Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0008403

Physical Location & Seq

Genomic Coordinates Forward (+)

82647028 .. 82653692

Gene Structure 6665 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00144730.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1425 bp

ATGGAGACCGAGTTTTCTGCGCTGCTAAATATAGCAGAGAGGACTCCTGGTCTGTACTTCTCATACGAGGCCAATCTAACACTGAGTTCGCAACGATTGAATGATTTAGGCGGTGAATCTAAATCGCTTCCTCTTTGGAGACAGGCAGAGCCTAGATTTCTTTGGAACAATTATATGTTGGAGAACCTCATTGATAACAAGCTTGATCCATACCTACTTCCTATTGTTCAAGGCAGCTTTCATCATTTTCAAGCAGCCATTGGAAAAGATATTGTCGATGTTACTCTGATTGCTAGGAGATGCACTAGGCGAAATGGTACTCGGATGTGGAGAAGAGGAGCTGATCCTGATGGCTATGTAGCAAATTTTGTGGAAACAGAGCAGATTATGCACTTGAATGGGTTTACTGCATCATTTGTCCAGGTTAGGGGTTCAATTCCATTGCTTTGGGATCAAATTGTTGATTTGACATATAAGCCTAAGTTCGAAATTGTGCGACTTGAGGAAGCTCCGCGAGTGGCAGAGAGGCATTTTCTGGATTTAAGAAAAAAGTATGGGGCAGTGTTAGCTGTTGATCTTGTCAACACGCATGGAGGTGAAGGACGCTTGAGTGAAAAATTTGCAAATGCAATGCAGCATATCGTTAGTGATGATCTCAGATATTGGCACTTCGATTTTCATCATATCTGTGGACACGTCCATTTTGAGCGCCTCTCTATCCTTTATGAACAAATAGTAGATTTTCTTGACAGAAATGGGTATCTTTTGTTGAATGAAAATGGTGAGAAAATGAAGGAGCAATTAGGAGTTGTAAGGACCAATTGCATTGATTGCTTAGATCGTACAAATGTTACCCAGAGTATGATAGGCCGCAATATGTTGGAATGCCAACTTAGGAGGCTTGGTATTTTTGCTGCTGAAGAAACTATTAGCTCACATCCCAATTTAGATGAATGCTTTAAAATTTTGTGGGCTGATCATGGGGATGATGTAAGCATTCAATATTCTGGCACTCCTGCTTTGAAAGGGGATTTTGTAAGATGTGGCCAGCGGACAATGCAAGGAATGGTCAAGGATGGGATCAATGCCCTTCTGCGCTATTACTACAACAACTTCTGTGATGGAACTAAACAGGATGCAATTGACCTCCTGCAAGGACATTACATTGTCTCGGTCAGCAAAGATATGACAGCACCATCTCAAAAGAAAGGACTTGAGGCTGTTGCTTCATTTCCACTGGCTTTGTCATTCGTTTTGACTGGATTCTTTTTTGCGACTTTGTCATTGAGGCAAGTTAGGTACGATCTACGGCACTTGTTCTTCTCATTTATGTGGGCTGGTCTAAGTGTGGCTATAGCTGCATTTGTGAGGGCCAATGGGCGGATTTTCTGCAATAGACCTCGTCTGCACAAGCCTCGGTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000902 GO:0000904 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0005886 GO:0005911 GO:0006629 GO:0006644 GO:0006650 GO:0006793 GO:0006796 GO:0006950 GO:0006970 GO:0007275 GO:0008150 GO:0008152 GO:0009506 GO:0009611 GO:0009628 GO:0009651 GO:0009653 GO:0009826 GO:0009888 GO:0009932 GO:0009987 GO:0010015 GO:0010053 GO:0010054 GO:0012505 GO:0016020 GO:0016043 GO:0016049 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019637 GO:0021700 GO:0022622 GO:0030054 GO:0030154 GO:0030258 GO:0030427 GO:0031520 GO:0031984 GO:0032501 GO:0032502 GO:0032989 GO:0034596 GO:0035618 GO:0035619 GO:0035838 GO:0040007 GO:0042175 GO:0042578 GO:0042995 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043812 GO:0044237 GO:0044238 GO:0044255 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044459 GO:0044463 GO:0044464 GO:0046486 GO:0046488 GO:0046839 GO:0046856 GO:0048364 GO:0048468 GO:0048469 GO:0048588 GO:0048589 GO:0048731 GO:0048764 GO:0048765 GO:0048767 GO:0048768 GO:0048856 GO:0048869 GO:0050896 GO:0051286 GO:0052744 GO:0052866 GO:0055044 GO:0060560 GO:0071695 GO:0071704 GO:0071840 GO:0071944 GO:0080147 GO:0090404 GO:0090406 GO:0090558 GO:0090627 GO:0098590 GO:0098827 GO:0099402 GO:0120025 GO:0120038 GO:1905392

