Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0011399

Physical Location & Seq

Genomic Coordinates Forward (+)

64084403 .. 64086901

Gene Structure 2499 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG469700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1320 bp

ATGGCTTCCCTCAGCGAAGAAACCGCGAAGAAAGTTCTTCGACAGGTTGAGTTCTACTTCAGCGATAGCAATCTTCCTAGAGACGATTTTCTGAAGAAATCGATAAGCGAAAGCGAGGATGGGATGATTAGCTTGGCTTTGATATGCTCGTTTAGTCGGATGAGAGGTCATCTCAGTTTGGGGGATTTGAAGGCCGACGCTATCCCTGAAGATAGCGTTAAAGCTGTTGCTGAAACTCTTAGAAAATCTACCACTCTCAAGATTTCCGAAGACGGGCAAAAGGTTGGTAGGGCTACAGAAATCTTGAAGCCGGAGGAGGTTATTGAGCAAGTAGACATTAGAACAGTAGCTGCTGCACCGCTTGAGTTTGATGTGAAGCTTGAGGATGTTGAAACCTTTTTCGGACAATTTGGCAAGGTTAACAGCGTGAGGCTGCCTCGTCATATTGCAGATAAAAAGTTGTTCTGTGGGACTGCTTTGGTTGAGTTTTCAACAGAGGAAGACGCCAATAAGATTCTGAAGGAAACTTTGAATTATGGAGGTGTTCAGTTAGAACTAAAACCAAAGAAGGAATTTGACACTGAGAGAGCAAAAGAGACGGAGGAATATGAGAAGACTCGACCCCTCACAAATTCAAATCGCAAGAATAATGCAAAACCAGAGGCAGACTACCCAAAAGGCTTGATTGTTGCATTTAAGCTAAAGAGCTCATCAGATAAAGATTCTGCTGAGCATAACGGTACTCCTGAAGAAACAAAAAAGGTGGCAGGAGATGTTAACACGGAGGATGCTGAGAAGGATAATAAGGAAAATGTTGATGAGAAAAATAGTTTGGATGGCGAAGAAAAGAAAACTGAAGATGGGGAAAAGCCTTCTGAAGAAGGAAAGGGTGGAGAGAAGGAAGAAAGACTTAATGCTGTAGAAACTTACAAAGATAACATGGACGTTGTTATGCGTGAGGATTTGAAGACCCTCTTCGGAAAATTTGGCACCGTAAAGTACATTGACTTCAAGATTGGAGAAGAATCAGGATTCGTTCGGTTTGAAGAACCTGAAGCAGCTCACAAAGCACGTGCCGCTGCAGTCCTTACCGAGCTAGGAGGTCTTGTTGTGAAAAATTTCATTGCAACTTTGGAACCAGTTAGTGGCGAGGCCGAGAAGGAGTACTGGAAGAATTTTCGTGGTAGTCAAGAAAAATTCCGCGAAAGCAAGGGCAGCCATCGTGGAAGGGGAGGCAAACACCATAGGGGTGGTTACAAACATGGCCGTTCAAGGGATGATAATGATGGAGGTCGCCCAAACAAACACCGGAAGTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000049 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0030312 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071944 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko05322 map05322

Pfam Domains

Protein Families

La RRM_1 RRM_3

Protein Analysis

439

Amino Acids

49.24

Weight (kDa)

5.67

Isoelectric Point (pI)

34.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
La	PF05383	13 - 57	9.8e-19	La domain
RRM_1	PF00076	121 - 175	2.2e-09	RNA recognition motif
RRM_3	PF08777	317 - 409	7.9e-21	RNA binding motif
RRM_1	PF00076	319 - 368	7.4e-07	RNA recognition motif

