Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0001889

Physical Location & Seq

Genomic Coordinates Reverse (-)

5965855 .. 5997851

Gene Structure 31997 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG029900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1470 bp

ATGAAATTGGGTATCAATGTCGAGGCTGGACAGAATTGGACTATTTCTTCCTGGTTCAGCGATCAAATCCCTGCAACAGGTGTTTTTAGGCTTGGCGTTGATCCTGGTAGCACCAACCAATTGATCATCTGGAGGCGAGATGAAGTATACTGGAGCAGTGGGGTCTGGGAAAATGGAACCTTTCAAAATGCTCCTGAAATGACAAGAAGGGTTGATCTATTTGAGTTCACTTTTGTTTCAAACAAGGAAGATAAGTACTTTACTTATACCGTTAAAAACAGGTCTACTGTTTCAAGGTGGGAACTGAATGCTTGGGGCCAAATCATGCACTCCACTCTCAACGGTACTACTTGGGAGAGCACAGAAGCTAGTCCATGCACATTCAACTTGACTAATCCGGGAGCCCTGTGCATAGAGGAGAAGCCCTCTGAATGCAGGAATGGCTCGGACGGACTTGTACCAGTAAGAGGCTATTTTGATGGAAACGAAATTTTACATCATGACAACAATACTGAAATGACCATTAGTGATTGCCATGCTACTTGCTGGAGTGACTGCGCCTGTGTTGGCTACAAAAGTATATATACCAATGGGACTGGGTGTGTGTTTATGAGTGGAGAAGCGAAATTTATCCCGAATAGTTACTTTGATGCTACTTATGTCCTTAACATATGGAATCATAGCAAAGGCTATGAGTCGCATTCCGCTAACCAGAGTACATTTCTCATGACCTTCGTGGTCAAGCTTGGCGTTGATCCTGGTAGCACCAACCAATTGATCATCAGGAGGCGAGATGAAGTATACTGGAGCAGTGGGGTCTGGGAAAATGGAACCTTTCAAAATGCTCCTGAAATGACAAGAAGGGTTGATCTATTTGAGTTCACTTTTGTTTCAAACAAGGAAGATAAGTACTTTACTTATACCGTTAAAAACAGGTCTACCATTTCAAGGTGGGAACTGAATGCTTGGGGCCAAATCATGCAGTCCACTTTAACTCTCAACGGTACTACTTATTGGGCGAGCACAGAAGCTAGTCCATGCACATTCAACTTGACTAATCCGGAAGCCCTGTGCATAGAGGAGAAGCCCTCTGAATGCAGGAATGGCTCGGAAGGACTTGTACCAGTAAGAGGCTATTTTGATGGAAACGAAATTTTACATCATGACAACAATACTAAAATGACTGTTAGTGATTGCCATGCTACTTGCTGGAGTGACTGCACCTGTATTGCCTACAAAAGTATATATACCAATGGGACTGGGTGTGTATTTATGAGTGGAGAAGCGAAATTTATCCCGAATAGTTACTTTGATGCTACTTATGTCCTTGAGATATGGAATCATAGCAAAGGTATGCATAGCTACTACGTTTACCTACAGTACTTTACGTTTGTCATTCTTCCTTGCTACACTGATTTAGCCCTATGCTTTTTTGAATTACTTTTACACCATAGACATGTACTTAACTAA

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

B_lectin DUF3403 PAN_2 Pkinase Pkinase_Tyr S_locus_glycop

Protein Analysis

489

Amino Acids

55.84

Weight (kDa)

5.28

Isoelectric Point (pI)