KEGG Pathways

Metabolic & Signaling

ko00562 ko01100 ko04070 map00562 map01100 map04070

Pfam Domains

Protein Families

Syja_N

Protein Analysis

474

Amino Acids

54.34

Weight (kDa)

7.26

Isoelectric Point (pI)

32.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Syja_N	PF02383	2 - 230	1.5e-67	SacI homology 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: OG0008403)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G51460 AT5G66020
fragaria_vesca	FvH4_1g10490 FvH4_1g10490 FvH4_1g10490
malus_domestica	MD02G1118500.v1.1 MD15G1232800.v1.1
prunus_persica	Prupe.7G181200_v2.0.a1 Prupe.7G181200_v2.0.a1 Prupe.7G181200_v2.0.a1
pyrus_communis	pycom02g09200 pycom15g20720
rosa_chinensis	RchiOBHm_Chr2g0097371
rosa_laevigata	RLG00000016721
rosa_multiflora	Rmu_sc0001060.1_g000009
rosa_roxburghii	Rroxscaffold_2G00144730
rosa_rugosa	Rorug02G0066100 Rorug02G0066200
rosa_samantha	Rh2AG112900 Rh2BG115700 Rh2CG117700 Rh2DG116900
rosa_wichuraiana	Rw2G008840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	514
AciI	CCGC	5 cut(s)	111, 512, 871, 1051, 1381
AclWI	GGATC	4 cut(s)	200, 338, 459, 1088
AcoI	YGGCCR	1 cut(s)	1045
AcsI	RAATTY	3 cut(s)	364, 617, 963
AcuI	CTGAAG	1 cut(s)	939
AfaI	GTAC	4 cut(s)	56, 319, 844, 1301
AfiI	CCNNNNNNNGG	2 cut(s)	427, 1380
AflIII	ACRYGT	1 cut(s)	694
AgsI	TTSAA	8 cut(s)	100, 230, 251, 397, 435, 772, 1001, 1024
AhdI	GACNNNNNGTC	1 cut(s)	48
AjiI	CACGTC	1 cut(s)	697
AjnI	CCWGG	2 cut(s)	46, 420
AluBI	AGCT	7 cut(s)	202, 237, 341, 509, 569, 933, 1358
AluI	AGCT	7 cut(s)	202, 237, 341, 509, 569, 933, 1358
Alw26I	GTCTC	2 cut(s)	133, 1174
AlwI	GGATC	4 cut(s)	200, 338, 459, 1088
AoxI	GGCC	4 cut(s)	69, 868, 1045, 1371
ApeKI	GCWGC	6 cut(s)	22, 234, 254, 634, 914, 1358
ApoI	RAATTY	3 cut(s)	364, 617, 963
AspLEI	GCGC	3 cut(s)	22, 711, 1098
AspS9I	GGNCC	2 cut(s)	816, 1371
AsuHPI	GGTGA	3 cut(s)	125, 608, 794
AsuII	TTCGAA	1 cut(s)	486
AvaII	GGWCC	1 cut(s)	816
BalI	TGGCCA	1 cut(s)	1047
BbvI	GCAGC	6 cut(s)	9, 246, 266, 646, 901, 1345
BccI	CCATC	4 cut(s)	344, 1070, 1115, 1204
BceAI	ACGGC	1 cut(s)	1325
BcgI	CGANNNNNNTGC	2 cut(s)	33, 1397
BciT130I	CCWGG	2 cut(s)	48, 422
BclI	TGATCA	1 cut(s)	976
BcoDI	GTCTC	2 cut(s)	133, 1174
BfaI	CTAG	3 cut(s)	153, 294, 306
BfmI	CTRYAG	1 cut(s)	1353
BfoI	RGCGCY	1 cut(s)	712
BisI	GCNGC	7 cut(s)	23, 235, 255, 635, 871, 915, 1359
BlsI	GCNGC	7 cut(s)	24, 236, 256, 636, 872, 916, 1360
Bme1390I	CCNGG	2 cut(s)	48, 422