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: OG0011399)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G32720 AT4G32720
fragaria_vesca	FvH4_2g36050 FvH4_2g36050
malus_domestica	MD08G1117800.v1.1 MD15G1097300.v1.1
prunus_persica	Prupe.1G452100_v2.0.a1
pyrus_communis	pycom08g09840 pycom15g08920
rosa_chinensis	RchiOBHm_Chr6g0305801
rosa_laevigata	RLG00000010857
rosa_multiflora	Rmu_sc0001809.1_g000040 Rmu_sc0041759.1_g000001
rosa_roxburghii	Rroxscaffold_7G00162320
rosa_rugosa	Rorug06G0344000
rosa_samantha	Rh6AG455700 Rh6BG445400 Rh6CG469700 Rh6DG456400
rosa_wichuraiana	Rw6G039760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	989
AccB7I	CCANNNNNTGG	1 cut(s)	1145
AccI	GTMKAC	1 cut(s)	333
AccII	CGCG	2 cut(s)	26, 1203
AciI	CCGC	4 cut(s)	24, 359, 1077, 1201
AcoI	YGGCCR	1 cut(s)	1264
AcsI	RAATTY	6 cut(s)	572, 631, 983, 1117, 1174, 1196
AcuI	CTGAAG	8 cut(s)	43, 113, 228, 539, 768, 876, 897, 1074
AcvI	CACGTG	1 cut(s)	1073
AcyI	GRCGYC	1 cut(s)	504
AfaI	GTAC	3 cut(s)	742, 1001, 1166
AfiI	CCNNNNNNNGG	3 cut(s)	273, 1145, 1273
AjuI	GAANNNNNNNTTGG	2 cut(s)	815, 847
AluBI	AGCT	8 cut(s)	132, 224, 350, 379, 700, 708, 1061, 1096
AluI	AGCT	8 cut(s)	132, 224, 350, 379, 700, 708, 1061, 1096
Alw21I	GWGCWC	1 cut(s)	710
Alw26I	GTCTC	2 cut(s)	75, 590
AlwNI	CAGNNNCTG	1 cut(s)	350
AoxI	GGCC	3 cut(s)	192, 1152, 1264
ApeKI	GCWGC	6 cut(s)	350, 353, 433, 1058, 1079, 1215
ApoI	RAATTY	6 cut(s)	572, 631, 983, 1117, 1174, 1196
Asp700I	GAANNNNTTC	1 cut(s)	1118
BanI	GGYRCC	1 cut(s)	989
BanII	GRGCYC	1 cut(s)	710
BarI	GAAGNNNNNNTAC	2 cut(s)	992, 1024
BbrPI	CACGTG	1 cut(s)	1073
BbsI	GAAGAC	4 cut(s)	276, 507, 620, 974
Bbv12I	GWGCWC	1 cut(s)	710
BbvCI	CCTCAGC	1 cut(s)	11
BbvI	GCAGC	6 cut(s)	337, 340, 420, 1066, 1070, 1227
BccI	CCATC	5 cut(s)	113, 830, 854, 1227, 1280
BceAI	ACGGC	1 cut(s)	1251
BcoDI	GTCTC	2 cut(s)	75, 590
BfaI	CTAG	2 cut(s)	78, 1097
BfmI	CTRYAG	3 cut(s)	294, 918, 1080
BisI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1216
BlpI	GCTNAGC	1 cut(s)	729
BlsI	GCNGC	7 cut(s)	352, 355, 435, 1060, 1078, 1081, 1217
BmcAI	AGTACT	1 cut(s)	1166
BmiI	GGNNCC	2 cut(s)	991, 1137
BmsI	GCATC	1 cut(s)	778
BpiI	GAAGAC	4 cut(s)	276, 507, 620, 974
BplI	GAGNNNNNCTC	4 cut(s)	156, 188, 421, 453
Bpu10I	CCTNAGC	1 cut(s)	11
