Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0001002

Physical Location & Seq

Genomic Coordinates Reverse (-)

4363852 .. 4364832

Gene Structure 981 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0057900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGTCGATGACGACGATGGGTGTTGCAGGTAACATGGGTATTCCTGAACTCCGGCAAATTCTGAAAGAGCGATACAGAATTGCTAATAACATGAAAAGCTGCTCGGCTGAGATGAAAGAGACCAAGAACTCATCCTTGTTTGGATCCTTGGAGTACTCTCTTTCACAAAGACTGATCGACGAGAGTAAAGCTCTTATGCCGGAGATGATCAATATTCTGGATAAGACGAACAACAATGATCATCAAAAGCCCACAAAAGCAACAAAGCAAAATTCCGGTGTGGATTTGAAGCTTCAGCGAGCTAAGAAGGTGAAGGAATCGCGTGATTACTCTTTCTTGTTATCAGAGACTTCAGAAGTTCCGAAGATTTCAAAAGCGTCACCACCAATGTCTATTCCTAAAGCTGATGGTAATGGGATCCCAAAGAAGAGTCATGATAAGGCGTCTTCTCTGAAACCAAAGAAGAGTGGTGATGATAACAACAAGTCCAAAGTCTCCTCGGCAAAGTCAGAGTCTTTTTCGAAAGATTCAGTTCTGGTTTCTGGTTCAGAGAGTTTGAAGTCTCGGCCTCGTGAGAACATGGTGACAAAGTCACAAGTTTCATCTGCAAAGCGAAGCTTGAACCCGAAACAAGCAGAGCTCTGTAACACAAAAGTGATGCCGAAAAAGGAAGGTCCTTGCCTGAAGAAAAAAATGATCAAGAAACGCCGAGTCGAAGAGGACTTGGGGGATGATGGCAATGTAGACTTTTCTTCACTAATCCAAGATATTATGGGGAGAAGAGGAAAGAGGCAATACAGGAATTATGGTGACGACGGCGATGATCGTGCTATGGTGTCTGGCTTTATTGATATTCTGAAAGAAGAGAGGAGGAGTGCAGAGATTGCGAGGAAGGAGGATGCAATAGAGGCTCTAAGGCTTGAGCAAGAAGCCAAAGAAGAGAGGTTGAGCATAGCAAAGAAGCAGAAGTTGAAGAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0007275 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009791 GO:0010033 GO:0010154 GO:0022414 GO:0032501 GO:0032502 GO:0033993 GO:0042221 GO:0044424 GO:0044444 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0097159 GO:0097305 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LEA_5

Protein Analysis

326

Amino Acids

36.51

Weight (kDa)

9.68

Isoelectric Point (pI)

48.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SPT2	PF08243	239 - 315	1.7e-12	SPT2 chromatin protein