42.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
S_locus_glycop	PF00954	51 - 146	5.6e-09	S-locus glycoprotein domain
PAN_2	PF08276	145 - 206	3.8e-06	PAN-like domain
S_locus_glycop	PF00954	269 - 367	9e-09	S-locus glycoprotein domain
PAN_2	PF08276	391 - 427	2.9e-06	PAN-like domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001889)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18470
fragaria_vesca	FvH4_1g04840 FvH4_4g02170
malus_domestica	MD02G1047300.v1.1 MD02G1047500.v1.1 MD02G1047600.v1.1 MD15G1186100.v1.1
prunus_persica	Prupe.7G230600_v2.0.a1 Prupe.7G230700_v2.0.a1
pyrus_communis	pycom02g03950 pycom02g03960 pycom02g03970 pycom02g03980 pycom15g16680
rosa_chinensis	RchiOBHm_Chr2g0090491 RchiOBHm_Chr4g0389481 RchiOBHm_Chr4g0389511
rosa_laevigata	RLG00000009978 RLG00000009979 RLG00000016118
rosa_multiflora	Rmu_co8294841.1_g000001 Rmu_co8421003.1_g000001 Rmu_sc0002498.1_g000012 Rmu_sc0002498.1_g000014 Rmu_sc0004514.1_g000025 Rmu_sc0015016.1_g000001 Rmu_sc0016342.1_g000001 Rmu_sc0023528.1_g000001
rosa_roxburghii	Rroxscaffold_2G00151090 Rroxscaffold_5G00335480
rosa_rugosa	Rorug02G0008500 Rorug03G0323400 Rorug03G0323500 Rorug03G0323600
rosa_samantha	Rh2AG053900 Rh2BG053400 Rh2CG055500 Rh2DG054100 Rh4AG027900 Rh4AG028000 Rh4BG021100 Rh4CG029900 Rh4DG021500
rosa_wichuraiana	Rw2G004310 Rw4G002030 Rw4G002070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	4 cut(s)	147, 284, 801, 938
AccIII	TCCGGA	1 cut(s)	1060
AciI	CCGC	1 cut(s)	705
AclWI	GGATC	2 cut(s)	95, 749
AcsI	RAATTY	4 cut(s)	489, 626, 1152, 1289
AfaI	GTAC	9 cut(s)	257, 346, 459, 718, 911, 1006, 1122, 1382, 1461
AfiI	CCNNNNNNNGG	4 cut(s)	77, 467, 948, 1130
AflIII	ACRYGT	1 cut(s)	1456
AgsI	TTSAA	9 cut(s)	185, 240, 294, 385, 839, 894, 948, 1048, 1436
AjnI	CCWGG	3 cut(s)	50, 103, 757
AluBI	AGCT	4 cut(s)	368, 745, 1031, 1362
AluI	AGCT	4 cut(s)	368, 745, 1031, 1362
Alw21I	GWGCWC	2 cut(s)	362, 1025
AlwI	GGATC	2 cut(s)	95, 749
Aor13HI	TCCGGA	1 cut(s)	1060
AoxI	GGCC	2 cut(s)	316, 970
ApoI	RAATTY	4 cut(s)	489, 626, 1152, 1289
AspLEI	GCGC	1 cut(s)	560
AspS9I	GGNCC	2 cut(s)	316, 970
AsuC2I	CCSGG	1 cut(s)	399
BanII	GRGCYC	1 cut(s)	406
BarI	GAAGNNNNNNTAC	2 cut(s)	1104, 1136
Bbv12I	GWGCWC	2 cut(s)	362, 1025
BccI	CCATC	2 cut(s)	473, 1136
BciT130I	CCWGG	3 cut(s)	52, 105, 759
