Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0016236

Physical Location & Seq

Genomic Coordinates Forward (+)

7967987 .. 7972229

Gene Structure 4243 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG099100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1077 bp

ATGGCTCTGAAACATTTGCTAACCTCATGTTCAGGCTTTGTTTTAGCTTGTTTGCTTGCATTCACAGTTCAACTCTACTTGTTCTCACCCATATCCCCAGTCTCACTTGAACTGCCTCCACCATCTTCTTCTCCACTTCCTCAAAACAACATATTACAGAGAGTGATTAAGATTGGAGATGGAGTACTTCTGAAACCAGAAGATATTGCTTTGGATAAAGAAGGCACACTCTACACGGCCACTAGAGATGGTTGGATCAAAAGGCTTCACAGAAATGGGTCCTGGGAGGATTGGAAGATGTTGAATAGTCATACACTTCTTGGAATTACTATCACAAACGAAGGTGATCTTGTTGCATGTGATGTTGATCAGGGTCTGCTCAAGGTTACTGAAAATGGTGTCACGGTTCTTGCTTCACACGTTAATGGGTCCAAAATAAGATTTGCAGATGATGTGATTGAAGCGTCAGATGGGAGTCTATACTTTAGTGTTGCAAGCACCAAATTTGGACTCCATAATTGGTATCTGGATGTGCTTGAGGCAAAACCACATGGGCAGCTGCTCAAGTATGACCCTTCATCAAATGAGACTTCAATTTTACTTGAGGGTTTGGGTTTTGCTAATGGGGTTGCAGTTTCAGAAGACCAGGATTATCTGGTGGTCTGCGAAACATGGAAGTGCCTAAGGTATTGGCTCAAGGGAGATAAGAGAGGGCAGACGGAGATCTTCATTGAGAACCTTCCCGGTGCACCGGACAACATCAATCTTGCTCCGGATGGGTCTTTCTGGATTGCTCTACTTAAGTTGACTTCAGACGGGCTGGAGTTTGTGCACAGCTCCAGAGCAGCAAAACACTTGATAGCAACATCTGGGAAATTAGTAGAACTAGTCAGTGGATTACATAAGAAAGCTACAGTGGTGAATGTGGGAGCTGATGGCAAGATAATCAAGAAGCTCGAGGATCCTAATGGAAGTGTGATGTCGTTTGTGACATCGGCTGTGGAATTTGACAATCATCTTTACTTGGGGAGCTTGCAGAACAACTTCATTGGCAAGTTGCCACTGAATGTTGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004064 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0009986 GO:0012505 GO:0016020 GO:0016787 GO:0016788 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0052689

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Str_synth

Protein Analysis

358

Amino Acids

39.06

Weight (kDa)

5.58

Isoelectric Point (pI)