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: OG0001002)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40170 AT3G51810 AT3G51810
fragaria_vesca	FvH4_6g11140 FvH4_6g11160 FvH4_6g11170 FvH4_6g11180 FvH4_7g24640
malus_domestica	MD00G1062000.v1.1 MD04G1121100.v1.1
prunus_persica	Prupe.2G252100_v2.0.a1 Prupe.6G280200_v2.0.a1 Prupe.6G280300_v2.0.a1
pyrus_communis	pycom12g16320
rosa_chinensis	RchiOBHm_Chr3g0462601 RchiOBHm_Chr3g0462611 RchiOBHm_Chr3g0462621
rosa_laevigata	RLG00000024845 RLG00000024846 RLG00000028989
rosa_multiflora	Rmu_co8007370.1_g000001 Rmu_co8521225.1_g000002 Rmu_sc0002882.1_g000003 Rmu_sc0002882.1_g000004 Rmu_sc0002882.1_g000006 Rmu_sc0002882.1_g000007 Rmu_sc0003624.1_g000025 Rmu_sc0003624.1_g000026 Rmu_sc0006766.1_g000011 Rmu_sc0015198.1_g000001
rosa_roxburghii	Rroxscaffold_3G00269140 Rroxscaffold_4G00286530 Rroxscaffold_4G00310890 Rroxscaffold_4G00310930 Rroxscaffold_6G00417350 Rroxscaffold_6G00417360 Rroxscaffold_6G00417370
rosa_rugosa	Rorug01G0357000 Rorug03G0057700 Rorug03G0057800 Rorug03G0057900 Rorug03G0058000 Rorug03G0058100 Rorug03G0058200
rosa_samantha	Rh1BG328500 Rh1CG341600 Rh1DG358800 Rh3AG115900 Rh3AG116000 Rh3AG116200 Rh3AG116300 Rh3BG119400 Rh3BG119500 Rh3BG119700 Rh3BG119800 Rh3CG122700 Rh3CG122800 Rh3CG123000 Rh3DG121500 Rh3DG121600 Rh3DG121700
rosa_wichuraiana	Rw3G009820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	17
AccI	GTMKAC	1 cut(s)	744
AccII	CGCG	1 cut(s)	322
AclWI	GGATC	4 cut(s)	138, 151, 412, 425
AcsI	RAATTY	2 cut(s)	57, 271
AcuI	CTGAAG	3 cut(s)	278, 336, 704
AcyI	GRCGYC	1 cut(s)	443
AfaI	GTAC	1 cut(s)	155
AgsI	TTSAA	5 cut(s)	289, 372, 559, 622, 973
AleI	CACNNNNGTG	1 cut(s)	653
AluBI	AGCT	7 cut(s)	99, 191, 292, 302, 404, 618, 640
AluI	AGCT	7 cut(s)	99, 191, 292, 302, 404, 618, 640
Alw21I	GWGCWC	1 cut(s)	642
Alw26I	GTCTC	4 cut(s)	113, 341, 499, 567
AlwI	GGATC	4 cut(s)	138, 151, 412, 425
AoxI	GGCC	1 cut(s)	566
ApeKI	GCWGC	1 cut(s)	99
ApoI	RAATTY	2 cut(s)	57, 271
ArsI	GACNNNNNNTTYG	2 cut(s)	497, 529
AspS9I	GGNCC	1 cut(s)	674
AsuHPI	GGTGA	5 cut(s)	322, 372, 482, 595, 821
AsuII	TTCGAA	1 cut(s)	521
AvaII	GGWCC	1 cut(s)	674
BamHI	GGATCC	2 cut(s)	143, 417
BanII	GRGCYC	1 cut(s)	642
