Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0001558

Physical Location & Seq

Genomic Coordinates Forward (+)

8509980 .. 8536395

Gene Structure 26416 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG075300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1224 bp

ATGGTCATATCTGTGGTGTGGTTGAAGGTTGAATTATGCAAGCTGCTGGTGGATAAAAGATCTGCTGAACTCAAGCCAAATGACTTCCATGATATTCCCAAATACTTTCTTGAGGCAATTCCACATGTTGTAGCTATGGTTAGAGCTGCTGACAAGAAAAGCCCAAGAGAGGCTGTTGAGTTTGTCCTACAACTGTTGAAGACCTCTGTCTCACCTGTCAAAGGCCGCCGATCGAGATCATTGTCGAGGTCTAGAAGGAGTCGTTCTAGGAGCCCATCTGTGGATGCAACCAATCCTGGAAACAACTTGTATGTAACAGGCTTATCCACAAGGGTTACCTCTGCTGATGTTGAGAAATTCTTTAACAAAGAAGGCAAGGTGTTGGAGTGCCATCTTGTAACTGACCCTCGCTCCAGAGAATCTCGTGGATTTGCATTTGTCACAATGGAAACTGTAGAGGATGCAGAGCGATGCATTAAGTACTTGAATCGTTCTGTGCTTGAAGGTCGACTAGTCACTGTGGAAAAGAAATTGGAGAAACTTCAGGAAGAGGATCTTGTTGAAAGGCCGTTCAAGAAGAAACAGATCAAGATCAGGTTTCCTGAATGGGGAAGAAGTGGGAGATTTGCTCCATTTGGAGGTAAGGTGTTGTTTAGCAGAGCAAGTCTCACAATTAAAAAAGGAGAGAAACTGGCCATTATTGGCCCAAATGGATGTGGCAAGAGTACTTTGCTGAAACTAATAATGGGTTTACAAAAGCCAATAGCAGGTGAAGTTCTGCTTGGGGAGCATAATGTCCTAACAAACTTTTTTGAGCAAAATCAGGTGTGTACTGCCATTACTATTTGCTACTTTGAAATAACTAATAGCATGGGGTTTCTTCTTAGTAAAAGAGGAACCGGATCTGATGATGTATTATTCAGAGTGCTCTTGCAATTGCTTTGTGTACCTTGTCCTGCAGAGAAACAGTTTGAAGAGGAAAGGGGATCATTTCAGGATTCAAAGGGCAATGTGCTTTTCTTTGTCTCAGATCTTTTCAATCCTGTACTCTTATTCCATCTATTTCTTGTAGAGTTAAGCTATGACCATCAGGTGCTTCTTGATTACCTTATTTCAAAAGATACTGGAATCAGTTGTGCAGAATATCTTTTAAGGTGCTTGCGTAAAGTGTGTGATTCATGGAGCTTATTTGTGGAATTTCCACCGAGATGCCCAATTGTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0006325 GO:0006464 GO:0006473 GO:0006475 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016569 GO:0016570 GO:0016573 GO:0018193 GO:0018205 GO:0018393 GO:0018394 GO:0019538 GO:0036211 GO:0043170 GO:0043412 GO:0043543 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0051276 GO:0071704 GO:0071840 GO:0097159 GO:1901363 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

407

Amino Acids

46.14

Weight (kDa)

9.16

Isoelectric Point (pI)

41.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	103 - 172	2.7e-16	RNA recognition motif
ABC_tran	PF00005	220 - 268	2.5e-14	ABC transporter
LINES_N	PF14694	340 - 399	4.5e-09	Lines N-terminus