BclI	TGATCA	2 cut(s)	123, 777
BcnI	CCSGG	1 cut(s)	399
BfaI	CTAG	2 cut(s)	369, 1032
BfmI	CTRYAG	1 cut(s)	1376
BmcAI	AGTACT	3 cut(s)	257, 911, 1382
Bme1390I	CCNGG	4 cut(s)	52, 105, 399, 759
BmgT120I	GGNCC	2 cut(s)	316, 970
BmiI	GGNNCC	5 cut(s)	178, 317, 403, 832, 971
BmrFI	CCNGG	4 cut(s)	52, 105, 399, 759
BmrI	ACTGGG	2 cut(s)	606, 1269
BmsI	GCATC	2 cut(s)	640, 1303
BmuI	ACTGGG	2 cut(s)	606, 1269
BplI	GAGNNNNNCTC	4 cut(s)	410, 442, 1073, 1105
BpmI	CTGGAG	5 cut(s)	151, 172, 568, 826, 1231
BpuEI	CTTGAG	1 cut(s)	1349
BpuMI	CCSGG	1 cut(s)	399
BsaWI	WCCGGW	1 cut(s)	1060
Bsc4I	CCNNNNNNNGG	4 cut(s)	77, 467, 948, 1130
Bse1I	ACTGG	6 cut(s)	155, 461, 601, 809, 1124, 1264
BseAI	TCCGGA	1 cut(s)	1060
BseBI	CCWGG	3 cut(s)	52, 105, 759
BseLI	CCNNNNNNNGG	4 cut(s)	77, 467, 948, 1130
BseNI	ACTGG	6 cut(s)	155, 461, 601, 809, 1124, 1264
BseRI	GAGGAG	2 cut(s)	431, 1094
BsgI	GTGCAG	1 cut(s)	1204
BshFI	GGCC	2 cut(s)	318, 972
BsiHKAI	GWGCWC	2 cut(s)	362, 1025
BsiSI	CCGG	2 cut(s)	398, 1061
BslFI	GGGAC	2 cut(s)	607, 1270
BslI	CCNNNNNNNGG	4 cut(s)	77, 467, 948, 1130
BsmFI	GGGAC	2 cut(s)	607, 1270
BsmI	GAATGC	5 cut(s)	313, 437, 700, 967, 1100
BsnI	GGCC	2 cut(s)	318, 972
Bsp1286I	GDGCHC	3 cut(s)	362, 406, 1025
Bsp13I	TCCGGA	1 cut(s)	1060
Bsp143I	GATC	7 cut(s)	61, 100, 123, 214, 754, 777, 868
BspACI	CCGC	1 cut(s)	705
BspANI	GGCC	2 cut(s)	318, 972
BspEI	TCCGGA	1 cut(s)	1060
BspHI	TCATGA	3 cut(s)	499, 726, 1162
BspLI	GGNNCC	5 cut(s)	178, 317, 403, 832, 971
BspPI	GGATC	2 cut(s)	95, 749
BsrI	ACTGG	6 cut(s)	155, 461, 601, 809, 1124, 1264
BssMI	GATC	7 cut(s)	61, 100, 123, 214, 754, 777, 868
BssNAI	GTATAC	2 cut(s)	148, 802
Bst1107I	GTATAC	2 cut(s)	148, 802
Bst2UI	CCWGG	3 cut(s)	52, 105, 759
Bst4CI	ACNGT	7 cut(s)	271, 289, 344, 925, 1004, 1186, 1380
BstC8I	GCNNGC	1 cut(s)	1021
BstENI	CCTNNNNNAGG	1 cut(s)	75
BstHHI	GCGC	1 cut(s)	560
BstKTI	GATC	7 cut(s)	64, 103, 126, 217, 757, 780, 871
BstMBI	GATC	7 cut(s)	61, 100, 123, 214, 754, 777, 868
BstMWI	GCNNNNNNNGC	2 cut(s)	441, 1104
BstNI	CCWGG	3 cut(s)	52, 105, 759
BstNSI	RCATGY	1 cut(s)	1460
BstSCI	CCNGG	4 cut(s)	50, 103, 397, 757
BstSFI	CTRYAG	1 cut(s)	1376
BstZ17I	GTATAC	2 cut(s)	148, 802
BsuRI	GGCC	2 cut(s)	318, 972
BtsI	GCAGTG	2 cut(s)	163, 817
BtsIMutI	CAGTG	3 cut(s)	163, 817, 1410
Cac8I	GCNNGC	1 cut(s)	1021