BauI	CACGAG	1 cut(s)	570
BbsI	GAAGAC	1 cut(s)	438
Bbv12I	GWGCWC	1 cut(s)	642
BbvI	GCAGC	1 cut(s)	86
BccI	CCATC	3 cut(s)	10, 401, 728
BceAI	ACGGC	1 cut(s)	832
BcgI	CGANNNNNNTGC	2 cut(s)	809, 843
BclI	TGATCA	3 cut(s)	207, 238, 696
BcoDI	GTCTC	4 cut(s)	113, 341, 499, 567
BfuAI	ACCTGC	1 cut(s)	17
BisI	GCNGC	1 cut(s)	100
BlsI	GCNGC	1 cut(s)	101
BmcAI	AGTACT	1 cut(s)	155
Bme18I	GGWCC	1 cut(s)	674
BmgT120I	GGNCC	1 cut(s)	674
BmiI	GGNNCC	2 cut(s)	145, 419
BmsI	GCATC	2 cut(s)	648, 889
BpiI	GAAGAC	1 cut(s)	438
BplI	GAGNNNNNCTC	2 cut(s)	175, 207
Bpu14I	TTCGAA	1 cut(s)	521
BpuEI	CTTGAG	1 cut(s)	941
BsaHI	GRCGYC	1 cut(s)	443
BsaI	GGTCTC	1 cut(s)	113
BsaJI	CCNNGG	2 cut(s)	147, 498
BsaWI	WCCGGW	1 cut(s)	275
Bse3DI	GCAATG	1 cut(s)	745
BseDI	CCNNGG	2 cut(s)	147, 498
BseGI	GGATG	3 cut(s)	131, 736, 904
BseMI	GCAATG	1 cut(s)	745
BseMII	CTCAG	1 cut(s)	99
BseRI	GAGGAG	3 cut(s)	487, 883, 886
BseXI	GCAGC	1 cut(s)	86
BsgI	GTGCAG	1 cut(s)	897
Bsh1236I	CGCG	1 cut(s)	322
BshFI	GGCC	1 cut(s)	568
BsiHKAI	GWGCWC	1 cut(s)	642
BsiSI	CCGG	3 cut(s)	52, 200, 276
BsmAI	GTCTC	4 cut(s)	113, 341, 499, 567
BsnI	GGCC	1 cut(s)	568
Bso31I	GGTCTC	1 cut(s)	113
Bsp119I	TTCGAA	1 cut(s)	521
Bsp1286I	GDGCHC	1 cut(s)	642
Bsp143I	GATC	7 cut(s)	143, 174, 207, 238, 417, 696, 823
BspANI	GGCC	1 cut(s)	568
BspCNI	CTCAG	1 cut(s)	100
BspFNI	CGCG	1 cut(s)	322
BspHI	TCATGA	1 cut(s)	433
BspLI	GGNNCC	2 cut(s)	145, 419
BspMI	ACCTGC	1 cut(s)	17
BspPI	GGATC	4 cut(s)	138, 151, 412, 425
BspT104I	TTCGAA	1 cut(s)	521
BspTNI	GGTCTC	1 cut(s)	113
BsrDI	GCAATG	1 cut(s)	745
BssECI	CCNNGG	2 cut(s)	147, 498
BssMI	GATC	7 cut(s)	143, 174, 207, 238, 417, 696, 823
BssNI	GRCGYC	1 cut(s)	443
BssSI	CACGAG	1 cut(s)	570
BssT1I	CCWWGG	1 cut(s)	147
Bst2BI	CACGAG	1 cut(s)	570
Bst6I	CTCTTC	6 cut(s)	422, 458, 711, 775, 858, 933
BstACI	GRCGYC	1 cut(s)	443
BstAPI	GCANNNNNTGC	1 cut(s)	884
BstBI	TTCGAA	1 cut(s)	521
BstC8I	GCNNGC	1 cut(s)	300
BstDEI	CTNAG	3 cut(s)	108, 303, 914
BstF5I	GGATG	3 cut(s)	131, 736, 904
BstFNI	CGCG	1 cut(s)	322
BstKTI	GATC	7 cut(s)	146, 177, 210, 241, 420, 699, 826
BstMAI	GTCTC	4 cut(s)	113, 341, 499, 567
BstMBI	GATC	7 cut(s)	143, 174, 207, 238, 417, 696, 823
BstMWI	GCNNNNNNNGC	2 cut(s)	884, 908
BstUI	CGCG	1 cut(s)	322