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: OG0001558)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G35785 AT4G35785 AT4G35785 AT4G35785 AT4G35785 AT4G35785
fragaria_vesca	FvH4_1g10991 FvH4_1g10991 FvH4_5g02820
malus_domestica	MD02G1123000.v1.1 MD06G1087700.v1.1 MD15G1237000.v1.1
prunus_persica	Prupe.5G103800_v2.0.a1 Prupe.5G103800_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1 Prupe.7G175500_v2.0.a1
pyrus_communis	pycom02g09590 pycom06g08380 pycom15g21080
rosa_chinensis	RchiOBHm_Chr2g0098261 RchiOBHm_Chr4g0436561 RchiOBHm_Chr5g0052501 RchiOBHm_Chr6g0253581 RchiOBHm_Chr7g0197131
rosa_laevigata	RLG00000016780
rosa_multiflora	Rmu_sc0000441.1_g000019 Rmu_sc0002754.1_g000021 Rmu_sc0009183.1_g000006 Rmu_ssc0000465.1_g000024
rosa_roxburghii	Rroxscaffold_2G00144110 Rroxscaffold_3G00258670
rosa_rugosa	Rorug02G0071700 Rorug07G0037800 Rorug07G0037900 Rorug07G0038000
rosa_samantha	Rh2AG118700 Rh2AG118800 Rh2DG123400 Rh3DG184500 Rh3DG353300 Rh6DG075300 Rh7AG162600 Rh7BG164600
rosa_wichuraiana	Rw0G023370 Rw1G013400 Rw4G028610 Rw5G028060 Rw7G014190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	758
Acc36I	ACCTGC	1 cut(s)	758
AccI	GTMKAC	1 cut(s)	508
AciI	CCGC	1 cut(s)	226
AclWI	GGATC	3 cut(s)	561, 910, 994
AcoI	YGGCCR	1 cut(s)	693
AcsI	RAATTY	2 cut(s)	356, 1196
AcuI	CTGAAG	1 cut(s)	527
AfaI	GTAC	5 cut(s)	482, 727, 832, 948, 1047
AfiI	CCNNNNNNNGG	6 cut(s)	169, 221, 280, 608, 638, 767
AflIII	ACRYGT	1 cut(s)	124
AhlI	ACTAGT	1 cut(s)	511
AjnI	CCWGG	1 cut(s)	295
AjuI	GAANNNNNNNTTGG	2 cut(s)	765, 797
AluBI	AGCT	5 cut(s)	43, 134, 146, 1080, 1185
AluI	AGCT	5 cut(s)	43, 134, 146, 1080, 1185
Alw21I	GWGCWC	1 cut(s)	930
Alw26I	GTCTC	3 cut(s)	214, 671, 1030
AlwI	GGATC	3 cut(s)	561, 910, 994
AoxI	GGCC	4 cut(s)	223, 566, 693, 703
ApeKI	GCWGC	2 cut(s)	43, 146
ApoI	RAATTY	2 cut(s)	356, 1196
AspS9I	GGNCC	1 cut(s)	704
AsuHPI	GGTGA	2 cut(s)	204, 782
BalI	TGGCCA	1 cut(s)	695
BanII	GRGCYC	1 cut(s)	275
BauI	CACGAG	1 cut(s)	423
BbsI	GAAGAC	1 cut(s)	206
Bbv12I	GWGCWC	1 cut(s)	930
BbvI	GCAGC	2 cut(s)	30, 133
BccI	CCATC	4 cut(s)	283, 399, 1065, 1095
BceAI	ACGGC	1 cut(s)	553
BciT130I	CCWGG	1 cut(s)	297
BcoDI	GTCTC	3 cut(s)	214, 671, 1030
BcuI	ACTAGT	1 cut(s)	511
BfaI	CTAG	3 cut(s)	252, 267, 512
BfmI	CTRYAG	2 cut(s)	453, 957
BfuAI	ACCTGC	1 cut(s)	758
BglII	AGATCT	2 cut(s)	59, 1030
BisI	GCNGC	3 cut(s)	44, 147, 226