CciI	TCATGA	3 cut(s)	499, 726, 1162
CfoI	GCGC	1 cut(s)	560
Cfr13I	GGNCC	2 cut(s)	316, 970
Csp6I	GTAC	9 cut(s)	256, 345, 458, 717, 910, 1005, 1121, 1381, 1460
CviQI	GTAC	9 cut(s)	256, 345, 458, 717, 910, 1005, 1121, 1381, 1460
DpnI	GATC	7 cut(s)	63, 102, 125, 216, 756, 779, 870
DpnII	GATC	7 cut(s)	61, 100, 123, 214, 754, 777, 868
Eco24I	GRGCYC	1 cut(s)	406
EcoNI	CCTNNNNNAGG	1 cut(s)	75
EcoRII	CCWGG	3 cut(s)	50, 103, 757
EcoT22I	ATGCAT	1 cut(s)	1359
EcoT38I	GRGCYC	1 cut(s)	406
FaqI	GGGAC	2 cut(s)	607, 1270
FauNDI	CATATG	1 cut(s)	671
FbaI	TGATCA	2 cut(s)	123, 777
FblI	GTMKAC	4 cut(s)	147, 284, 801, 938
FriOI	GRGCYC	1 cut(s)	406
FspBI	CTAG	2 cut(s)	369, 1032
GlaI	GCGC	1 cut(s)	559
GsuI	CTGGAG	5 cut(s)	151, 172, 568, 826, 1231
HaeIII	GGCC	2 cut(s)	318, 972
HapII	CCGG	2 cut(s)	398, 1061
HhaI	GCGC	1 cut(s)	560
Hin6I	GCGC	1 cut(s)	558
HinP1I	GCGC	1 cut(s)	558
HindIII	AAGCTT	1 cut(s)	743
HinfI	GANTC	3 cut(s)	676, 695, 1339
HpaII	CCGG	2 cut(s)	398, 1061
Hpy166II	GTNNAC	8 cut(s)	148, 228, 285, 802, 882, 939, 987, 1372
Hpy188I	TCNGA	4 cut(s)	430, 448, 1093, 1111
Hpy8I	GTNNAC	8 cut(s)	148, 228, 285, 802, 882, 939, 987, 1372
HpyAV	CCTTC	4 cut(s)	201, 742, 855, 1106
HpyCH4III	ACNGT	7 cut(s)	271, 289, 344, 925, 1004, 1186, 1380
HpyCH4IV	ACGT	2 cut(s)	1368, 1388
HpyF10VI	GCNNNNNNNGC	2 cut(s)	441, 1104
HpySE526I	ACGT	2 cut(s)	1368, 1388
HspAI	GCGC	1 cut(s)	558
Kpn2I	TCCGGA	1 cut(s)	1060
Ksp22I	TGATCA	2 cut(s)	123, 777
Kzo9I	GATC	7 cut(s)	61, 100, 123, 214, 754, 777, 868
LmnI	GCTCC	5 cut(s)	153, 196, 401, 807, 850
LweI	GCATC	2 cut(s)	640, 1303
MaeI	CTAG	2 cut(s)	369, 1032
MaeII	ACGT	2 cut(s)	1368, 1388
MaeIII	GTNAC	4 cut(s)	551, 641, 1214, 1304
MalI	GATC	7 cut(s)	63, 102, 125, 216, 756, 779, 870
MboI	GATC	7 cut(s)	61, 100, 123, 214, 754, 777, 868
MboII	GAAGA	4 cut(s)	39, 260, 914, 1391
MfeI	CAATTG	2 cut(s)	119, 773
MhlI	GDGCHC	3 cut(s)	362, 406, 1025
MluCI	AATT	9 cut(s)	5, 34, 119, 489, 626, 773, 1152, 1289, 1436
MlyI	GAGTC	1 cut(s)	704
MnlI	CCTC	9 cut(s)	16, 126, 409, 436, 461, 780, 1072, 1099, 1124
Mph1103I	ATGCAT	1 cut(s)	1359
MroI	TCCGGA	1 cut(s)	1060
MseI	TTAA	5 cut(s)	273, 666, 927, 992, 1464
MslI	CAYNNNNRTG	1 cut(s)	1455
MspI	CCGG	2 cut(s)	398, 1061
MspR9I	CCNGG	4 cut(s)	52, 105, 399, 759
MunI	CAATTG	2 cut(s)	119, 773