34.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SSL_N	PF20067	47 - 89	1.8e-09	Strictosidine synthase-like, N-terminal
SGL	PF08450	104 - 267	1.4e-08	SMP-30/Gluconolactonase/LRE-like region
Str_synth	PF03088	154 - 234	9.5e-23	Strictosidine synthase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0016236)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g08910
malus_domestica	MD02G1094500.v1.1 MD15G1219400.v1.1
prunus_persica	Prupe.7G196500_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0095371
rosa_laevigata	RLG00000016559
rosa_multiflora	Rmu_sc0041866.1_g000004 Rmu_ssc0000183.1_g000038
rosa_roxburghii	Rroxscaffold_2G00146430
rosa_rugosa	Rorug02G0050100
rosa_samantha	Rh2AG098300 Rh2BG099500 Rh2CG101500 Rh2DG099100
rosa_wichuraiana	Rw2G007420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	772
AclWI	GGATC	3 cut(s)	263, 956, 969
AcoI	YGGCCR	1 cut(s)	237
AcsI	RAATTY	2 cut(s)	503, 1004
AcuI	CTGAAG	1 cut(s)	795
AfaI	GTAC	1 cut(s)	186
AflII	CTTAAG	1 cut(s)	800
AflIII	ACRYGT	1 cut(s)	418
AgsI	TTSAA	5 cut(s)	71, 110, 304, 461, 594
AhlI	ACTAGT	1 cut(s)	886
AjnI	CCWGG	2 cut(s)	281, 645
AluBI	AGCT	7 cut(s)	47, 559, 837, 911, 932, 955, 1032
AluI	AGCT	7 cut(s)	47, 559, 837, 911, 932, 955, 1032
Alw21I	GWGCWC	2 cut(s)	751, 834
Alw26I	GTCTC	2 cut(s)	106, 581
Alw44I	GTGCAC	2 cut(s)	747, 830
AlwI	GGATC	3 cut(s)	263, 956, 969
AlwNI	CAGNNNCTG	1 cut(s)	376
Ama87I	CYCGRG	1 cut(s)	956
Aor13HI	TCCGGA	1 cut(s)	772
AoxI	GGCC	1 cut(s)	237
ApaLI	GTGCAC	2 cut(s)	747, 830
ApeKI	GCWGC	3 cut(s)	556, 559, 845
ApoI	RAATTY	2 cut(s)	503, 1004
Asp700I	GAANNNNTTC	1 cut(s)	1043
AspS9I	GGNCC	2 cut(s)	279, 429
AsuC2I	CCSGG	1 cut(s)	744
AsuHPI	GGTGA	3 cut(s)	78, 356, 931
AvaI	CYCGRG	1 cut(s)	956
AvaII	GGWCC	2 cut(s)	279, 429
AxyI	CCTNAGG	1 cut(s)	683
BaeGI	GKGCMC	2 cut(s)	751, 834
BamHI	GGATCC	1 cut(s)	961
BbsI	GAAGAC	1 cut(s)	648
Bbv12I	GWGCWC	2 cut(s)	751, 834
BbvI	GCAGC	3 cut(s)	546, 568, 857
BccI	CCATC	6 cut(s)	130, 173, 242, 464, 770, 929
BceAI	ACGGC	1 cut(s)	252
BciT130I	CCWGG	2 cut(s)	283, 647
BclI	TGATCA	1 cut(s)	367
BcnI	CCSGG	1 cut(s)	744
BcoDI	GTCTC	2 cut(s)	106, 581
BcuI	ACTAGT	1 cut(s)	886
BfaI	CTAG	2 cut(s)	243, 887
BfmI	CTRYAG	1 cut(s)	912
BfrI	CTTAAG	1 cut(s)	800
BglII	AGATCT	1 cut(s)	723
BisI	GCNGC	3 cut(s)	557, 560, 846