BlsI	GCNGC	3 cut(s)	45, 148, 227
BmcAI	AGTACT	2 cut(s)	482, 727
Bme1390I	CCNGG	1 cut(s)	297
BmgT120I	GGNCC	1 cut(s)	704
BmiI	GGNNCC	2 cut(s)	272, 898
BmrFI	CCNGG	1 cut(s)	297
BmsI	GCATC	4 cut(s)	274, 451, 461, 1199
BoxI	GACNNNNGTC	1 cut(s)	206
BpiI	GAAGAC	1 cut(s)	206
BplI	GAGNNNNNCTC	4 cut(s)	613, 645, 651, 683
BpmI	CTGGAG	1 cut(s)	397
BpuEI	CTTGAG	2 cut(s)	56, 131
BsaBI	GATNNNNATC	2 cut(s)	235, 590
BsaWI	WCCGGW	1 cut(s)	899
BsaXI	ACNNNNNCTCC	4 cut(s)	395, 425, 630, 660
Bsc4I	CCNNNNNNNGG	6 cut(s)	169, 221, 280, 608, 638, 767
Bse1I	ACTGG	2 cut(s)	696, 1129
Bse3DI	GCAATG	1 cut(s)	1015
Bse8I	GATNNNNATC	2 cut(s)	235, 590
BseBI	CCWGG	1 cut(s)	297
BseGI	GGATG	3 cut(s)	289, 466, 719
BseJI	GATNNNNATC	2 cut(s)	235, 590
BseLI	CCNNNNNNNGG	6 cut(s)	169, 221, 280, 608, 638, 767
BseMI	GCAATG	1 cut(s)	1015
BseMII	CTCAG	1 cut(s)	1041
BseNI	ACTGG	2 cut(s)	696, 1129
BseXI	GCAGC	2 cut(s)	30, 133
BsgI	GTGCAG	1 cut(s)	1158
Bsh1285I	CGRYCG	1 cut(s)	233
BshFI	GGCC	4 cut(s)	225, 568, 695, 705
BsiEI	CGRYCG	1 cut(s)	233
BsiHKAI	GWGCWC	1 cut(s)	930
BsiSI	CCGG	1 cut(s)	900
BslI	CCNNNNNNNGG	6 cut(s)	169, 221, 280, 608, 638, 767
BsmAI	GTCTC	3 cut(s)	214, 671, 1030
BsnI	GGCC	4 cut(s)	225, 568, 695, 705
Bsp1286I	GDGCHC	2 cut(s)	275, 930
Bsp143I	GATC	9 cut(s)	59, 230, 236, 553, 585, 591, 902, 986, 1030
BspACI	CCGC	1 cut(s)	226
BspANI	GGCC	4 cut(s)	225, 568, 695, 705
BspCNI	CTCAG	1 cut(s)	1040
BspLI	GGNNCC	2 cut(s)	272, 898
BspMAI	CTGCAG	1 cut(s)	961
BspMI	ACCTGC	1 cut(s)	758
BspPI	GGATC	3 cut(s)	561, 910, 994
BsrDI	GCAATG	1 cut(s)	1015
BsrI	ACTGG	2 cut(s)	696, 1129
BssMI	GATC	9 cut(s)	59, 230, 236, 553, 585, 591, 902, 986, 1030
BssSI	CACGAG	1 cut(s)	423
Bst2BI	CACGAG	1 cut(s)	423
Bst2UI	CCWGG	1 cut(s)	297
Bst4CI	ACNGT	4 cut(s)	195, 454, 520, 969
Bst6I	CTCTTC	2 cut(s)	543, 969
BstC8I	GCNNGC	2 cut(s)	41, 1160
BstDEI	CTNAG	2 cut(s)	884, 1027
BstEII	GGTNACC	1 cut(s)	334
BstENI	CCTNNNNNAGG	1 cut(s)	219
BstF5I	GGATG	3 cut(s)	289, 466, 719
BstKTI	GATC	9 cut(s)	62, 233, 239, 556, 588, 594, 905, 989, 1033
BstMAI	GTCTC	3 cut(s)	214, 671, 1030
BstMBI	GATC	9 cut(s)	59, 230, 236, 553, 585, 591, 902, 986, 1030
BstMCI	CGRYCG	1 cut(s)	233
BstMWI	GCNNNNNNNGC	1 cut(s)	787
BstNI	CCWGG	1 cut(s)	297
BstNSI	RCATGY	1 cut(s)	128
BstPAI	GACNNNNGTC	1 cut(s)	206
BstPI	GGTNACC	1 cut(s)	334
BstSCI	CCNGG	1 cut(s)	295
BstSFI	CTRYAG	2 cut(s)	453, 957
BstV1I	GCAGC	2 cut(s)	30, 133
BstV2I	GAAGAC	1 cut(s)	206
