Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0004389

Physical Location & Seq

Genomic Coordinates Forward (+)

69272647 .. 69275099

Gene Structure 2453 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG438500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1575 bp

ATGGCCGTTCCTCCATCGGAAATTTCACTCCGGCTGTCGGATTCTAAGGCAAATTTCTTCAAAGTTATACTTCCCCCCACCATTGAGAACCAAAAACTAGATATTCCACTAAAGTCTGCACTAGAATTTGGGGATGAACTGTCTAATGTTGCTACACTAATTGTTCCAGCTGGTCGTGTTTGGCAAGTGGATTTGGAAAGAGCTCACAAGAGGATTTGGTTTGTCGGCTGTTGGCAAAAATTCGCAGAATATTACTCCTTAACTGATGGTCAGTTCTTAGTCTTTAGTTATCAAGGAAATTCGACATTCCATGTTCGCATTTTTGATTTCAGTTGTTGTGAGATCGAGTACCCTTGTGTTGGTCAAAGTATCAAACATGAAGAGGATGTTGAAGATGATGTTTGTGGAACTCTCCCTTCTTCCAGCAAAGGCAAAGGCAAAGGAAAATGTGTAGATCAACACGTTAAGAGGAAGAGGAAAAGTGTTGCTATTGCCAAGAGATTTGAAGAGGATGTTGAAGATGATGTTTGTGGAACTCTCCCCACTTCCAGCAAAGGCAGAGGAAAATGTGTAGATCAACATGTTAAGAGGAACAGGAAAAGCGTTGCTATTACCAAGAGATTTAAGCGAGCCAAGTTGAAGGTACAGAGAATGCCTAGCTCACAGGATTTTCCCACAAGAAAGAAGAAATACAAGGAAATATTTGTTAAGAACATAGCTGCTTACACTTATCCTAATTGCAAAATTACGATTGCCAAAGAACAACAGAAAGTGATCCATGCTACCAAAATGTTCAACTTGGAAAATCCTTTTTTTGCAGTTATCTTGCAGCAATGCAATCTTGACAACTACTATATGTATGTTCCAACTGCCTTTGGAAGGAGATATATGAGAGGATGTCCAGAACATATCAAGTTTGAGGATTCTAATGAAAAGCAGTGGGATATCCGATGCTTATTCCCAGCAAATACAAAGGTGATGAGGAGAATAGGCAAGGGATGTGGTGAATTTTTCAGAGACAATAATTTCAAGAATGGAGATGTCTGTCTCTTTGAGCTGATCAAAAGGAAGGATGTTGTGTTAAAATTTTCGGTACTGCGCAATGCTGAATATGCAGTCAGGGTTGGTGGGAAAAAGAAAAATCCAAAGATTCTTGATAGTGGAACCTTGTACTTCTCTAAGAAGATTAAGGAGATGGTATTATCCAGAGAAACCAAGAAGGCGATGAAGGCTGCGGGAGCTTTGAAGATTGAAAATCCTGCTTTCATGGTCATCTTGCGAGCGCACAACATGCGCAACTCTTTTGTGCATGTGCCTGCTGAGTTTGTGAAGGATCATCTGCTTGGATGTGCTGACTTCATCCACCTTAAGGCCTCTAGTGACAAGCGGGGCGTGCTCTGCACAGTCTGCACTTATGAGCCTCGAAGCCACAGAATGGAGATACGCGGAGGATTTGGTGAATTTGCTAAGGATAATAATTTGGAGGAAGGAGATGTTTGTGTGTTTGAGCTGATCAAGAGTGAGGCTGATGCGCTCAAAGTTTCAATATTCCATGCCAGTGACTATGCAAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

524

Amino Acids

59.91

Weight (kDa)

9.35

Isoelectric Point (pI)