Bpu1102I	GCTNAGC	1 cut(s)	729
BpuEI	CTTGAG	3 cut(s)	242, 383, 401
Bsa29I	ATCGAT	1 cut(s)	101
BsaAI	YACGTR	1 cut(s)	1073
BsaBI	GATNNNNATC	1 cut(s)	69
BsaHI	GRCGYC	1 cut(s)	504
BsaWI	WCCGGW	1 cut(s)	1308
BsaXI	ACNNNNNCTCC	2 cut(s)	1092, 1122
Bsc4I	CCNNNNNNNGG	3 cut(s)	273, 1145, 1273
Bse1I	ACTGG	2 cut(s)	1139, 1172
Bse3DI	GCAATG	1 cut(s)	1122
Bse8I	GATNNNNATC	1 cut(s)	69
BseCI	ATCGAT	1 cut(s)	101
BseGI	GGATG	7 cut(s)	124, 129, 165, 391, 793, 841, 1282
BseJI	GATNNNNATC	1 cut(s)	69
BseLI	CCNNNNNNNGG	3 cut(s)	273, 1145, 1273
BseMI	GCAATG	1 cut(s)	1122
BseMII	CTCAG	5 cut(s)	25, 187, 573, 720, 783
BseNI	ACTGG	2 cut(s)	1139, 1172
BseRI	GAGGAG	1 cut(s)	329
BseXI	GCAGC	6 cut(s)	337, 340, 420, 1066, 1070, 1227
BsgI	GTGCAG	1 cut(s)	339
Bsh1236I	CGCG	2 cut(s)	26, 1203
BshFI	GGCC	3 cut(s)	194, 1154, 1266
BshNI	GGYRCC	1 cut(s)	989
BshVI	ATCGAT	1 cut(s)	101
BsiHKAI	GWGCWC	1 cut(s)	710
BsiSI	CCGG	2 cut(s)	311, 1309
BslFI	GGGAC	1 cut(s)	484
BslI	CCNNNNNNNGG	3 cut(s)	273, 1145, 1273
BsmAI	GTCTC	2 cut(s)	75, 590
BsmBI	CGTCTC	2 cut(s)	75, 590
BsmFI	GGGAC	1 cut(s)	484
BsnI	GGCC	3 cut(s)	194, 1154, 1266
Bsp1286I	GDGCHC	1 cut(s)	710
Bsp1720I	GCTNAGC	1 cut(s)	729
BspACI	CCGC	4 cut(s)	24, 359, 1077, 1201
BspANI	GGCC	3 cut(s)	194, 1154, 1266
BspCNI	CTCAG	5 cut(s)	24, 186, 574, 721, 784
BspDI	ATCGAT	1 cut(s)	101
BspFNI	CGCG	2 cut(s)	26, 1203
BspLI	GGNNCC	2 cut(s)	991, 1137
BspMAI	CTGCAG	1 cut(s)	1084
BspT107I	GGYRCC	1 cut(s)	989
BsrDI	GCAATG	1 cut(s)	1122
BsrI	ACTGG	2 cut(s)	1139, 1172
BssNI	GRCGYC	1 cut(s)	504
Bst4CI	ACNGT	3 cut(s)	346, 740, 994
Bst6I	CTCTTC	1 cut(s)	980
BstACI	GRCGYC	1 cut(s)	504
BstBAI	YACGTR	1 cut(s)	1073
BstDEI	CTNAG	6 cut(s)	11, 173, 239, 582, 729, 792
BstF5I	GGATG	7 cut(s)	124, 129, 165, 391, 793, 841, 1282
BstFNI	CGCG	2 cut(s)	26, 1203
BstMAI	GTCTC	2 cut(s)	75, 590
BstMWI	GCNNNNNNNGC	3 cut(s)	1067, 1076, 1215
BstSFI	CTRYAG	3 cut(s)	294, 918, 1080
BstUI	CGCG	2 cut(s)	26, 1203
BstV1I	GCAGC	6 cut(s)	337, 340, 420, 1066, 1070, 1227
BstV2I	GAAGAC	4 cut(s)	276, 507, 620, 974
BstXI	CCANNNNNNTGG	1 cut(s)	1250
Bsu15I	ATCGAT	1 cut(s)	101
BsuRI	GGCC	3 cut(s)	194, 1154, 1266
BsuTUI	ATCGAT	1 cut(s)	101
BtsCI	GGATG	7 cut(s)	124, 129, 165, 391, 793, 841, 1282
BtsIMutI	CAGTG	1 cut(s)	579
CaiI	CAGNNNCTG	1 cut(s)	350
ClaI	ATCGAT	1 cut(s)	101