BstX2I	RGATCY	4 cut(s)	59, 553, 902, 1030
BstYI	RGATCY	4 cut(s)	59, 553, 902, 1030
BsuRI	GGCC	4 cut(s)	225, 568, 695, 705
BtgZI	GCGATG	1 cut(s)	484
BtsCI	GGATG	3 cut(s)	289, 466, 719
BtsIMutI	CAGTG	1 cut(s)	516
BveI	ACCTGC	1 cut(s)	758
Cac8I	GCNNGC	2 cut(s)	41, 1160
Cfr13I	GGNCC	1 cut(s)	704
Csp6I	GTAC	5 cut(s)	481, 726, 831, 947, 1046
CviAII	CATG	4 cut(s)	89, 125, 871, 1179
CviQI	GTAC	5 cut(s)	481, 726, 831, 947, 1046
DdeI	CTNAG	2 cut(s)	884, 1027
DpnI	GATC	9 cut(s)	61, 232, 238, 555, 587, 593, 904, 988, 1032
DpnII	GATC	9 cut(s)	59, 230, 236, 553, 585, 591, 902, 986, 1030
EaeI	YGGCCR	1 cut(s)	693
Eam1104I	CTCTTC	2 cut(s)	543, 969
EarI	CTCTTC	2 cut(s)	543, 969
Eco24I	GRGCYC	1 cut(s)	275
Eco57I	CTGAAG	1 cut(s)	527
Eco91I	GGTNACC	1 cut(s)	334
EcoNI	CCTNNNNNAGG	1 cut(s)	219
EcoO65I	GGTNACC	1 cut(s)	334
EcoRII	CCWGG	1 cut(s)	295
EcoT22I	ATGCAT	1 cut(s)	476
EcoT38I	GRGCYC	1 cut(s)	275
FaeI	CATG	4 cut(s)	92, 128, 874, 1182
FalI	AAGNNNNNCTT	4 cut(s)	540, 572, 765, 797
FatI	CATG	4 cut(s)	88, 124, 870, 1178
FblI	GTMKAC	1 cut(s)	508
Fnu4HI	GCNGC	3 cut(s)	44, 147, 226
FokI	GGATG	3 cut(s)	296, 473, 726
FriOI	GRGCYC	1 cut(s)	275
Fsp4HI	GCNGC	3 cut(s)	44, 147, 226
FspBI	CTAG	3 cut(s)	252, 267, 512
GluI	GCNGC	3 cut(s)	44, 147, 226
GsuI	CTGGAG	1 cut(s)	397
HaeIII	GGCC	4 cut(s)	225, 568, 695, 705
HapII	CCGG	1 cut(s)	900
Hin1II	CATG	4 cut(s)	92, 128, 874, 1182
HincII	GTYRAC	1 cut(s)	509
HindII	GTYRAC	1 cut(s)	509
HinfI	GANTC	6 cut(s)	259, 419, 487, 998, 1128, 1175
HpaII	CCGG	1 cut(s)	900
HphI	GGTGA	2 cut(s)	204, 782
Hpy166II	GTNNAC	4 cut(s)	509, 752, 831, 947
Hpy188I	TCNGA	3 cut(s)	907, 923, 1030
Hpy8I	GTNNAC	4 cut(s)	509, 752, 831, 947
HpyAV	CCTTC	4 cut(s)	19, 249, 365, 497
HpyCH4III	ACNGT	4 cut(s)	195, 454, 520, 969
HpyCH4V	TGCA	8 cut(s)	39, 287, 434, 464, 474, 934, 959, 1139
HpyF10VI	GCNNNNNNNGC	1 cut(s)	787
HpyF3I	CTNAG	2 cut(s)	884, 1027
Hsp92II	CATG	4 cut(s)	92, 128, 874, 1182
Kzo9I	GATC	9 cut(s)	59, 230, 236, 553, 585, 591, 902, 986, 1030
LmnI	GCTCC	5 cut(s)	270, 416, 634, 787, 1182
Lsp1109I	GCAGC	2 cut(s)	30, 133
LweI	GCATC	4 cut(s)	274, 451, 461, 1199
MaeI	CTAG	3 cut(s)	252, 267, 512
MaeIII	GTNAC	5 cut(s)	313, 334, 397, 439, 514
MalI	GATC	9 cut(s)	61, 232, 238, 555, 587, 593, 904, 988, 1032
MboI	GATC	9 cut(s)	59, 230, 236, 553, 585, 591, 902, 986, 1030
MboII	GAAGA	6 cut(s)	211, 560, 589, 624, 872, 986