43.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	19 - 109	8.4e-13	B3 DNA binding domain
B3	PF02362	271 - 368	5.7e-13	B3 DNA binding domain
B3	PF02362	424 - 519	5.2e-11	B3 DNA binding 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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004389)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G17170 AT5G17170
fragaria_vesca	FvH4_7g33550 FvH4_7g33550 FvH4_7g33560 FvH4_7g33560 FvH4_7g33560
malus_domestica	MD01G1233200.v1.1 MD07G1305400.v1.1
prunus_persica	Prupe.2G323500_v2.0.a1
pyrus_communis	pycom01g24150 pycom07g27870
rosa_chinensis	RchiOBHm_Chr1g0383771 RchiOBHm_Chr1g0383811
rosa_laevigata	RLG00000026095 RLG00000026096
rosa_multiflora	Rmu_co8230175.1_g000001 Rmu_sc0012471.1_g000008 Rmu_sc0019101.1_g000001
rosa_roxburghii	Rroxscaffold_4G00277220
rosa_rugosa	Rorug01G0442300 Rorug01G0442300
rosa_samantha	Rh1AG468000 Rh1AG468100 Rh1BG425700 Rh1BG425800 Rh1CG438400 Rh1CG438500 Rh1DG458500 Rh1DG458600
rosa_wichuraiana	Rw1G040430 Rw1G040440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	1100, 1295
AccB7I	CCANNNNNTGG	1 cut(s)	1435
AccII	CGCG	1 cut(s)	1446
AciI	CCGC	3 cut(s)	1235, 1387, 1446
AclWI	GGATC	2 cut(s)	769, 1341
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	8 cut(s)	21, 52, 125, 239, 298, 1007, 1085, 1460
AfaI	GTAC	4 cut(s)	350, 645, 1095, 1172
AfiI	CCNNNNNNNGG	5 cut(s)	37, 359, 879, 1369, 1435
AflII	CTTAAG	1 cut(s)	1367
AflIII	ACRYGT	2 cut(s)	460, 580
AluBI	AGCT	7 cut(s)	170, 203, 660, 719, 1057, 1241, 1510
AluI	AGCT	7 cut(s)	170, 203, 660, 719, 1057, 1241, 1510
Alw21I	GWGCWC	2 cut(s)	205, 1398
Alw26I	GTCTC	2 cut(s)	1011, 1052
AlwI	GGATC	2 cut(s)	769, 1341
AoxI	GGCC	2 cut(s)	3, 1371
ApeKI	GCWGC	3 cut(s)	719, 829, 1232
ApoI	RAATTY	8 cut(s)	21, 52, 125, 239, 298, 1007, 1085, 1460
AspLEI	GCGC	4 cut(s)	1101, 1285, 1296, 1534
AsuHPI	GGTGA	3 cut(s)	988, 1016, 1469
BanII	GRGCYC	1 cut(s)	205
Bbv12I	GWGCWC	2 cut(s)	205, 1398
BbvI	GCAGC	3 cut(s)	706, 841, 1219
BccI	CCATC	3 cut(s)	22, 260, 1189
BclI	TGATCA	2 cut(s)	1059, 1512
BcoDI	GTCTC	2 cut(s)	1011, 1052
BfaI	CTAG	4 cut(s)	98, 122, 657, 1377
BfrI	CTTAAG	1 cut(s)	1367
BisI	GCNGC	3 cut(s)	720, 830, 1233
BlsI	GCNGC	3 cut(s)	721, 831, 1234
BmiI	GGNNCC	1 cut(s)	1165
BmsI	GCATC	2 cut(s)	941, 1519
Bpu10I	CCTNAGC	1 cut(s)	1467