BstV1I	GCAGC	1 cut(s)	86
BstV2I	GAAGAC	1 cut(s)	438
BstX2I	RGATCY	2 cut(s)	143, 417
BstYI	RGATCY	2 cut(s)	143, 417
BsuRI	GGCC	1 cut(s)	568
BtgZI	GCGATG	1 cut(s)	834
BtsCI	GGATG	3 cut(s)	131, 736, 904
BveI	ACCTGC	1 cut(s)	17
Cac8I	GCNNGC	1 cut(s)	300
CciI	TCATGA	1 cut(s)	433
Cfr13I	GGNCC	1 cut(s)	674
CseI	GACGC	2 cut(s)	366, 432
Csp6I	GTAC	1 cut(s)	154
CviAII	CATG	4 cut(s)	34, 91, 434, 580
CviQI	GTAC	1 cut(s)	154
DdeI	CTNAG	3 cut(s)	108, 303, 914
DpnI	GATC	7 cut(s)	145, 176, 209, 240, 419, 698, 825
DpnII	GATC	7 cut(s)	143, 174, 207, 238, 417, 696, 823
Eam1104I	CTCTTC	6 cut(s)	422, 458, 711, 775, 858, 933
EarI	CTCTTC	6 cut(s)	422, 458, 711, 775, 858, 933
Ecl136II	GAGCTC	1 cut(s)	640
Eco130I	CCWWGG	1 cut(s)	147
Eco24I	GRGCYC	1 cut(s)	642
Eco31I	GGTCTC	1 cut(s)	113
Eco47I	GGWCC	1 cut(s)	674
Eco53kI	GAGCTC	1 cut(s)	640
Eco57I	CTGAAG	3 cut(s)	278, 336, 704
EcoICRI	GAGCTC	1 cut(s)	640
EcoO109I	RGGNCCY	1 cut(s)	674
EcoT14I	CCWWGG	1 cut(s)	147
EcoT38I	GRGCYC	1 cut(s)	642
ErhI	CCWWGG	1 cut(s)	147
FaeI	CATG	4 cut(s)	37, 94, 437, 583
FaiI	YATR	9 cut(s)	35, 92, 197, 435, 581, 773, 807, 833, 953
FalI	AAGNNNNNCTT	2 cut(s)	602, 634
FatI	CATG	4 cut(s)	33, 90, 433, 579
FbaI	TGATCA	3 cut(s)	207, 238, 696
FblI	GTMKAC	1 cut(s)	744
Fnu4HI	GCNGC	1 cut(s)	100
FokI	GGATG	3 cut(s)	118, 743, 911
FriOI	GRGCYC	1 cut(s)	642
Fsp4HI	GCNGC	1 cut(s)	100
GluI	GCNGC	1 cut(s)	100
HaeIII	GGCC	1 cut(s)	568
HapII	CCGG	3 cut(s)	52, 200, 276
HgaI	GACGC	2 cut(s)	366, 432
Hin1I	GRCGYC	1 cut(s)	443
Hin1II	CATG	4 cut(s)	37, 94, 437, 583
HindIII	AAGCTT	2 cut(s)	290, 616
HinfI	GANTC	5 cut(s)	317, 430, 512, 527, 711
HpaII	CCGG	3 cut(s)	52, 200, 276
HphI	GGTGA	5 cut(s)	322, 372, 482, 595, 821
Hpy166II	GTNNAC	1 cut(s)	745
Hpy188I	TCNGA	8 cut(s)	63, 346, 355, 363, 453, 511, 550, 858
Hpy188III	TCNNGA	5 cut(s)	44, 218, 434, 572, 700
Hpy8I	GTNNAC	1 cut(s)	745
Hpy99I	CGWCG	3 cut(s)	16, 182, 818
HpyAV	CCTTC	4 cut(s)	301, 307, 665, 886
HpyCH4V	TGCA	4 cut(s)	26, 608, 878, 902
HpyF10VI	GCNNNNNNNGC	2 cut(s)	884, 908
HpyF3I	CTNAG	3 cut(s)	108, 303, 914
Hsp92I	GRCGYC	1 cut(s)	443
Hsp92II	CATG	4 cut(s)	37, 94, 437, 583
Ksp22I	TGATCA	3 cut(s)	207, 238, 696
Kzo9I	GATC	7 cut(s)	143, 174, 207, 238, 417, 696, 823
