnII	GATC	2 cut(s)	361, 409
EaeI	YGGCCR	1 cut(s)	220
EagI	CGGCCG	1 cut(s)	220
EciI	GGCGGA	1 cut(s)	476
EclXI	CGGCCG	1 cut(s)	220
Eco52I	CGGCCG	1 cut(s)	220
Eco81I	CCTNAGG	1 cut(s)	317
Eco88I	CYCGRG	1 cut(s)	270
EcoRII	CCWGG	2 cut(s)	294, 577
EcoT22I	ATGCAT	1 cut(s)	480
Esp3I	CGTCTC	2 cut(s)	500, 538
FaeI	CATG	1 cut(s)	149
FaiI	YATR	3 cut(s)	107, 147, 443
FaqI	GGGAC	1 cut(s)	183
FatI	CATG	1 cut(s)	145
FblI	GTMKAC	2 cut(s)	128, 306
Fnu4HI	GCNGC	2 cut(s)	418, 559
Fsp4HI	GCNGC	2 cut(s)	418, 559
FspBI	CTAG	1 cut(s)	509
GlaI	GCGC	1 cut(s)	562
GluI	GCNGC	2 cut(s)	418, 559
GsuI	CTGGAG	1 cut(s)	482
HaeIII	GGCC	3 cut(s)	173, 222, 420
HapII	CCGG	5 cut(s)	174, 219, 233, 271, 567
HhaI	GCGC	1 cut(s)	563
Hin1II	CATG	1 cut(s)	149
Hin6I	GCGC	1 cut(s)	561
HinP1I	GCGC	1 cut(s)	561
HincII	GTYRAC	3 cut(s)	64, 129, 307
HindII	GTYRAC	3 cut(s)	64, 129, 307
HinfI	GANTC	4 cut(s)	37, 209, 225, 303
HpaI	GTTAAC	1 cut(s)	64
HpaII	CCGG	5 cut(s)	174, 219, 233, 271, 567
Hpy166II	GTNNAC	4 cut(s)	64, 129, 143, 307
Hpy188I	TCNGA	3 cut(s)	169, 381, 602
Hpy188III	TCNNGA	2 cut(s)	319, 499
Hpy8I	GTNNAC	4 cut(s)	64, 129, 143, 307
Hpy99I	CGWCG	1 cut(s)	311
HpyCH4III	ACNGT	2 cut(s)	311, 532
HpyCH4IV	ACGT	4 cut(s)	60, 70, 80, 493
HpyCH4V	TGCA	3 cut(s)	143, 478, 593
HpyF10VI	GCNNNNNNNGC	1 cut(s)	423
HpyF3I	CTNAG	2 cut(s)	317, 334
HpySE526I	ACGT	4 cut(s)	60, 70, 80, 493
Hsp92II	CATG	1 cut(s)	149
HspAI	GCGC	1 cut(s)	561
KroI	GCCGGC	1 cut(s)	218
KroNI	GCCGGC	1 cut(s)	220
KspAI	GTTAAC	1 cut(s)	64
Kzo9I	GATC	2 cut(s)	361, 409
LmnI	GCTCC	3 cut(s)	235, 373, 551
LweI	GCATC	2 cut(s)	256, 465
MaeI	CTAG	1 cut(s)	509
MaeII	ACGT	4 cut(s)	60, 70, 80, 493
MaeIII	GTNAC	1 cut(s)	76
MalI	GATC	2 cut(s)	363, 411
MboI	GATC	2 cut(s)	361, 409
MboII	GAAGA	2 cut(s)	365, 474
MhlI	GDGCHC	1 cut(s)	145
MluCI	AATT	2 cut(s)	255, 502
MlyI	GAGTC	1 cut(s)	312
MnlI	CCTC	9 cut(s)	143, 163, 211, 277, 326, 439, 523, 559, 585
Mph1103I	ATGCAT	1 cut(s)	480
MroNI	GCCGGC	1 cut(s)	218
MseI	TTAA	1 cut(s)	63
MspI	CCGG	5 cut(s)	174, 219, 233, 271, 567
