Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0000613

Physical Location & Seq

Genomic Coordinates Forward (+)

3189695 .. 3198652

Gene Structure 8958 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG047400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1032 bp

ATGAAGTTGGTCAAGGGGACAACTCTTGCATTTGTATATGAAGGAGGCATCATGATGGGCACAGATTCGAGGACCACATCTTGCTATATACATAATGGCAATTTAAAAGGAAATATAATTACAGACGAGAAAGAAAAAATTAAGAAGCTATCTTCCCACATCCACTTATTTTGCACATCTATGGGGCAAATTGAAGATTGGGAGAAAATGTACCGTTATGTGCGTCGGAATTCACCTAGATCAATTGACGAAGCGGTAAAAAAAACAAAAGAGTACTTACGTCGTTACATAAAAAATCATAGTGCGGTGTTGGATAGATGCAAAAAGATTTACAACGAGGACCATACGTTTGGCACCATTATTGCTGGATACGACCCTGATAAGGGTTTTCAAATTCGTAGTGTTACTCTTCTGGGCTACGATATTCTCGAAAGCAACCCTGATGCAACATTTTTAACACTAGGGTCCGGTGAGGATGAAGCGTACGAAATTTTGAACTCAGCAAACACATATGCGTATATGACTAGAGAACGTGCATATGACTTGGCTTTTCATGCCTTATTTTACGCAGCTTTATTGGATAAGTACTCTGGTGGAACTCTAAAAGTGATACATGTGTCTAAGACCACTTCTTCTCTCGAGACCCGCAATGCTTTGCAAGTCTACCCCAAATTTTATAACCTTATGCCTAGAGTTGCAAGTGACGTTCATAGCAGAACATTTTTCGTGCTTTATCCTACGAATTCCTATTCCGAACTTGTGTGGGAAGGTGATGGCCTTGAAGAGCTCATCCTCAGAGTCTGGCCAAAGGGAGATGTAGACGTACAACAGCACCTACAAGCAAGCCATTTTGTAGCAAAGAAGTACGATTTCTACTTTCACAATTTCGTGTTCAAGCAAGTAAACAAGGCTATACAAGCATACAATACTATCACTACCATAGCTCCTCCCCAACGTCATAACGCTATAGAAGATTATTTCCAAGATGAACAATCCTCAAGCCCTTTGCAGTTTCATGGCTTGAAGGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000502 GO:0003674 GO:0003824 GO:0004175 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005829 GO:0005839 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0009056 GO:0009057 GO:0009987 GO:0010498 GO:0016579 GO:0016787 GO:0019538 GO:0019774 GO:0019941 GO:0030163 GO:0031974 GO:0031981 GO:0032991 GO:0036211 GO:0043161 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0043632 GO:0043687 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0051603 GO:0070011 GO:0070013 GO:0070646 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1902494 GO:1905368 GO:1905369

KEGG Pathways

Metabolic & Signaling

ko03050 map03050

Pfam Domains

Protein Families

Proteasome

Protein Analysis

343

Amino Acids

39.53

Weight (kDa)

7.22

Isoelectric Point (pI)

49.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Proteasome	PF00227	6 - 205	1.2e-11	Proteasome subunit