Lsp1109I	GCAGC	1 cut(s)	86
LweI	GCATC	2 cut(s)	648, 889
MaeIII	GTNAC	6 cut(s)	29, 378, 583, 591, 644, 809
MalI	GATC	7 cut(s)	145, 176, 209, 240, 419, 698, 825
MboI	GATC	7 cut(s)	143, 174, 207, 238, 417, 696, 823
MflI	RGATCY	2 cut(s)	143, 417
MhlI	GDGCHC	1 cut(s)	642
MluCI	AATT	5 cut(s)	57, 78, 271, 802, 976
MlyI	GAGTC	3 cut(s)	439, 521, 720
MslI	CAYNNNNRTG	1 cut(s)	653
MspI	CCGG	3 cut(s)	52, 200, 276
MvnI	CGCG	1 cut(s)	322
MwoI	GCNNNNNNNGC	2 cut(s)	884, 908
NdeII	GATC	7 cut(s)	143, 174, 207, 238, 417, 696, 823
NlaIII	CATG	4 cut(s)	37, 94, 437, 583
NlaIV	GGNNCC	2 cut(s)	145, 419
NmeAIII	GCCGAG	4 cut(s)	83, 479, 544, 734
NmuCI	GTSAC	4 cut(s)	378, 583, 591, 809
NspV	TTCGAA	1 cut(s)	521
OliI	CACNNNNGTG	1 cut(s)	653
PagI	TCATGA	1 cut(s)	433
PcsI	WCGNNNNNNNCGW	1 cut(s)	11
PfeI	GAWTC	2 cut(s)	317, 527
PflFI	GACNNNGTC	1 cut(s)	589
PkrI	GCNGC	1 cut(s)	101
PleI	GAGTC	3 cut(s)	438, 520, 719
PpsI	GAGTC	3 cut(s)	438, 520, 719
PpuMI	RGGWCCY	1 cut(s)	674
Psp124BI	GAGCTC	1 cut(s)	642
Psp5II	RGGWCCY	1 cut(s)	674
PspN4I	GGNNCC	2 cut(s)	145, 419
PspPI	GGNCC	1 cut(s)	674
PspPPI	RGGWCCY	1 cut(s)	674
PsuI	RGATCY	2 cut(s)	143, 417
PsyI	GACNNNGTC	1 cut(s)	589
RsaI	GTAC	1 cut(s)	155
RsaNI	GTAC	1 cut(s)	154
RseI	CAYNNNNRTG	1 cut(s)	653
SacI	GAGCTC	1 cut(s)	642
SatI	GCNGC	1 cut(s)	100
Sau3AI	GATC	7 cut(s)	143, 174, 207, 238, 417, 696, 823
Sau96I	GGNCC	1 cut(s)	674
ScaI	AGTACT	1 cut(s)	155
SchI	GAGTC	3 cut(s)	439, 521, 720
SduI	GDGCHC	1 cut(s)	642
SfaNI	GCATC	2 cut(s)	648, 889
SfuI	TTCGAA	1 cut(s)	521
SinI	GGWCC	1 cut(s)	674
SmiMI	CAYNNNNRTG	1 cut(s)	653
SmlI	CTYRAG	1 cut(s)	920
SmoI	CTYRAG	1 cut(s)	920
Sse9I	AATT	5 cut(s)	57, 78, 271, 802, 976
SspI	AATATT	1 cut(s)	214
SstI	GAGCTC	1 cut(s)	642
StyI	CCWWGG	1 cut(s)	147
TaqI	TCGA	4 cut(s)	5, 177, 521, 714
TasI	AATT	5 cut(s)	57, 78, 271, 802, 976
TatI	WGTACW	1 cut(s)	153
TfiI	GAWTC	2 cut(s)	317, 527
TseFI	GTSAC	4 cut(s)	378, 583, 591, 809
TseI	GCWGC	1 cut(s)	99
Tsp45I	GTSAC	4 cut(s)	378, 583, 591, 809
TspDTI	ATGAA	3 cut(s)	107, 128, 591
Tth111I	GACNNNGTC	1 cut(s)	589
VpaK11BI	GGWCC	1 cut(s)	674
XapI	RAATTY	2 cut(s)	57, 271
XmiI	GTMKAC	1 cut(s)	744
ZrmI	AGTACT	1 cut(s)	155

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