Bme18I	GGWCC	1 cut(s)	816
BmeRI	GACNNNNNGTC	1 cut(s)	48
BmgBI	CACGTC	1 cut(s)	697
BmgT120I	GGNCC	2 cut(s)	816, 1371
BmrFI	CCNGG	2 cut(s)	48, 422
BmsI	GCATC	3 cut(s)	290, 419, 1126
BplI	GAGNNNNNCTC	2 cut(s)	698, 730
Bpu14I	TTCGAA	1 cut(s)	486
BpuEI	CTTGAG	3 cut(s)	521, 628, 1235
BsaBI	GATNNNNATC	1 cut(s)	678
BsaJI	CCNNGG	1 cut(s)	1415
BsaXI	ACNNNNNCTCC	3 cut(s)	26, 889, 919
Bsc4I	CCNNNNNNNGG	2 cut(s)	427, 1380
Bse1I	ACTGG	2 cut(s)	1242, 1264
Bse3DI	GCAATG	2 cut(s)	440, 636
Bse8I	GATNNNNATC	1 cut(s)	678
BseBI	CCWGG	2 cut(s)	48, 422
BseDI	CCNNGG	1 cut(s)	1415
BseGI	GGATG	5 cut(s)	330, 937, 991, 1081, 1141
BseJI	GATNNNNATC	1 cut(s)	678
BseLI	CCNNNNNNNGG	2 cut(s)	427, 1380
BseMI	GCAATG	2 cut(s)	440, 636
BseMII	CTCAG	2 cut(s)	74, 670
BseNI	ACTGG	2 cut(s)	1242, 1264
BseRI	GAGGAG	1 cut(s)	351
BseXI	GCAGC	6 cut(s)	9, 246, 266, 646, 901, 1345
BsgI	GTGCAG	1 cut(s)	1391
Bsh1236I	CGCG	1 cut(s)	514
BshFI	GGCC	4 cut(s)	71, 870, 1047, 1373
BslI	CCNNNNNNNGG	2 cut(s)	427, 1380
BsmAI	GTCTC	2 cut(s)	133, 1174
BsmI	GAATGC	3 cut(s)	890, 959, 996
BsnI	GGCC	4 cut(s)	71, 870, 1047, 1373
Bsp119I	TTCGAA	1 cut(s)	486
Bsp143I	GATC	9 cut(s)	205, 343, 451, 574, 652, 838, 976, 1080, 1303
BspACI	CCGC	5 cut(s)	111, 512, 871, 1051, 1381
BspANI	GGCC	4 cut(s)	71, 870, 1047, 1373
BspCNI	CTCAG	2 cut(s)	75, 669
BspFNI	CGCG	1 cut(s)	514
BspPI	GGATC	4 cut(s)	200, 338, 459, 1088
BspT104I	TTCGAA	1 cut(s)	486
BsrDI	GCAATG	2 cut(s)	440, 636
BsrI	ACTGG	2 cut(s)	1242, 1264
BssECI	CCNNGG	1 cut(s)	1415
BssMI	GATC	9 cut(s)	205, 343, 451, 574, 652, 838, 976, 1080, 1303
Bst2UI	CCWGG	2 cut(s)	48, 422
Bst6I	CTCTTC	1 cut(s)	328
BstAPI	GCANNNNNTGC	2 cut(s)	388, 831
BstBI	TTCGAA	1 cut(s)	486
BstC8I	GCNNGC	1 cut(s)	1049
BstDEI	CTNAG	6 cut(s)	83, 480, 656, 835, 893, 1343
BstF5I	GGATG	5 cut(s)	330, 937, 991, 1081, 1141
BstFNI	CGCG	1 cut(s)	514
BstH2I	RGCGCY	1 cut(s)	712
BstHHI	GCGC	3 cut(s)	22, 711, 1098
BstKTI	GATC	9 cut(s)	208, 346, 454, 577, 655, 841, 979, 1083, 1306
BstMAI	GTCTC	2 cut(s)	133, 1174
BstMBI	GATC	9 cut(s)	205, 343, 451, 574, 652, 838, 976, 1080, 1303
BstMWI	GCNNNNNNNGC	5 cut(s)	388, 566, 831, 1057, 1358
BstNI	CCWGG	2 cut(s)	48, 422
BstSCI	CCNGG	2 cut(s)	46, 420
BstSFI	CTRYAG	1 cut(s)	1353
BstUI	CGCG	1 cut(s)	514
BstV1I	GCAGC	6 cut(s)	9, 246, 266, 646, 901, 1345
BstXI	CCANNNNNNTGG	1 cut(s)	447
BsuRI	GGCC	4 cut(s)	71, 870, 1047, 1373
BtrI	CACGTC	1 cut(s)	697