BlsI	GCNGC	3 cut(s)	558, 561, 847
BmcAI	AGTACT	1 cut(s)	186
Bme1390I	CCNGG	3 cut(s)	283, 647, 744
Bme18I	GGWCC	2 cut(s)	279, 429
BmeT110I	CYCGRG	1 cut(s)	956
BmgT120I	GGNCC	2 cut(s)	279, 429
BmiI	GGNNCC	3 cut(s)	280, 430, 963
BmrFI	CCNGG	3 cut(s)	283, 647, 744
BmrI	ACTGGG	1 cut(s)	92
BmuI	ACTGGG	1 cut(s)	92
BpiI	GAAGAC	1 cut(s)	648
BpmI	CTGGAG	2 cut(s)	823, 842
BpuEI	CTTGAG	5 cut(s)	365, 548, 557, 623, 680
BpuMI	CCSGG	1 cut(s)	744
BsaBI	GATNNNNATC	1 cut(s)	366
BsaJI	CCNNGG	1 cut(s)	282
BsaWI	WCCGGW	2 cut(s)	751, 772
BsaXI	ACNNNNNCTCC	2 cut(s)	168, 198
Bse1I	ACTGG	1 cut(s)	98
Bse21I	CCTNAGG	1 cut(s)	683
Bse8I	GATNNNNATC	1 cut(s)	366
BseAI	TCCGGA	1 cut(s)	772
BseBI	CCWGG	2 cut(s)	283, 647
BseDI	CCNNGG	1 cut(s)	282
BseGI	GGATG	2 cut(s)	535, 781
BseJI	GATNNNNATC	1 cut(s)	366
BseNI	ACTGG	1 cut(s)	98
BseSI	GKGCMC	2 cut(s)	751, 834
BseXI	GCAGC	3 cut(s)	546, 568, 857
BshFI	GGCC	1 cut(s)	239
BsiHKAI	GWGCWC	2 cut(s)	751, 834
BsiHKCI	CYCGRG	1 cut(s)	956
BsiSI	CCGG	3 cut(s)	744, 752, 773
BsmAI	GTCTC	2 cut(s)	106, 581
BsmI	GAATGC	1 cut(s)	59
BsnI	GGCC	1 cut(s)	239
BsoBI	CYCGRG	1 cut(s)	956
Bsp1286I	GDGCHC	2 cut(s)	751, 834
Bsp13I	TCCGGA	1 cut(s)	772
Bsp143I	GATC	5 cut(s)	255, 346, 367, 723, 961
BspANI	GGCC	1 cut(s)	239
BspEI	TCCGGA	1 cut(s)	772
BspLI	GGNNCC	3 cut(s)	280, 430, 963
BspPI	GGATC	3 cut(s)	263, 956, 969
BspTI	CTTAAG	1 cut(s)	800
BsrI	ACTGG	1 cut(s)	98
BssECI	CCNNGG	1 cut(s)	282
BssMI	GATC	5 cut(s)	255, 346, 367, 723, 961
Bst2UI	CCWGG	2 cut(s)	283, 647
Bst4CI	ACNGT	3 cut(s)	67, 406, 916
BstAFI	CTTAAG	1 cut(s)	800
BstC8I	GCNNGC	3 cut(s)	57, 496, 1034
BstDEI	CTNAG	1 cut(s)	683
BstF5I	GGATG	2 cut(s)	535, 781
BstKTI	GATC	5 cut(s)	258, 349, 370, 726, 964
BstMAI	GTCTC	2 cut(s)	106, 581
BstMBI	GATC	5 cut(s)	255, 346, 367, 723, 961
BstNI	CCWGG	2 cut(s)	283, 647
BstNSI	RCATGY	1 cut(s)	360
BstSCI	CCNGG	3 cut(s)	281, 645, 742
BstSFI	CTRYAG	1 cut(s)	912
BstSLI	GKGCMC	2 cut(s)	751, 834
BstV1I	GCAGC	3 cut(s)	546, 568, 857
BstV2I	GAAGAC	1 cut(s)	648
BstX2I	RGATCY	2 cut(s)	723, 961
BstYI	RGATCY	2 cut(s)	723, 961
Bsu36I	CCTNAGG	1 cut(s)	683
BsuRI	GGCC	1 cut(s)	239
BtsCI	GGATG	2 cut(s)	535, 781
BtsIMutI	CAGTG	3 cut(s)	898, 921, 1061
Cac8I	GCNNGC	3 cut(s)	57, 496, 1034
CaiI	CAGNNNCTG	1 cut(s)	376
Cfr13I	GGNCC	2 cut(s)	279, 429
CseI	GACGC	1 cut(s)	453
Csp6I	GTAC	1 cut(s)	185