MspR9I	CCNGG	5 cut(s)	175, 271, 272, 296, 579
Mva1269I	GAATGC	1 cut(s)	478
MvaI	CCWGG	2 cut(s)	296, 579
MwoI	GCNNNNNNNGC	1 cut(s)	423
NaeI	GCCGGC	1 cut(s)	220
NciI	CCSGG	3 cut(s)	175, 271, 272
NdeII	GATC	2 cut(s)	361, 409
NgoMIV	GCCGGC	1 cut(s)	218
NlaIII	CATG	1 cut(s)	149
NlaIV	GGNNCC	1 cut(s)	547
NmuCI	GTSAC	1 cut(s)	76
NsiI	ATGCAT	1 cut(s)	480
NspI	RCATGY	1 cut(s)	149
PciI	ACATGT	1 cut(s)	145
PctI	GAATGC	1 cut(s)	478
PdiI	GCCGGC	1 cut(s)	220
PfeI	GAWTC	3 cut(s)	37, 209, 225
PinAI	ACCGGT	1 cut(s)	566
PkrI	GCNGC	2 cut(s)	419, 560
PleI	GAGTC	1 cut(s)	311
PpsI	GAGTC	1 cut(s)	311
PscI	ACATGT	1 cut(s)	145
PsiI	TTATAA	1 cut(s)	107
Psp1406I	AACGTT	1 cut(s)	60
Psp6I	CCWGG	2 cut(s)	294, 577
PspGI	CCWGG	2 cut(s)	294, 577
PspN4I	GGNNCC	1 cut(s)	547
RsaI	GTAC	2 cut(s)	279, 583
RsaNI	GTAC	2 cut(s)	278, 582
SalI	GTCGAC	2 cut(s)	127, 305
SaqAI	TTAA	1 cut(s)	63
SatI	GCNGC	2 cut(s)	418, 559
Sau3AI	GATC	2 cut(s)	361, 409
SchI	GAGTC	1 cut(s)	312
ScrFI	CCNGG	5 cut(s)	175, 271, 272, 296, 579
SduI	GDGCHC	1 cut(s)	145
SetI	ASST	8 cut(s)	63, 73, 83, 240, 348, 378, 442, 496
SfaNI	GCATC	2 cut(s)	256, 465
SfcI	CTRYAG	1 cut(s)	213
SmaI	CCCGGG	1 cut(s)	272
SmlI	CTYRAG	2 cut(s)	281, 452
SmoI	CTYRAG	2 cut(s)	281, 452
SrfI	GCCCGGGC	1 cut(s)	272
Sse9I	AATT	2 cut(s)	255, 502
SsiI	CCGC	3 cut(s)	417, 461, 558
SspMI	CTAG	1 cut(s)	509
StyD4I	CCNGG	5 cut(s)	173, 269, 270, 294, 577
TaaI	ACNGT	2 cut(s)	311, 532
TaiI	ACGT	4 cut(s)	63, 73, 83, 496
TaqI	TCGA	3 cut(s)	128, 306, 364
TasI	AATT	2 cut(s)	255, 502
TatI	WGTACW	1 cut(s)	277
TauI	GCSGC	2 cut(s)	420, 561
TfiI	GAWTC	3 cut(s)	37, 209, 225
Tru1I	TTAA	1 cut(s)	63
Tru9I	TTAA	1 cut(s)	63
TscAI	CASTG	2 cut(s)	124, 142
TseFI	GTSAC	1 cut(s)	76
Tsp45I	GTSAC	1 cut(s)	76
TspDTI	ATGAA	1 cut(s)	474
TspMI	CCCGGG	1 cut(s)	270
TspRI	CASTG	2 cut(s)	124, 142
VneI	GTGCAC	1 cut(s)	141
XceI	RCATGY	1 cut(s)	149
XmaI	CCCGGG	1 cut(s)	270
XmiI	GTMKAC	2 cut(s)	128, 306
XspI	CTAG	1 cut(s)	509
Zsp2I	ATGCAT	1 cut(s)	480

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