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: OG0000613)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13060 AT1G13060 AT1G13060 AT3G26340
fragaria_vesca	FvH4_1g01201 FvH4_4g24020 FvH4_6g30500
malus_domestica	MD10G1030600.v1.1 MD16G1116800.v1.1
prunus_persica	Prupe.1G229300_v2.0.a1 Prupe.1G229300_v2.0.a1 Prupe.1G229300_v2.0.a1
pyrus_communis	pycom10g01980 pycom13g10110
rosa_chinensis	RchiOBHm_Chr4g0430701 RchiOBHm_Chr5g0003071
rosa_laevigata	RLG00000006954 RLG00000031090 RLG00000031094 RLG00000031099 RLG00000031107 RLG00000031108 RLG00000031111 RLG00000031116 RLG00000032188
rosa_multiflora	Rmu_sc0000131.1_g000009 Rmu_sc0000146.1_g000015 Rmu_sc0002209.1_g000027
rosa_roxburghii	Rroxscaffold_1G00061170 Rroxscaffold_1G00061240 Rroxscaffold_1G00061300 Rroxscaffold_1G00072510 Rroxscaffold_1G00072750 Rroxscaffold_1G00072760 Rroxscaffold_5G00372440 Rroxscaffold_6G00429800 Rroxscaffold_6G00429810 Rroxscaffold_6G00429820 Rroxscaffold_6G00429850
rosa_rugosa	Rorug04G0245300 Rorug04G0402100 Rorug04G0402100 Rorug04G0402100 Rorug05G0025600 Rorug05G0026200
rosa_samantha	Rh3BG233200 Rh3DG047000 Rh3DG047300 Rh3DG047400 Rh3DG047800 Rh4AG053100 Rh4AG227500 Rh4BG230300 Rh4BG309300 Rh4CG242400 Rh4DG160600 Rh4DG225800 Rh5AG024300 Rh5AG024400 Rh5AG024700 Rh5AG027100 Rh5AG119900 Rh5BG118400 Rh5CG027100 Rh5CG027300 Rh5CG027700 Rh5CG128900 Rh5DG026900 Rh5DG027000 Rh5DG027700 Rh5DG028000 Rh5DG028500
rosa_wichuraiana	Rw0G010900 Rw3G003590 Rw4G026180 Rw5G002310 Rw5G002480 Rw5G002600 Rw5G010340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	678
AccB1I	GGYRCC	1 cut(s)	353
AccI	GTMKAC	2 cut(s)	663, 819
AciI	CCGC	3 cut(s)	254, 305, 646
AcoI	YGGCCR	1 cut(s)	803
AcsI	RAATTY	5 cut(s)	229, 393, 489, 671, 742
AfaI	GTAC	6 cut(s)	212, 275, 485, 587, 825, 866
AfiI	CCNNNNNNNGG	2 cut(s)	382, 383
AflIII	ACRYGT	1 cut(s)	613
AgsI	TTSAA	6 cut(s)	194, 392, 496, 782, 895, 1024
AluBI	AGCT	4 cut(s)	148, 572, 787, 944
AluI	AGCT	4 cut(s)	148, 572, 787, 944
Alw21I	GWGCWC	1 cut(s)	789
Alw26I	GTCTC	1 cut(s)	635
AlwNI	CAGNNNCTG	1 cut(s)	801
Ama87I	CYCGRG	1 cut(s)	638
AoxI	GGCC	2 cut(s)	775, 803
ApeKI	GCWGC	1 cut(s)	569
ApoI	RAATTY	5 cut(s)	229, 393, 489, 671, 742
ArsI	GACNNNNNNTTYG	2 cut(s)	332, 364
AspS9I	GGNCC	3 cut(s)	72, 340, 465
AsuHPI	GGTGA	3 cut(s)	225, 482, 782
AvaI	CYCGRG	1 cut(s)	638