CviAII	CATG	4 cut(s)	27, 357, 551, 672
CviQI	GTAC	1 cut(s)	185
DdeI	CTNAG	1 cut(s)	683
DpnI	GATC	5 cut(s)	257, 348, 369, 725, 963
DpnII	GATC	5 cut(s)	255, 346, 367, 723, 961
EaeI	YGGCCR	1 cut(s)	237
Eco47I	GGWCC	2 cut(s)	279, 429
Eco57I	CTGAAG	1 cut(s)	795
Eco81I	CCTNAGG	1 cut(s)	683
Eco88I	CYCGRG	1 cut(s)	956
EcoO109I	RGGNCCY	1 cut(s)	279
EcoRII	CCWGG	2 cut(s)	281, 645
FaeI	CATG	4 cut(s)	30, 360, 554, 675
FalI	AAGNNNNNCTT	2 cut(s)	333, 365
FatI	CATG	4 cut(s)	26, 356, 550, 671
FbaI	TGATCA	1 cut(s)	367
Fnu4HI	GCNGC	3 cut(s)	557, 560, 846
FokI	GGATG	2 cut(s)	542, 788
Fsp4HI	GCNGC	3 cut(s)	557, 560, 846
FspBI	CTAG	2 cut(s)	243, 887
GluI	GCNGC	3 cut(s)	557, 560, 846
GsuI	CTGGAG	2 cut(s)	823, 842
HaeIII	GGCC	1 cut(s)	239
HapII	CCGG	3 cut(s)	744, 752, 773
HgaI	GACGC	1 cut(s)	453
Hin1II	CATG	4 cut(s)	30, 360, 554, 675
HincII	GTYRAC	1 cut(s)	807
HindII	GTYRAC	1 cut(s)	807
HinfI	GANTC	2 cut(s)	475, 510
HpaII	CCGG	3 cut(s)	744, 752, 773
HphI	GGTGA	3 cut(s)	78, 356, 931
Hpy166II	GTNNAC	3 cut(s)	749, 807, 832
Hpy188I	TCNGA	5 cut(s)	9, 192, 469, 640, 814
Hpy188III	TCNNGA	5 cut(s)	527, 773, 787, 840, 949
Hpy8I	GTNNAC	3 cut(s)	749, 807, 832
HpyAV	CCTTC	4 cut(s)	215, 335, 585, 749
HpyCH4III	ACNGT	3 cut(s)	67, 406, 916
HpyCH4IV	ACGT	1 cut(s)	420
HpyCH4V	TGCA	9 cut(s)	59, 356, 446, 494, 632, 749, 832, 1036, 1073
HpyF3I	CTNAG	1 cut(s)	683
HpySE526I	ACGT	1 cut(s)	420
Hsp92II	CATG	4 cut(s)	30, 360, 554, 675
Kpn2I	TCCGGA	1 cut(s)	772
Ksp22I	TGATCA	1 cut(s)	367
Kzo9I	GATC	5 cut(s)	255, 346, 367, 723, 961
LmnI	GCTCC	4 cut(s)	775, 842, 929, 1029
Lsp1109I	GCAGC	3 cut(s)	546, 568, 857
MaeI	CTAG	2 cut(s)	243, 887
MaeII	ACGT	1 cut(s)	420
MaeIII	GTNAC	3 cut(s)	385, 400, 988
MalI	GATC	5 cut(s)	257, 348, 369, 725, 963
MboI	GATC	5 cut(s)	255, 346, 367, 723, 961
MboII	GAAGA	6 cut(s)	117, 120, 212, 307, 653, 718
MflI	RGATCY	2 cut(s)	723, 961
MhlI	GDGCHC	2 cut(s)	751, 834
MluCI	AATT	6 cut(s)	324, 503, 517, 594, 875, 1004
MlyI	GAGTC	2 cut(s)	484, 504
MmeI	TCCRAC	1 cut(s)	233
MnlI	CCTC	8 cut(s)	34, 126, 150, 280, 532, 598, 704, 952
MroI	TCCGGA	1 cut(s)	772
MroXI	GAANNNNTTC	1 cut(s)	1043
MseI	TTAA	3 cut(s)	168, 423, 801
MslI	CAYNNNNRTG	3 cut(s)	273, 423, 676
MspA1I	CMGCKG	1 cut(s)	559
MspCI	CTTAAG	1 cut(s)	800
MspI	CCGG	3 cut(s)	744, 752, 773
MspR9I	CCNGG	3 cut(s)	283, 647, 744