Bsc4I	CCNNNNNNNGG	5 cut(s)	37, 359, 879, 1369, 1435
Bse1I	ACTGG	1 cut(s)	1557
Bse3DI	GCAATG	2 cut(s)	839, 1108
BseGI	GGATG	8 cut(s)	139, 391, 517, 902, 1004, 1078, 1352, 1359
BseLI	CCNNNNNNNGG	5 cut(s)	37, 359, 879, 1369, 1435
BseMI	GCAATG	2 cut(s)	839, 1108
BseMII	CTCAG	1 cut(s)	1311
BseNI	ACTGG	1 cut(s)	1557
BseRI	GAGGAG	1 cut(s)	997
BseXI	GCAGC	3 cut(s)	706, 841, 1219
BseYI	CCCAGC	1 cut(s)	961
BsgI	GTGCAG	3 cut(s)	102, 1384, 1393
Bsh1236I	CGCG	1 cut(s)	1446
BshFI	GGCC	2 cut(s)	5, 1373
BsiHKAI	GWGCWC	2 cut(s)	205, 1398
BsiSI	CCGG	1 cut(s)	31
BslI	CCNNNNNNNGG	5 cut(s)	37, 359, 879, 1369, 1435
BsmAI	GTCTC	2 cut(s)	1011, 1052
BsmI	GAATGC	1 cut(s)	657
BsnI	GGCC	2 cut(s)	5, 1373
Bsp1286I	GDGCHC	2 cut(s)	205, 1398
Bsp143I	GATC	7 cut(s)	342, 454, 574, 774, 1059, 1333, 1512
BspACI	CCGC	3 cut(s)	1235, 1387, 1446
BspANI	GGCC	2 cut(s)	5, 1373
BspCNI	CTCAG	1 cut(s)	1312
BspFNI	CGCG	1 cut(s)	1446
BspLI	GGNNCC	1 cut(s)	1165
BspPI	GGATC	2 cut(s)	769, 1341
BspTI	CTTAAG	1 cut(s)	1367
BsrDI	GCAATG	2 cut(s)	839, 1108
BsrI	ACTGG	1 cut(s)	1557
BssMI	GATC	7 cut(s)	342, 454, 574, 774, 1059, 1333, 1512
Bst4CI	ACNGT	2 cut(s)	141, 1405
Bst6I	CTCTTC	3 cut(s)	375, 467, 501
BstAFI	CTTAAG	1 cut(s)	1367
BstAPI	GCANNNNNTGC	2 cut(s)	1291, 1407
BstC8I	GCNNGC	4 cut(s)	630, 1281, 1317, 1394
BstDEI	CTNAG	5 cut(s)	45, 277, 1179, 1320, 1467
BstENI	CCTNNNNNAGG	1 cut(s)	877
BstF5I	GGATG	8 cut(s)	139, 391, 517, 902, 1004, 1078, 1352, 1359
BstFNI	CGCG	1 cut(s)	1446
BstHHI	GCGC	4 cut(s)	1101, 1285, 1296, 1534
BstKTI	GATC	7 cut(s)	345, 457, 577, 777, 1062, 1336, 1515
BstMAI	GTCTC	2 cut(s)	1011, 1052
BstMBI	GATC	7 cut(s)	342, 454, 574, 774, 1059, 1333, 1512
BstMWI	GCNNNNNNNGC	7 cut(s)	1112, 1229, 1238, 1291, 1393, 1398, 1407
BstNSI	RCATGY	3 cut(s)	584, 1294, 1313
BstUI	CGCG	1 cut(s)	1446
BstV1I	GCAGC	3 cut(s)	706, 841, 1219
BsuRI	GGCC	2 cut(s)	5, 1373
BtgZI	GCGATG	1 cut(s)	1238
BtsCI	GGATG	8 cut(s)	139, 391, 517, 902, 1004, 1078, 1352, 1359
BtsI	GCAGTG	1 cut(s)	944
BtsIMutI	CAGTG	2 cut(s)	944, 1564
Cac8I	GCNNGC	4 cut(s)	630, 1281, 1317, 1394
CfoI	GCGC	4 cut(s)	1101, 1285, 1296, 1534
Csp6I	GTAC	4 cut(s)	349, 644, 1094, 1171
CspCI	CAANNNNNGTGG	2 cut(s)	982, 1017
CviAII	CATG	8 cut(s)	311, 377, 581, 779, 1267, 1291, 1310, 1553
CviQI	GTAC	4 cut(s)	349, 644, 1094, 1171
DdeI	CTNAG	5 cut(s)	45, 277, 1179, 1320, 1467
