Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0000517

Physical Location & Seq

Genomic Coordinates Forward (+)

19040139 .. 19040873

Gene Structure 735 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG111300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 408 bp

ATGGACTGCTTTACATTGTTGATCGTATCAAGGAGTTCATCAAGCATAATGGGTATCAGGGTTGAAGACGAAGAAGCAGGACAAATTCCAATGGCATATGTAGTGAGAGCAGCTAGTACTGAACTGAGCACTGAAGACCAAGTCATTCAATTTGTTGCCGGCCAGGTGGCCCCCTACAAAAAAGTCAGAAAAGTAGGGTTTATATCTGCCATTCCAAGATCAGCTGCAAGCAAAATCTTGAGGAAGGAACTTGTTAGTTTACAAAGCAAACAGCAAATGGCCGGTCTCCAGACTATAATGCCTTTTTCTGCTGGCCAACTTCTTTCAGTAGAACATAGTGAGAAAGAGGCCCCTTTAGAAAGTGAAATGTCTGATGGATCGTCTGGTTATCCATTTATGGGAGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0006082 GO:0006950 GO:0008150 GO:0008152 GO:0009058 GO:0009611 GO:0009694 GO:0009695 GO:0009987 GO:0010817 GO:0016053 GO:0019752 GO:0032787 GO:0042445 GO:0042446 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044249 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0050896 GO:0065007 GO:0065008 GO:0071704 GO:0072330 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00592 ko01100 ko01110 map00592 map01100 map01110

Pfam Domains

Protein Families

AMP-binding AMP-binding_C

Protein Analysis

135

Amino Acids

14.65

Weight (kDa)

5.24

Isoelectric Point (pI)