AvaII	GGWCC	3 cut(s)	72, 340, 465
BaeGI	GKGCMC	1 cut(s)	62
BaeI	ACNNNNGTAYC	2 cut(s)	602, 635
BalI	TGGCCA	1 cut(s)	805
BanI	GGYRCC	1 cut(s)	353
BanII	GRGCYC	1 cut(s)	789
Bbv12I	GWGCWC	1 cut(s)	789
BbvI	GCAGC	1 cut(s)	581
BccI	CCATC	2 cut(s)	49, 767
BciVI	GTATCC	1 cut(s)	362
BcoDI	GTCTC	1 cut(s)	635
BfaI	CTAG	4 cut(s)	237, 461, 525, 690
BfmI	CTRYAG	1 cut(s)	966
BfuI	GTATCC	1 cut(s)	362
BisI	GCNGC	1 cut(s)	570
BlsI	GCNGC	1 cut(s)	571
BmcAI	AGTACT	2 cut(s)	275, 587
Bme18I	GGWCC	3 cut(s)	72, 340, 465
BmeT110I	CYCGRG	1 cut(s)	638
BmgT120I	GGNCC	3 cut(s)	72, 340, 465
BmiI	GGNNCC	2 cut(s)	355, 466
BmsI	GCATC	3 cut(s)	57, 308, 433
BpuEI	CTTGAG	1 cut(s)	982
BsaI	GGTCTC	1 cut(s)	635
BsaWI	WCCGGW	1 cut(s)	467
BsaXI	ACNNNNNCTCC	4 cut(s)	194, 224, 928, 958
Bsc4I	CCNNNNNNNGG	2 cut(s)	382, 383
Bse3DI	GCAATG	1 cut(s)	655
BseGI	GGATG	3 cut(s)	159, 481, 789
BseLI	CCNNNNNNNGG	2 cut(s)	382, 383
BseMI	GCAATG	1 cut(s)	655
BseMII	CTCAG	2 cut(s)	513, 808
BseRI	GAGGAG	1 cut(s)	936
BseSI	GKGCMC	1 cut(s)	62
BseXI	GCAGC	1 cut(s)	581
BshFI	GGCC	2 cut(s)	777, 805
BshNI	GGYRCC	1 cut(s)	353
BsiHKAI	GWGCWC	1 cut(s)	789
BsiHKCI	CYCGRG	1 cut(s)	638
BsiSI	CCGG	1 cut(s)	468
BsiWI	CGTACG	1 cut(s)	483
BslFI	GGGAC	1 cut(s)	31
BslI	CCNNNNNNNGG	2 cut(s)	382, 383
BsmAI	GTCTC	1 cut(s)	635
BsmFI	GGGAC	1 cut(s)	31
BsnI	GGCC	2 cut(s)	777, 805
Bso31I	GGTCTC	1 cut(s)	635
BsoBI	CYCGRG	1 cut(s)	638
Bsp1286I	GDGCHC	2 cut(s)	62, 789
Bsp143I	GATC	1 cut(s)	239
BspACI	CCGC	3 cut(s)	254, 305, 646
BspANI	GGCC	2 cut(s)	777, 805
BspCNI	CTCAG	2 cut(s)	512, 807
BspHI	TCATGA	1 cut(s)	51
BspLI	GGNNCC	2 cut(s)	355, 466
BspQI	GCTCTTC	1 cut(s)	777
BspT107I	GGYRCC	1 cut(s)	353
BspTNI	GGTCTC	1 cut(s)	635
BsrDI	GCAATG	1 cut(s)	655
BssMI	GATC	1 cut(s)	239
Bst4CI	ACNGT	1 cut(s)	215
Bst6I	CTCTTC	2 cut(s)	414, 777
BstC8I	GCNNGC	1 cut(s)	844
BstDEI	CTNAG	3 cut(s)	499, 621, 794
BstF5I	GGATG	3 cut(s)	159, 481, 789
BstKTI	GATC	1 cut(s)	242
BstMAI	GTCTC	1 cut(s)	635
BstMBI	GATC	1 cut(s)	239
BstMWI	GCNNNNNNNGC	2 cut(s)	554, 917
BstNSI	RCATGY	1 cut(s)	617
BstSFI	CTRYAG	1 cut(s)	966
BstSLI	GKGCMC	1 cut(s)	62
BstV1I	GCAGC	1 cut(s)	581
BstXI	CCANNNNNNTGG	1 cut(s)	350
BsuI	GTATCC	1 cut(s)	362
BsuRI	GGCC	2 cut(s)	777, 805
BtsCI	GGATG	3 cut(s)	159, 481, 789
Cac8I	GCNNGC	1 cut(s)	844
CaiI	CAGNNNCTG	1 cut(s)	801
CciI	TCATGA	1 cut(s)	51
Cfr13I	GGNCC	3 cut(s)	72, 340, 465