Mva1269I	GAATGC	5 cut(s)	313, 437, 700, 967, 1100
MvaI	CCWGG	3 cut(s)	52, 105, 759
MwoI	GCNNNNNNNGC	2 cut(s)	441, 1104
NciI	CCSGG	1 cut(s)	399
NdeI	CATATG	1 cut(s)	671
NdeII	GATC	7 cut(s)	61, 100, 123, 214, 754, 777, 868
NlaIV	GGNNCC	5 cut(s)	178, 317, 403, 832, 971
NmuCI	GTSAC	2 cut(s)	551, 1214
NsiI	ATGCAT	1 cut(s)	1359
NspI	RCATGY	1 cut(s)	1460
PagI	TCATGA	3 cut(s)	499, 726, 1162
PciI	ACATGT	1 cut(s)	1456
PctI	GAATGC	5 cut(s)	313, 437, 700, 967, 1100
PfeI	GAWTC	2 cut(s)	676, 1339
PfoI	TCCNGGA	1 cut(s)	397
PleI	GAGTC	1 cut(s)	703
PpsI	GAGTC	1 cut(s)	703
PscI	ACATGT	1 cut(s)	1456
Psp6I	CCWGG	3 cut(s)	50, 103, 757
PspGI	CCWGG	3 cut(s)	50, 103, 757
PspN4I	GGNNCC	5 cut(s)	178, 317, 403, 832, 971
PspPI	GGNCC	2 cut(s)	316, 970
RsaI	GTAC	9 cut(s)	257, 346, 459, 718, 911, 1006, 1122, 1382, 1461
RsaNI	GTAC	9 cut(s)	256, 345, 458, 717, 910, 1005, 1121, 1381, 1460
RseI	CAYNNNNRTG	1 cut(s)	1455
SaqAI	TTAA	5 cut(s)	273, 666, 927, 992, 1464
Sau3AI	GATC	7 cut(s)	61, 100, 123, 214, 754, 777, 868
Sau96I	GGNCC	2 cut(s)	316, 970
ScaI	AGTACT	3 cut(s)	257, 911, 1382
SchI	GAGTC	1 cut(s)	704
ScrFI	CCNGG	4 cut(s)	52, 105, 399, 759
SduI	GDGCHC	3 cut(s)	362, 406, 1025
SfaNI	GCATC	2 cut(s)	640, 1303
SfcI	CTRYAG	1 cut(s)	1376
SmiMI	CAYNNNNRTG	1 cut(s)	1455
SmlI	CTYRAG	1 cut(s)	1328
SmoI	CTYRAG	1 cut(s)	1328
Sse9I	AATT	9 cut(s)	5, 34, 119, 489, 626, 773, 1152, 1289, 1436
SsiI	CCGC	1 cut(s)	705
SspMI	CTAG	2 cut(s)	369, 1032
StyD4I	CCNGG	4 cut(s)	50, 103, 397, 757
TaaI	ACNGT	7 cut(s)	271, 289, 344, 925, 1004, 1186, 1380
TaiI	ACGT	2 cut(s)	1371, 1391
TaqI	TCGA	1 cut(s)	21
TasI	AATT	9 cut(s)	5, 34, 119, 489, 626, 773, 1152, 1289, 1436
TatI	WGTACW	5 cut(s)	255, 716, 909, 1380, 1459
TfiI	GAWTC	2 cut(s)	676, 1339
Tru1I	TTAA	5 cut(s)	273, 666, 927, 992, 1464
Tru9I	TTAA	5 cut(s)	273, 666, 927, 992, 1464
TscAI	CASTG	3 cut(s)	163, 817, 1417
TseFI	GTSAC	2 cut(s)	551, 1214
Tsp45I	GTSAC	2 cut(s)	551, 1214
TspDTI	ATGAA	3 cut(s)	17, 156, 810
TspGWI	ACGGA	1 cut(s)	465
TspRI	CASTG	3 cut(s)	163, 817, 1417
XagI	CCTNNNNNAGG	1 cut(s)	75
XapI	RAATTY	4 cut(s)	489, 626, 1152, 1289
XceI	RCATGY	1 cut(s)	1460
XmiI	GTMKAC	4 cut(s)	147, 284, 801, 938
XspI	CTAG	2 cut(s)	369, 1032
ZrmI	AGTACT	3 cut(s)	257, 911, 1382
Zsp2I	ATGCAT	1 cut(s)	1359

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