56.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AMP-binding_C	PF13193	21 - 78	8.9e-09	AMP-binding enzyme C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0000517)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G05160
fragaria_vesca	FvH4_3g30980 FvH4_3g30980 FvH4_3g30980 FvH4_3g30980 FvH4_3g30980 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460 FvH4_6g16460
malus_domestica	MD00G1033000.v1.1 MD00G1033100.v1.1 MD11G1145900.v1.1
prunus_persica	Prupe.1G562500_v2.0.a1 Prupe.6G109000_v2.0.a1 Prupe.6G220600_v2.0.a1 Prupe.7G129300_v2.0.a1
pyrus_communis	pycom10g19750 pycom11g11900
rosa_chinensis	RchiOBHm_Chr4g0437371 RchiOBHm_Chr5g0057221 RchiOBHm_Chr5g0057231 RchiOBHm_Chr5g0057411 RchiOBHm_Chr5g0057421 RchiOBHm_Chr5g0057431 RchiOBHm_Chr5g0057541 RchiOBHm_Chr5g0057621 RchiOBHm_Chr5g0057631 RchiOBHm_Chr7g0218731
rosa_laevigata	RLG00000024275 RLG00000035153 RLG00000035162 RLG00000035163
rosa_multiflora	Rmu_co8225990.1_g000001 Rmu_co8293931.1_g000001 Rmu_co8305349.1_g000001 Rmu_sc0001058.1_g000006 Rmu_sc0001334.1_g000005 Rmu_sc0002486.1_g000002 Rmu_sc0002486.1_g000004 Rmu_sc0002486.1_g000006 Rmu_sc0003730.1_g000007 Rmu_sc0009763.1_g000003 Rmu_sc0012503.1_g000004 Rmu_sc0041005.1_g000001
rosa_roxburghii	Rroxscaffold_1G00022890 Rroxscaffold_1G00022900 Rroxscaffold_1G00023020 Rroxscaffold_1G00039850 Rroxscaffold_2G00089660 Rroxscaffold_6G00410920 Rroxscaffold_7G00210330
rosa_rugosa	Rorug01G0121100 Rorug05G0306100 Rorug05G0306200 Rorug05G0306700 Rorug05G0308100
rosa_samantha	Rh1AG142700 Rh1BG111300 Rh1DG148300 Rh2DG519700 Rh3DG192200 Rh5BG387400 Rh5BG387600 Rh5CG409800 Rh5CG409900 Rh5CG410000 Rh5CG411000 Rh5CG411600 Rh5CG411700 Rh5DG400500 Rh5DG400600 Rh5DG400700 Rh5DG401700 Rh5DG401800 Rh7CG338500
rosa_wichuraiana	Rw5G035330 Rw5G035540 Rw5G035550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	385
AcoI	YGGCCR	3 cut(s)	160, 279, 313
AcsI	RAATTY	1 cut(s)	84
AcuI	CTGAAG	1 cut(s)	153
AfaI	GTAC	1 cut(s)	118
AfiI	CCNNNNNNNGG	1 cut(s)	398
AgsI	TTSAA	2 cut(s)	65, 149
AjnI	CCWGG	1 cut(s)	162
AluBI	AGCT	2 cut(s)	113, 224
AluI	AGCT	2 cut(s)	113, 224
Alw21I	GWGCWC	1 cut(s)	131
Alw26I	GTCTC	1 cut(s)	290
AlwI	GGATC	1 cut(s)	385
AoxI	GGCC	5 cut(s)	160, 168, 279, 313, 348
ApeKI	GCWGC	2 cut(s)	110, 224
ApoI	RAATTY	1 cut(s)	84
ArsI	GACNNNNNNTTYG	2 cut(s)	268, 300
AspS9I	GGNCC	2 cut(s)	169, 349
BalI	TGGCCA	1 cut(s)	315
BbsI	GAAGAC	2 cut(s)	72, 141
Bbv12I	GWGCWC	1 cut(s)	131
BbvI	GCAGC	2 cut(s)	122, 211
BccI	CCATC	1 cut(s)	368
BciT130I	CCWGG	1 cut(s)	164
BcoDI	GTCTC	1 cut(s)	290
BfaI	CTAG	1 cut(s)	114
BisI	GCNGC	2 cut(s)	111, 225
BlsI	GCNGC	2 cut(s)	112, 226
BmcAI	AGTACT	1 cut(s)	118
Bme1390I	CCNGG	1 cut(s)	164
BmgT120I	GGNCC	2 cut(s)	169, 349
BmiI	GGNNCC	2 cut(s)	171, 351
BmrFI	CCNGG	1 cut(s)	164
BpiI	GAAGAC	2 cut(s)	72, 141
BpmI	CTGGAG	1 cut(s)	272
BpuEI	CTTGAG	1 cut(s)	259
BsaI	GGTCTC	1 cut(s)	290
Bsc4I	CCNNNNNNNGG	1 cut(s)	398
Bse118I	RCCGGY	2 cut(s)	158, 281
BseBI	CCWGG	1 cut(s)	164
BseLI	CCNNNNNNNGG	1 cut(s)	398
BseMII	CTCAG	1 cut(s)	116
BseXI	GCAGC	2 cut(s)	122, 211
BshFI	GGCC	5 cut(s)	162, 170, 281, 315, 350
BsiHKAI	GWGCWC	1 cut(s)	131
BsiSI	CCGG	2 cut(s)	159, 282
BslI	CCNNNNNNNGG	1 cut(s)	398
BsmAI	GTCTC	1 cut(s)	290
BsnI	GGCC	5 cut(s)	162, 170, 281, 315, 350
Bso31I	GGTCTC	1 cut(s)	290
Bsp1286I	GDGCHC	1 cut(s)	131
Bsp143I	GATC	3 cut(s)	21, 218, 377