CseI	GACGC	1 cut(s)	212
Csp6I	GTAC	6 cut(s)	211, 274, 484, 586, 824, 865
CspCI	CAANNNNNGTGG	2 cut(s)	152, 187
CviAII	CATG	4 cut(s)	52, 554, 614, 1016
CviQI	GTAC	6 cut(s)	211, 274, 484, 586, 824, 865
DdeI	CTNAG	3 cut(s)	499, 621, 794
DpnI	GATC	1 cut(s)	241
DpnII	GATC	1 cut(s)	239
DraI	TTTAAA	1 cut(s)	105
EaeI	YGGCCR	1 cut(s)	803
Eam1104I	CTCTTC	2 cut(s)	414, 777
EarI	CTCTTC	2 cut(s)	414, 777
Ecl136II	GAGCTC	1 cut(s)	787
Eco24I	GRGCYC	1 cut(s)	789
Eco31I	GGTCTC	1 cut(s)	635
Eco47I	GGWCC	3 cut(s)	72, 340, 465
Eco53kI	GAGCTC	1 cut(s)	787
Eco88I	CYCGRG	1 cut(s)	638
EcoICRI	GAGCTC	1 cut(s)	787
EcoRI	GAATTC	2 cut(s)	229, 742
EcoT38I	GRGCYC	1 cut(s)	789
FaeI	CATG	4 cut(s)	55, 557, 617, 1019
FaqI	GGGAC	1 cut(s)	31
FatI	CATG	4 cut(s)	51, 553, 613, 1015
FauI	CCCGC	1 cut(s)	653
FauNDI	CATATG	2 cut(s)	511, 538
FblI	GTMKAC	2 cut(s)	663, 819
Fnu4HI	GCNGC	1 cut(s)	570
FokI	GGATG	3 cut(s)	146, 488, 776
FriOI	GRGCYC	1 cut(s)	789
Fsp4HI	GCNGC	1 cut(s)	570
FspBI	CTAG	4 cut(s)	237, 461, 525, 690
GluI	GCNGC	1 cut(s)	570
HaeIII	GGCC	2 cut(s)	777, 805
HapII	CCGG	1 cut(s)	468
HgaI	GACGC	1 cut(s)	212
Hin1II	CATG	4 cut(s)	55, 557, 617, 1019
HinfI	GANTC	2 cut(s)	65, 798
HpaII	CCGG	1 cut(s)	468
HphI	GGTGA	3 cut(s)	225, 482, 782
Hpy166II	GTNNAC	3 cut(s)	664, 820, 904
Hpy188I	TCNGA	3 cut(s)	228, 754, 797
Hpy188III	TCNNGA	4 cut(s)	52, 428, 638, 640
Hpy8I	GTNNAC	3 cut(s)	664, 820, 904
Hpy99I	CGWCG	2 cut(s)	228, 285
HpyAV	CCTTC	3 cut(s)	35, 761, 1018
HpyCH4III	ACNGT	1 cut(s)	215
HpyCH4IV	ACGT	6 cut(s)	280, 347, 532, 705, 822, 955
HpyCH4V	TGCA	8 cut(s)	29, 174, 321, 446, 536, 658, 698, 1009
HpyF10VI	GCNNNNNNNGC	2 cut(s)	554, 917
HpyF3I	CTNAG	3 cut(s)	499, 621, 794
HpySE526I	ACGT	6 cut(s)	280, 347, 532, 705, 822, 955
Hsp92II	CATG	4 cut(s)	55, 557, 617, 1019
Kzo9I	GATC	1 cut(s)	239
LguI	GCTCTTC	1 cut(s)	777
LmnI	GCTCC	1 cut(s)	949
LpnPI	CCDG	7 cut(s)	351, 390, 398, 453, 481, 576, 787
Lsp1109I	GCAGC	1 cut(s)	581
LweI	GCATC	3 cut(s)	57, 308, 433
MaeI	CTAG	4 cut(s)	237, 461, 525, 690
MaeII	ACGT	6 cut(s)	280, 347, 532, 705, 822, 955
MaeIII	GTNAC	3 cut(s)	284, 403, 701
MalI	GATC	1 cut(s)	241
MboI	GATC	1 cut(s)	239
MboII	GAAGA	6 cut(s)	144, 206, 401, 624, 794, 983
MfeI	CAATTG	1 cut(s)	243
MhlI	GDGCHC	2 cut(s)	62, 789
MlsI	TGGCCA	1 cut(s)	805
MluNI	TGGCCA	1 cut(s)	805
MlyI	GAGTC	1 cut(s)	807