DpnI	GATC	7 cut(s)	344, 456, 576, 776, 1061, 1335, 1514
DpnII	GATC	7 cut(s)	342, 454, 574, 774, 1059, 1333, 1512
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	3 cut(s)	375, 467, 501
EarI	CTCTTC	3 cut(s)	375, 467, 501
Ecl136II	GAGCTC	1 cut(s)	203
Eco147I	AGGCCT	1 cut(s)	1373
Eco24I	GRGCYC	1 cut(s)	205
Eco32I	GATATC	1 cut(s)	946
Eco53kI	GAGCTC	1 cut(s)	203
EcoICRI	GAGCTC	1 cut(s)	203
EcoNI	CCTNNNNNAGG	1 cut(s)	877
EcoRV	GATATC	1 cut(s)	946
EcoT38I	GRGCYC	1 cut(s)	205
FaeI	CATG	8 cut(s)	314, 380, 584, 782, 1270, 1294, 1313, 1556
FalI	AAGNNNNNCTT	2 cut(s)	54, 86
FatI	CATG	8 cut(s)	310, 376, 580, 778, 1266, 1290, 1309, 1552
FauI	CCCGC	2 cut(s)	1228, 1380
FbaI	TGATCA	2 cut(s)	1059, 1512
Fnu4HI	GCNGC	3 cut(s)	720, 830, 1233
FokI	GGATG	8 cut(s)	146, 398, 524, 909, 1011, 1085, 1346, 1359
FriOI	GRGCYC	1 cut(s)	205
Fsp4HI	GCNGC	3 cut(s)	720, 830, 1233
FspBI	CTAG	4 cut(s)	98, 122, 657, 1377
FspI	TGCGCA	2 cut(s)	1100, 1295
GlaI	GCGC	4 cut(s)	1100, 1284, 1295, 1533
GluI	GCNGC	3 cut(s)	720, 830, 1233
GsaI	CCCAGC	1 cut(s)	965
HaeIII	GGCC	2 cut(s)	5, 1373
HapII	CCGG	1 cut(s)	31
HhaI	GCGC	4 cut(s)	1101, 1285, 1296, 1534
Hin1II	CATG	8 cut(s)	314, 380, 584, 782, 1270, 1294, 1313, 1556
Hin6I	GCGC	4 cut(s)	1099, 1283, 1294, 1532
HinP1I	GCGC	4 cut(s)	1099, 1283, 1294, 1532
HinfI	GANTC	3 cut(s)	41, 923, 1150
HpaII	CCGG	1 cut(s)	31
HphI	GGTGA	3 cut(s)	988, 1016, 1469
Hpy188I	TCNGA	4 cut(s)	19, 40, 950, 1016
Hpy188III	TCNNGA	6 cut(s)	842, 902, 1030, 1154, 1206, 1516
HpyAV	CCTTC	8 cut(s)	426, 634, 873, 1063, 1213, 1222, 1324, 1481
HpyCH4III	ACNGT	2 cut(s)	141, 1405
HpyCH4IV	ACGT	1 cut(s)	462
HpyF10VI	GCNNNNNNNGC	7 cut(s)	1112, 1229, 1238, 1291, 1393, 1398, 1407
HpyF3I	CTNAG	5 cut(s)	45, 277, 1179, 1320, 1467
HpySE526I	ACGT	1 cut(s)	462
Hsp92II	CATG	8 cut(s)	314, 380, 584, 782, 1270, 1294, 1313, 1556
HspAI	GCGC	4 cut(s)	1099, 1283, 1294, 1532
Ksp22I	TGATCA	2 cut(s)	1059, 1512
Kzo9I	GATC	7 cut(s)	342, 454, 574, 774, 1059, 1333, 1512
LmnI	GCTCC	1 cut(s)	1238
Lsp1109I	GCAGC	3 cut(s)	706, 841, 1219
LweI	GCATC	2 cut(s)	941, 1519
MaeI	CTAG	4 cut(s)	98, 122, 657, 1377
MaeII	ACGT	1 cut(s)	462
MaeIII	GTNAC	2 cut(s)	1379, 1559
MalI	GATC	7 cut(s)	344, 456, 576, 776, 1061, 1335, 1514
MboI	GATC	7 cut(s)	342, 454, 574, 774, 1059, 1333, 1512
MhlI	GDGCHC	2 cut(s)	205, 1398