CseI	GACGC	2 cut(s)	206, 512
Csp6I	GTAC	3 cut(s)	741, 1000, 1165
CspCI	CAANNNNNGTGG	2 cut(s)	744, 779
CviAII	CATG	2 cut(s)	940, 1262
CviQI	GTAC	3 cut(s)	741, 1000, 1165
DdeI	CTNAG	6 cut(s)	11, 173, 239, 582, 729, 792
EaeI	YGGCCR	1 cut(s)	1264
Eam1104I	CTCTTC	1 cut(s)	980
EarI	CTCTTC	1 cut(s)	980
Ecl136II	GAGCTC	1 cut(s)	708
Eco24I	GRGCYC	1 cut(s)	710
Eco53kI	GAGCTC	1 cut(s)	708
Eco57I	CTGAAG	8 cut(s)	43, 113, 228, 539, 768, 876, 897, 1074
Eco72I	CACGTG	1 cut(s)	1073
EcoICRI	GAGCTC	1 cut(s)	708
EcoT38I	GRGCYC	1 cut(s)	710
Esp3I	CGTCTC	2 cut(s)	75, 590
FaeI	CATG	2 cut(s)	943, 1265
FaiI	YATR	9 cut(s)	145, 444, 537, 609, 735, 941, 953, 1245, 1263
FalI	AAGNNNNNCTT	4 cut(s)	894, 926, 959, 991
FaqI	GGGAC	1 cut(s)	484
FatI	CATG	2 cut(s)	939, 1261
FblI	GTMKAC	1 cut(s)	333
Fnu4HI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1216
FokI	GGATG	7 cut(s)	131, 136, 172, 398, 800, 848, 1289
FriOI	GRGCYC	1 cut(s)	710
Fsp4HI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1216
FspBI	CTAG	2 cut(s)	78, 1097
GluI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1216
HaeIII	GGCC	3 cut(s)	194, 1154, 1266
HapII	CCGG	2 cut(s)	311, 1309
HgaI	GACGC	2 cut(s)	206, 512
Hin1I	GRCGYC	1 cut(s)	504
Hin1II	CATG	2 cut(s)	943, 1265
HincII	GTYRAC	2 cut(s)	421, 778
HindII	GTYRAC	2 cut(s)	421, 778
HindIII	AAGCTT	1 cut(s)	377
HinfI	GANTC	5 cut(s)	514, 616, 722, 1025, 1032
HpaI	GTTAAC	2 cut(s)	421, 778
HpaII	CCGG	2 cut(s)	311, 1309
Hpy166II	GTNNAC	3 cut(s)	334, 421, 778
Hpy188I	TCNGA	8 cut(s)	93, 159, 268, 404, 519, 715, 877, 980
Hpy188III	TCNNGA	6 cut(s)	259, 304, 746, 1012, 1029, 1190
Hpy8I	GTNNAC	3 cut(s)	334, 421, 778
Hpy99I	CGWCG	1 cut(s)	200
HpyAV	CCTTC	9 cut(s)	184, 514, 562, 790, 875, 882, 892, 1153, 1221
HpyCH4III	ACNGT	3 cut(s)	346, 740, 994
HpyCH4IV	ACGT	2 cut(s)	945, 1072
HpyCH4V	TGCA	6 cut(s)	356, 449, 653, 692, 1082, 1127
HpyF10VI	GCNNNNNNNGC	3 cut(s)	1067, 1076, 1215
HpyF3I	CTNAG	6 cut(s)	11, 173, 239, 582, 729, 792
HpySE526I	ACGT	2 cut(s)	945, 1072
Hsp92I	GRCGYC	1 cut(s)	504
Hsp92II	CATG	2 cut(s)	943, 1265
KspAI	GTTAAC	2 cut(s)	421, 778
Lsp1109I	GCAGC	6 cut(s)	337, 340, 420, 1066, 1070, 1227
LweI	GCATC	1 cut(s)	778
MaeI	CTAG	2 cut(s)	78, 1097
MaeII	ACGT	2 cut(s)	945, 1072
MaeIII	GTNAC	1 cut(s)	1253
MhlI	GDGCHC	1 cut(s)	710