BtsCI	GGATG	5 cut(s)	330, 937, 991, 1081, 1141
BtsI	GCAGTG	1 cut(s)	567
BtsIMutI	CAGTG	3 cut(s)	80, 567, 1235
Cac8I	GCNNGC	1 cut(s)	1049
CfoI	GCGC	3 cut(s)	22, 711, 1098
Cfr13I	GGNCC	2 cut(s)	816, 1371
CseI	GACGC	1 cut(s)	612
Csp6I	GTAC	4 cut(s)	55, 318, 843, 1300
CspCI	CAANNNNNGTGG	4 cut(s)	351, 386, 1224, 1259
CviAII	CATG	2 cut(s)	590, 980
CviQI	GTAC	4 cut(s)	55, 318, 843, 1300
DdeI	CTNAG	6 cut(s)	83, 480, 656, 835, 893, 1343
DpnI	GATC	9 cut(s)	207, 345, 453, 576, 654, 840, 978, 1082, 1305
DpnII	GATC	9 cut(s)	205, 343, 451, 574, 652, 838, 976, 1080, 1303
DraI	TTTAAA	1 cut(s)	961
DriI	GACNNNNNGTC	1 cut(s)	48
EaeI	YGGCCR	1 cut(s)	1045
Eam1104I	CTCTTC	1 cut(s)	328
Eam1105I	GACNNNNNGTC	1 cut(s)	48
EarI	CTCTTC	1 cut(s)	328
EciI	GGCGGA	1 cut(s)	1396
Eco47I	GGWCC	1 cut(s)	816
Eco57I	CTGAAG	1 cut(s)	939
EcoRII	CCWGG	2 cut(s)	46, 420
FaeI	CATG	2 cut(s)	593, 983
FatI	CATG	2 cut(s)	589, 979
FbaI	TGATCA	1 cut(s)	976
Fnu4HI	GCNGC	7 cut(s)	23, 235, 255, 635, 871, 915, 1359
FokI	GGATG	5 cut(s)	337, 924, 998, 1088, 1148
Fsp4HI	GCNGC	7 cut(s)	23, 235, 255, 635, 871, 915, 1359
FspBI	CTAG	3 cut(s)	153, 294, 306
GlaI	GCGC	3 cut(s)	21, 710, 1097
GluI	GCNGC	7 cut(s)	23, 235, 255, 635, 871, 915, 1359
HaeII	RGCGCY	1 cut(s)	712
HaeIII	GGCC	4 cut(s)	71, 870, 1047, 1373
HgaI	GACGC	1 cut(s)	612
HhaI	GCGC	3 cut(s)	22, 711, 1098
Hin1II	CATG	2 cut(s)	593, 983
Hin6I	GCGC	3 cut(s)	20, 709, 1096
HinP1I	GCGC	3 cut(s)	20, 709, 1096
HincII	GTYRAC	1 cut(s)	583
HindII	GTYRAC	1 cut(s)	583
HindIII	AAGCTT	1 cut(s)	200
HinfI	GANTC	3 cut(s)	43, 116, 1263
HphI	GGTGA	3 cut(s)	125, 608, 794
Hpy166II	GTNNAC	3 cut(s)	405, 583, 692
Hpy188I	TCNGA	3 cut(s)	288, 324, 659
Hpy188III	TCNNGA	4 cut(s)	347, 536, 746, 1422
Hpy8I	GTNNAC	3 cut(s)	405, 583, 692
HpyAV	CCTTC	3 cut(s)	593, 787, 1100
HpyCH4IV	ACGT	1 cut(s)	696
HpyF10VI	GCNNNNNNNGC	5 cut(s)	388, 566, 831, 1057, 1358
HpyF3I	CTNAG	6 cut(s)	83, 480, 656, 835, 893, 1343
HpySE526I	ACGT	1 cut(s)	696
Hsp92II	CATG	2 cut(s)	593, 983
HspAI	GCGC	3 cut(s)	20, 709, 1096
Ksp22I	TGATCA	1 cut(s)	976
Kzo9I	GATC	9 cut(s)	205, 343, 451, 574, 652, 838, 976, 1080, 1303
LmnI	GCTCC	3 cut(s)	338, 514, 796
Lsp1109I	GCAGC	6 cut(s)	9, 246, 266, 646, 901, 1345
LweI	GCATC	3 cut(s)	290, 419, 1126
MaeI	CTAG	3 cut(s)	153, 294, 306
MaeII	ACGT	1 cut(s)	696
MaeIII	GTNAC	2 cut(s)	280, 850
MalI	GATC	9 cut(s)	207, 345, 453, 576, 654, 840, 978, 1082, 1305