MmeI	TCCRAC	2 cut(s)	18, 890
MseI	TTAA	8 cut(s)	260, 465, 585, 624, 708, 1082, 1188, 1368
MslI	CAYNNNNRTG	1 cut(s)	1557
MspA1I	CMGCKG	1 cut(s)	170
MspCI	CTTAAG	1 cut(s)	1367
MspI	CCGG	1 cut(s)	31
Mva1269I	GAATGC	1 cut(s)	657
MvnI	CGCG	1 cut(s)	1446
MwoI	GCNNNNNNNGC	7 cut(s)	1112, 1229, 1238, 1291, 1393, 1398, 1407
NdeII	GATC	7 cut(s)	342, 454, 574, 774, 1059, 1333, 1512
NlaIII	CATG	8 cut(s)	314, 380, 584, 782, 1270, 1294, 1313, 1556
NlaIV	GGNNCC	1 cut(s)	1165
NmuCI	GTSAC	2 cut(s)	1379, 1559
NsbI	TGCGCA	2 cut(s)	1100, 1295
NspI	RCATGY	3 cut(s)	584, 1294, 1313
PceI	AGGCCT	1 cut(s)	1373
PciI	ACATGT	1 cut(s)	580
PctI	GAATGC	1 cut(s)	657
PfeI	GAWTC	3 cut(s)	41, 923, 1150
PflMI	CCANNNNNTGG	1 cut(s)	1435
PkrI	GCNGC	3 cut(s)	721, 831, 1234
PscI	ACATGT	1 cut(s)	580
Psp124BI	GAGCTC	1 cut(s)	205
PspFI	CCCAGC	1 cut(s)	961
PspN4I	GGNNCC	1 cut(s)	1165
PvuII	CAGCTG	1 cut(s)	170
RsaI	GTAC	4 cut(s)	350, 645, 1095, 1172
RsaNI	GTAC	4 cut(s)	349, 644, 1094, 1171
RseI	CAYNNNNRTG	1 cut(s)	1557
SacI	GAGCTC	1 cut(s)	205
SaqAI	TTAA	8 cut(s)	260, 465, 585, 624, 708, 1082, 1188, 1368
SatI	GCNGC	3 cut(s)	720, 830, 1233
Sau3AI	GATC	7 cut(s)	342, 454, 574, 774, 1059, 1333, 1512
SduI	GDGCHC	2 cut(s)	205, 1398
SfaNI	GCATC	2 cut(s)	941, 1519
SmiMI	CAYNNNNRTG	1 cut(s)	1557
SmlI	CTYRAG	1 cut(s)	1367
SmoI	CTYRAG	1 cut(s)	1367
SseBI	AGGCCT	1 cut(s)	1373
SsiI	CCGC	3 cut(s)	1235, 1387, 1446
SspI	AATATT	3 cut(s)	251, 702, 1548
SspMI	CTAG	4 cut(s)	98, 122, 657, 1377
SstI	GAGCTC	1 cut(s)	205
StuI	AGGCCT	1 cut(s)	1373
TaaI	ACNGT	2 cut(s)	141, 1405
TaiI	ACGT	1 cut(s)	465
TaqI	TCGA	3 cut(s)	302, 345, 1423
TatI	WGTACW	1 cut(s)	1170
TfiI	GAWTC	3 cut(s)	41, 923, 1150
Tru1I	TTAA	8 cut(s)	260, 465, 585, 624, 708, 1082, 1188, 1368
Tru9I	TTAA	8 cut(s)	260, 465, 585, 624, 708, 1082, 1188, 1368
TscAI	CASTG	2 cut(s)	944, 1564
TseFI	GTSAC	2 cut(s)	1379, 1559
TseI	GCWGC	3 cut(s)	719, 829, 1232
Tsp45I	GTSAC	2 cut(s)	1379, 1559
TspDTI	ATGAA	6 cut(s)	150, 393, 945, 1241, 1255, 1348
TspRI	CASTG	2 cut(s)	944, 1564
Van91I	CCANNNNNTGG	1 cut(s)	1435
Vha464I	CTTAAG	1 cut(s)	1367
XagI	CCTNNNNNAGG	1 cut(s)	877
XapI	RAATTY	8 cut(s)	21, 52, 125, 239, 298, 1007, 1085, 1460
XceI	RCATGY	3 cut(s)	584, 1294, 1313
XspI	CTAG	4 cut(s)	98, 122, 657, 1377

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