MluCI	AATT	8 cut(s)	407, 532, 572, 631, 983, 1117, 1174, 1196
MlyI	GAGTC	1 cut(s)	610
MmeI	TCCRAC	1 cut(s)	137
MroXI	GAANNNNTTC	1 cut(s)	1118
MseI	TTAA	5 cut(s)	219, 420, 696, 777, 912
MslI	CAYNNNNRTG	1 cut(s)	1248
MspA1I	CMGCKG	1 cut(s)	1079
MspI	CCGG	2 cut(s)	311, 1309
MvnI	CGCG	2 cut(s)	26, 1203
MwoI	GCNNNNNNNGC	3 cut(s)	1067, 1076, 1215
NlaIII	CATG	2 cut(s)	943, 1265
NlaIV	GGNNCC	2 cut(s)	991, 1137
NmeAIII	GCCGAG	1 cut(s)	1180
PdmI	GAANNNNTTC	1 cut(s)	1118
PfeI	GAWTC	4 cut(s)	514, 722, 1025, 1032
PflMI	CCANNNNNTGG	1 cut(s)	1145
PkrI	GCNGC	7 cut(s)	352, 355, 435, 1060, 1078, 1081, 1217
PleI	GAGTC	1 cut(s)	610
PmaCI	CACGTG	1 cut(s)	1073
PmlI	CACGTG	1 cut(s)	1073
PpsI	GAGTC	1 cut(s)	610
Ppu21I	YACGTR	1 cut(s)	1073
Psp124BI	GAGCTC	1 cut(s)	710
PspCI	CACGTG	1 cut(s)	1073
PspN4I	GGNNCC	2 cut(s)	991, 1137
PstI	CTGCAG	1 cut(s)	1084
PstNI	CAGNNNCTG	1 cut(s)	350
RsaI	GTAC	3 cut(s)	742, 1001, 1166
RsaNI	GTAC	3 cut(s)	741, 1000, 1165
RseI	CAYNNNNRTG	1 cut(s)	1248
SacI	GAGCTC	1 cut(s)	710
SaqAI	TTAA	5 cut(s)	219, 420, 696, 777, 912
SatI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1216
ScaI	AGTACT	1 cut(s)	1166
SchI	GAGTC	1 cut(s)	610
SduI	GDGCHC	1 cut(s)	710
SfaNI	GCATC	1 cut(s)	778
SfcI	CTRYAG	3 cut(s)	294, 918, 1080
SmiMI	CAYNNNNRTG	1 cut(s)	1248
SmlI	CTYRAG	3 cut(s)	257, 362, 380
SmoI	CTYRAG	3 cut(s)	257, 362, 380
Sse9I	AATT	8 cut(s)	407, 532, 572, 631, 983, 1117, 1174, 1196
SsiI	CCGC	4 cut(s)	24, 359, 1077, 1201
SspMI	CTAG	2 cut(s)	78, 1097
SstI	GAGCTC	1 cut(s)	710
TaaI	ACNGT	3 cut(s)	346, 740, 994
TaiI	ACGT	2 cut(s)	948, 1075
TaqI	TCGA	3 cut(s)	40, 101, 619
TasI	AATT	8 cut(s)	407, 532, 572, 631, 983, 1117, 1174, 1196
TatI	WGTACW	2 cut(s)	999, 1164
TauI	GCSGC	1 cut(s)	1079
TfiI	GAWTC	4 cut(s)	514, 722, 1025, 1032
Tru1I	TTAA	5 cut(s)	219, 420, 696, 777, 912
Tru9I	TTAA	5 cut(s)	219, 420, 696, 777, 912
TscAI	CASTG	1 cut(s)	586
TseI	GCWGC	6 cut(s)	350, 353, 433, 1058, 1079, 1215
TspDTI	ATGAA	1 cut(s)	1111
TspGWI	ACGGA	2 cut(s)	614, 797
TspRI	CASTG	1 cut(s)	586
Van91I	CCANNNNNTGG	1 cut(s)	1145
XapI	RAATTY	6 cut(s)	572, 631, 983, 1117, 1174, 1196
XmiI	GTMKAC	1 cut(s)	333
XmnI	GAANNNNTTC	1 cut(s)	1118
XspI	CTAG	2 cut(s)	78, 1097
ZrmI	AGTACT	1 cut(s)	1166

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