BspANI	GGCC	5 cut(s)	162, 170, 281, 315, 350
BspCNI	CTCAG	1 cut(s)	117
BspLI	GGNNCC	2 cut(s)	171, 351
BspPI	GGATC	1 cut(s)	385
BspTNI	GGTCTC	1 cut(s)	290
BsrFI	RCCGGY	2 cut(s)	158, 281
BssAI	RCCGGY	2 cut(s)	158, 281
BssMI	GATC	3 cut(s)	21, 218, 377
Bst2UI	CCWGG	1 cut(s)	164
BstC8I	GCNNGC	3 cut(s)	160, 229, 313
BstDEI	CTNAG	1 cut(s)	125
BstKTI	GATC	3 cut(s)	24, 221, 380
BstMAI	GTCTC	1 cut(s)	290
BstMBI	GATC	3 cut(s)	21, 218, 377
BstNI	CCWGG	1 cut(s)	164
BstSCI	CCNGG	1 cut(s)	162
BstV1I	GCAGC	2 cut(s)	122, 211
BstV2I	GAAGAC	2 cut(s)	72, 141
BsuRI	GGCC	5 cut(s)	162, 170, 281, 315, 350
BtsIMutI	CAGTG	1 cut(s)	129
Cac8I	GCNNGC	3 cut(s)	160, 229, 313
Cfr10I	RCCGGY	2 cut(s)	158, 281
Cfr13I	GGNCC	2 cut(s)	169, 349
Csp6I	GTAC	1 cut(s)	117
CviJI	RGCY	7 cut(s)	113, 162, 170, 224, 281, 315, 350
CviKI_1	RGCY	7 cut(s)	113, 162, 170, 224, 281, 315, 350
CviQI	GTAC	1 cut(s)	117
DdeI	CTNAG	1 cut(s)	125
DpnI	GATC	3 cut(s)	23, 220, 379
DpnII	GATC	3 cut(s)	21, 218, 377
EaeI	YGGCCR	3 cut(s)	160, 279, 313
Eco31I	GGTCTC	1 cut(s)	290
Eco57I	CTGAAG	1 cut(s)	153
EcoO109I	RGGNCCY	1 cut(s)	349
EcoRII	CCWGG	1 cut(s)	162
FaiI	YATR	7 cut(s)	47, 97, 99, 203, 296, 336, 398
FauNDI	CATATG	1 cut(s)	97
Fnu4HI	GCNGC	2 cut(s)	111, 225
Fsp4HI	GCNGC	2 cut(s)	111, 225
FspBI	CTAG	1 cut(s)	114
GluI	GCNGC	2 cut(s)	111, 225
GsuI	CTGGAG	1 cut(s)	272
HaeIII	GGCC	5 cut(s)	162, 170, 281, 315, 350
HapII	CCGG	2 cut(s)	159, 282
HpaII	CCGG	2 cut(s)	159, 282
Hpy166II	GTNNAC	1 cut(s)	260
Hpy188I	TCNGA	2 cut(s)	188, 373
Hpy188III	TCNNGA	2 cut(s)	238, 289
Hpy8I	GTNNAC	1 cut(s)	260
HpyAV	CCTTC	1 cut(s)	238
HpyCH4V	TGCA	1 cut(s)	227
HpyF3I	CTNAG	1 cut(s)	125
KroI	GCCGGC	1 cut(s)	158
KroNI	GCCGGC	1 cut(s)	160
Kzo9I	GATC	3 cut(s)	21, 218, 377
LpnPI	CCDG	9 cut(s)	43, 63, 149, 172, 176, 295, 297, 302, 369
Lsp1109I	GCAGC	2 cut(s)	122, 211
MaeI	CTAG	1 cut(s)	114
MalI	GATC	3 cut(s)	23, 220, 379
MboI	GATC	3 cut(s)	21, 218, 377
MboII	GAAGA	3 cut(s)	77, 83, 146
MhlI	GDGCHC	1 cut(s)	131
MlsI	TGGCCA	1 cut(s)	315
MluCI	AATT	2 cut(s)	84, 149
MluNI	TGGCCA	1 cut(s)	315
MnlI	CCTC	2 cut(s)	234, 340
Mox20I	TGGCCA	1 cut(s)	315
MroNI	GCCGGC	1 cut(s)	158
MscI	TGGCCA	1 cut(s)	315
Msp20I	TGGCCA	1 cut(s)	315
MspA1I	CMGCKG	1 cut(s)	224
MspI	CCGG	2 cut(s)	159, 282
MspR9I	CCNGG	1 cut(s)	164
MvaI	CCWGG	1 cut(s)	164
NaeI	GCCGGC	1 cut(s)	160
NdeI	CATATG	1 cut(s)	97
NdeII	GATC	3 cut(s)	21, 218, 377
NgoMIV	GCCGGC	1 cut(s)	158
NlaIV	GGNNCC	2 cut(s)	171, 351
PdiI	GCCGGC	1 cut(s)	160
PflFI	GACNNNGTC	1 cut(s)	140
PkrI	GCNGC	2 cut(s)	112, 226
Psp6I	CCWGG	1 cut(s)	162
PspGI	CCWGG	1 cut(s)	162
PspN4I	GGNNCC	2 cut(s)	171, 351
PspPI	GGNCC	2 cut(s)	169, 349
PsyI	GACNNNGTC	1 cut(s)	140
PvuII	CAGCTG	1 cut(s)	224
RsaI	GTAC	1 cut(s)	118
RsaNI	GTAC	1 cut(s)	117
SatI	GCNGC	2 cut(s)	111, 225
Sau3AI	GATC	3 cut(s)	21, 218, 377
Sau96I	GGNCC	2 cut(s)	169, 349
ScaI	AGTACT	1 cut(s)	118
ScrFI	CCNGG	1 cut(s)	164
SduI	GDGCHC	1 cut(s)	131
SetI	ASST	3 cut(s)	115, 168, 226
SmlI	CTYRAG	1 cut(s)	238
SmoI	CTYRAG	1 cut(s)	238
Sse9I	AATT	2 cut(s)	84, 149
SspMI	CTAG	1 cut(s)	114
StyD4I	CCNGG	1 cut(s)	162
TasI	AATT	2 cut(s)	84, 149
TatI	WGTACW	1 cut(s)	116
TscAI	CASTG	1 cut(s)	136
TseI	GCWGC	2 cut(s)	110, 224
TspDTI	ATGAA	1 cut(s)	27
TspRI	CASTG	1 cut(s)	136
Tth111I	GACNNNGTC	1 cut(s)	140
XapI	RAATTY	1 cut(s)	84
XspI	CTAG	1 cut(s)	114
ZrmI	AGTACT	1 cut(s)	118

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