MboI	GATC	9 cut(s)	205, 343, 451, 574, 652, 838, 976, 1080, 1303
MboII	GAAGA	3 cut(s)	345, 932, 1312
MfeI	CAATTG	2 cut(s)	820, 1140
MlsI	TGGCCA	1 cut(s)	1047
MluNI	TGGCCA	1 cut(s)	1047
MlyI	GAGTC	1 cut(s)	37
MmeI	TCCRAC	2 cut(s)	159, 861
Mox20I	TGGCCA	1 cut(s)	1047
MscI	TGGCCA	1 cut(s)	1047
MseI	TTAA	2 cut(s)	542, 960
MslI	CAYNNNNRTG	5 cut(s)	396, 594, 687, 984, 1330
Msp20I	TGGCCA	1 cut(s)	1047
MspA1I	CMGCKG	1 cut(s)	1051
MspR9I	CCNGG	2 cut(s)	48, 422
MunI	CAATTG	2 cut(s)	820, 1140
Mva1269I	GAATGC	3 cut(s)	890, 959, 996
MvaI	CCWGG	2 cut(s)	48, 422
MvnI	CGCG	1 cut(s)	514
MwoI	GCNNNNNNNGC	5 cut(s)	388, 566, 831, 1057, 1358
NdeII	GATC	9 cut(s)	205, 343, 451, 574, 652, 838, 976, 1080, 1303
NlaIII	CATG	2 cut(s)	593, 983
NspV	TTCGAA	1 cut(s)	486
PctI	GAATGC	3 cut(s)	890, 959, 996
PfeI	GAWTC	2 cut(s)	116, 1263
PflFI	GACNNNGTC	2 cut(s)	1279, 1401
PkrI	GCNGC	7 cut(s)	24, 236, 256, 636, 872, 916, 1360
PleI	GAGTC	1 cut(s)	37
PpsI	GAGTC	1 cut(s)	37
Psp6I	CCWGG	2 cut(s)	46, 420
PspGI	CCWGG	2 cut(s)	46, 420
PspPI	GGNCC	2 cut(s)	816, 1371
PsyI	GACNNNGTC	2 cut(s)	1279, 1401
RsaI	GTAC	4 cut(s)	56, 319, 844, 1301
RsaNI	GTAC	4 cut(s)	55, 318, 843, 1300
RseI	CAYNNNNRTG	5 cut(s)	396, 594, 687, 984, 1330
SaqAI	TTAA	2 cut(s)	542, 960
SatI	GCNGC	7 cut(s)	23, 235, 255, 635, 871, 915, 1359
Sau3AI	GATC	9 cut(s)	205, 343, 451, 574, 652, 838, 976, 1080, 1303
Sau96I	GGNCC	2 cut(s)	816, 1371
SchI	GAGTC	1 cut(s)	37
ScrFI	CCNGG	2 cut(s)	48, 422
SfaNI	GCATC	3 cut(s)	290, 419, 1126
SfcI	CTRYAG	1 cut(s)	1353
SfuI	TTCGAA	1 cut(s)	486
SinI	GGWCC	1 cut(s)	816
SmiMI	CAYNNNNRTG	5 cut(s)	396, 594, 687, 984, 1330
SmlI	CTYRAG	3 cut(s)	500, 607, 1214
SmoI	CTYRAG	3 cut(s)	500, 607, 1214
SsiI	CCGC	5 cut(s)	111, 512, 871, 1051, 1381
SspI	AATATT	1 cut(s)	1004
SspMI	CTAG	3 cut(s)	153, 294, 306
StyD4I	CCNGG	2 cut(s)	46, 420
TaiI	ACGT	1 cut(s)	699
TaqI	TCGA	3 cut(s)	276, 486, 672
TaqII	GACCGA	3 cut(s)	23, 1162, 1407
TatI	WGTACW	1 cut(s)	54
TauI	GCSGC	1 cut(s)	873
TfiI	GAWTC	2 cut(s)	116, 1263
Tru1I	TTAA	2 cut(s)	542, 960
Tru9I	TTAA	2 cut(s)	542, 960
TscAI	CASTG	3 cut(s)	87, 567, 1242
TseI	GCWGC	6 cut(s)	22, 234, 254, 634, 914, 1358
TspDTI	ATGAA	7 cut(s)	230, 668, 741, 789, 806, 966, 1218
TspRI	CASTG	3 cut(s)	87, 567, 1242
Tth111I	GACNNNGTC	2 cut(s)	1279, 1401
VpaK11BI	GGWCC	1 cut(s)	816
XapI	RAATTY	3 cut(s)	364, 617, 963
XspI	CTAG	3 cut(s)	153, 294, 306

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