MmeI	TCCRAC	2 cut(s)	206, 291
MnlI	CCTC	7 cut(s)	38, 63, 331, 466, 803, 957, 1006
Mox20I	TGGCCA	1 cut(s)	805
MscI	TGGCCA	1 cut(s)	805
MseI	TTAA	3 cut(s)	104, 141, 455
MslI	CAYNNNNRTG	2 cut(s)	53, 179
Msp20I	TGGCCA	1 cut(s)	805
MspI	CCGG	1 cut(s)	468
MunI	CAATTG	1 cut(s)	243
MwoI	GCNNNNNNNGC	2 cut(s)	554, 917
NdeI	CATATG	2 cut(s)	511, 538
NdeII	GATC	1 cut(s)	239
NlaIII	CATG	4 cut(s)	55, 557, 617, 1019
NlaIV	GGNNCC	2 cut(s)	355, 466
NmuCI	GTSAC	1 cut(s)	701
NspI	RCATGY	1 cut(s)	617
PaeR7I	CTCGAG	1 cut(s)	638
PagI	TCATGA	1 cut(s)	51
PciI	ACATGT	1 cut(s)	613
PciSI	GCTCTTC	1 cut(s)	777
PcsI	WCGNNNNNNNCGW	1 cut(s)	426
PfeI	GAWTC	1 cut(s)	65
Pfl23II	CGTACG	1 cut(s)	483
PkrI	GCNGC	1 cut(s)	571
PleI	GAGTC	1 cut(s)	806
PpsI	GAGTC	1 cut(s)	806
PscI	ACATGT	1 cut(s)	613
PsiI	TTATAA	1 cut(s)	678
Psp124BI	GAGCTC	1 cut(s)	789
PspLI	CGTACG	1 cut(s)	483
PspN4I	GGNNCC	2 cut(s)	355, 466
PspPI	GGNCC	3 cut(s)	72, 340, 465
PstNI	CAGNNNCTG	1 cut(s)	801
RsaI	GTAC	6 cut(s)	212, 275, 485, 587, 825, 866
RsaNI	GTAC	6 cut(s)	211, 274, 484, 586, 824, 865
RseI	CAYNNNNRTG	2 cut(s)	53, 179
SacI	GAGCTC	1 cut(s)	789
SapI	GCTCTTC	1 cut(s)	777
SaqAI	TTAA	3 cut(s)	104, 141, 455
SatI	GCNGC	1 cut(s)	570
Sau3AI	GATC	1 cut(s)	239
Sau96I	GGNCC	3 cut(s)	72, 340, 465
ScaI	AGTACT	2 cut(s)	275, 587
SchI	GAGTC	1 cut(s)	807
SduI	GDGCHC	2 cut(s)	62, 789
SfaNI	GCATC	3 cut(s)	57, 308, 433
SfcI	CTRYAG	1 cut(s)	966
Sfr274I	CTCGAG	1 cut(s)	638
SinI	GGWCC	3 cut(s)	72, 340, 465
SlaI	CTCGAG	1 cut(s)	638
SmiMI	CAYNNNNRTG	2 cut(s)	53, 179
SmlI	CTYRAG	2 cut(s)	638, 997
SmoI	CTYRAG	2 cut(s)	638, 997
SsiI	CCGC	3 cut(s)	254, 305, 646
SspMI	CTAG	4 cut(s)	237, 461, 525, 690
SstI	GAGCTC	1 cut(s)	789
TaaI	ACNGT	1 cut(s)	215
TaiI	ACGT	6 cut(s)	283, 350, 535, 708, 825, 958
TaqI	TCGA	3 cut(s)	68, 429, 639
TatI	WGTACW	2 cut(s)	273, 585
TfiI	GAWTC	1 cut(s)	65
Tru1I	TTAA	3 cut(s)	104, 141, 455
Tru9I	TTAA	3 cut(s)	104, 141, 455
TseFI	GTSAC	1 cut(s)	701
TseI	GCWGC	1 cut(s)	569
Tsp45I	GTSAC	1 cut(s)	701
TspDTI	ATGAA	7 cut(s)	17, 54, 492, 542, 698, 1002, 1004
VpaK11BI	GGWCC	3 cut(s)	72, 340, 465
XapI	RAATTY	5 cut(s)	229, 393, 489, 671, 742
XceI	RCATGY	1 cut(s)	617
XhoI	CTCGAG	1 cut(s)	638
XmiI	GTMKAC	2 cut(s)	663, 819
XspI	CTAG	4 cut(s)	237, 461, 525, 690
ZrmI	AGTACT	2 cut(s)	275, 587

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