Mva1269I	GAATGC	1 cut(s)	59
MvaI	CCWGG	2 cut(s)	283, 647
NciI	CCSGG	1 cut(s)	744
NdeII	GATC	5 cut(s)	255, 346, 367, 723, 961
NlaIII	CATG	4 cut(s)	30, 360, 554, 675
NlaIV	GGNNCC	3 cut(s)	280, 430, 963
NmuCI	GTSAC	2 cut(s)	400, 988
NspI	RCATGY	1 cut(s)	360
PaeR7I	CTCGAG	1 cut(s)	956
PctI	GAATGC	1 cut(s)	59
PdmI	GAANNNNTTC	1 cut(s)	1043
PkrI	GCNGC	3 cut(s)	558, 561, 847
PleI	GAGTC	2 cut(s)	483, 504
PpsI	GAGTC	2 cut(s)	483, 504
PpuMI	RGGWCCY	1 cut(s)	279
Psp5II	RGGWCCY	1 cut(s)	279
Psp6I	CCWGG	2 cut(s)	281, 645
PspGI	CCWGG	2 cut(s)	281, 645
PspN4I	GGNNCC	3 cut(s)	280, 430, 963
PspPI	GGNCC	2 cut(s)	279, 429
PspPPI	RGGWCCY	1 cut(s)	279
PspXI	VCTCGAGB	1 cut(s)	956
PstNI	CAGNNNCTG	1 cut(s)	376
PsuI	RGATCY	2 cut(s)	723, 961
PvuII	CAGCTG	1 cut(s)	559
RsaI	GTAC	1 cut(s)	186
RsaNI	GTAC	1 cut(s)	185
RseI	CAYNNNNRTG	3 cut(s)	273, 423, 676
SaqAI	TTAA	3 cut(s)	168, 423, 801
SatI	GCNGC	3 cut(s)	557, 560, 846
Sau3AI	GATC	5 cut(s)	255, 346, 367, 723, 961
Sau96I	GGNCC	2 cut(s)	279, 429
ScaI	AGTACT	1 cut(s)	186
SchI	GAGTC	2 cut(s)	484, 504
ScrFI	CCNGG	3 cut(s)	283, 647, 744
SduI	GDGCHC	2 cut(s)	751, 834
SfcI	CTRYAG	1 cut(s)	912
Sfr274I	CTCGAG	1 cut(s)	956
SinI	GGWCC	2 cut(s)	279, 429
SlaI	CTCGAG	1 cut(s)	956
SmiMI	CAYNNNNRTG	3 cut(s)	273, 423, 676
SmlI	CTYRAG	7 cut(s)	380, 536, 563, 602, 695, 800, 956
SmoI	CTYRAG	7 cut(s)	380, 536, 563, 602, 695, 800, 956
SpeI	ACTAGT	1 cut(s)	886
Sse9I	AATT	6 cut(s)	324, 503, 517, 594, 875, 1004
SspMI	CTAG	2 cut(s)	243, 887
StyD4I	CCNGG	3 cut(s)	281, 645, 742
TaaI	ACNGT	3 cut(s)	67, 406, 916
TaiI	ACGT	1 cut(s)	423
TaqI	TCGA	1 cut(s)	957
TasI	AATT	6 cut(s)	324, 503, 517, 594, 875, 1004
TatI	WGTACW	1 cut(s)	184
Tru1I	TTAA	3 cut(s)	168, 423, 801
Tru9I	TTAA	3 cut(s)	168, 423, 801
TscAI	CASTG	3 cut(s)	898, 921, 1068
TseFI	GTSAC	2 cut(s)	400, 988
TseI	GCWGC	3 cut(s)	556, 559, 845
Tsp45I	GTSAC	2 cut(s)	400, 988
TspDTI	ATGAA	3 cut(s)	567, 718, 1036
TspGWI	ACGGA	1 cut(s)	734
TspRI	CASTG	3 cut(s)	898, 921, 1068
Vha464I	CTTAAG	1 cut(s)	800
VneI	GTGCAC	2 cut(s)	747, 830
VpaK11BI	GGWCC	2 cut(s)	279, 429
XapI	RAATTY	2 cut(s)	503, 1004
XceI	RCATGY	1 cut(s)	360
XhoI	CTCGAG	1 cut(s)	956
XmnI	GAANNNNTTC	1 cut(s)	1043
XspI	CTAG	2 cut(s)	243, 887
ZrmI	AGTACT	1 cut(s)	186

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