MfeI	CAATTG	2 cut(s)	935, 1215
MflI	RGATCY	4 cut(s)	59, 553, 902, 1030
MhlI	GDGCHC	2 cut(s)	275, 930
MlsI	TGGCCA	1 cut(s)	695
MluCI	AATT	8 cut(s)	32, 117, 356, 530, 672, 935, 1196, 1215
MluNI	TGGCCA	1 cut(s)	695
MlyI	GAGTC	1 cut(s)	268
MmeI	TCCRAC	1 cut(s)	363
Mox20I	TGGCCA	1 cut(s)	695
Mph1103I	ATGCAT	1 cut(s)	476
MscI	TGGCCA	1 cut(s)	695
MseI	TTAA	5 cut(s)	363, 477, 675, 1076, 1151
MslI	CAYNNNNRTG	2 cut(s)	11, 1207
Msp20I	TGGCCA	1 cut(s)	695
MspI	CCGG	1 cut(s)	900
MspR9I	CCNGG	1 cut(s)	297
MunI	CAATTG	2 cut(s)	935, 1215
MvaI	CCWGG	1 cut(s)	297
MwoI	GCNNNNNNNGC	1 cut(s)	787
NdeII	GATC	9 cut(s)	59, 230, 236, 553, 585, 591, 902, 986, 1030
NlaIII	CATG	4 cut(s)	92, 128, 874, 1182
NlaIV	GGNNCC	2 cut(s)	272, 898
NmuCI	GTSAC	2 cut(s)	439, 514
NsiI	ATGCAT	1 cut(s)	476
NspI	RCATGY	1 cut(s)	128
PaqCI	CACCTGC	1 cut(s)	758
PciI	ACATGT	1 cut(s)	124
PfeI	GAWTC	5 cut(s)	419, 487, 998, 1128, 1175
PfoI	TCCNGGA	1 cut(s)	295
PkrI	GCNGC	3 cut(s)	45, 148, 227
Ple19I	CGATCG	1 cut(s)	233
PleI	GAGTC	1 cut(s)	267
PpsI	GAGTC	1 cut(s)	267
PscI	ACATGT	1 cut(s)	124
PshAI	GACNNNNGTC	1 cut(s)	206
Psp6I	CCWGG	1 cut(s)	295
PspEI	GGTNACC	1 cut(s)	334
PspGI	CCWGG	1 cut(s)	295
PspN4I	GGNNCC	2 cut(s)	272, 898
PspPI	GGNCC	1 cut(s)	704
PstI	CTGCAG	1 cut(s)	961
PsuI	RGATCY	4 cut(s)	59, 553, 902, 1030
PvuI	CGATCG	1 cut(s)	233
RsaI	GTAC	5 cut(s)	482, 727, 832, 948, 1047
RsaNI	GTAC	5 cut(s)	481, 726, 831, 947, 1046
RseI	CAYNNNNRTG	2 cut(s)	11, 1207
SalI	GTCGAC	1 cut(s)	507
SaqAI	TTAA	5 cut(s)	363, 477, 675, 1076, 1151
SatI	GCNGC	3 cut(s)	44, 147, 226
Sau3AI	GATC	9 cut(s)	59, 230, 236, 553, 585, 591, 902, 986, 1030
Sau96I	GGNCC	1 cut(s)	704
ScaI	AGTACT	2 cut(s)	482, 727
SchI	GAGTC	1 cut(s)	268
ScrFI	CCNGG	1 cut(s)	297
SduI	GDGCHC	2 cut(s)	275, 930
SfaNI	GCATC	4 cut(s)	274, 451, 461, 1199
SfcI	CTRYAG	2 cut(s)	453, 957
SmiMI	CAYNNNNRTG	2 cut(s)	11, 1207
SmlI	CTYRAG	2 cut(s)	71, 110
SmoI	CTYRAG	2 cut(s)	71, 110
SpeI	ACTAGT	1 cut(s)	511
Sse9I	AATT	8 cut(s)	32, 117, 356, 530, 672, 935, 1196, 1215
SsiI	CCGC	1 cut(s)	226
SspMI	CTAG	3 cut(s)	252, 267, 512
StyD4I	CCNGG	1 cut(s)	295
TaaI	ACNGT	4 cut(s)	195, 454, 520, 969
TaqI	TCGA	3 cut(s)	233, 245, 508
TasI	AATT	8 cut(s)	32, 117, 356, 530, 672, 935, 1196, 1215
TatI	WGTACW	4 cut(s)	480, 725, 830, 1045
TauI	GCSGC	1 cut(s)	228
TfiI	GAWTC	5 cut(s)	419, 487, 998, 1128, 1175
Tru1I	TTAA	5 cut(s)	363, 477, 675, 1076, 1151
Tru9I	TTAA	5 cut(s)	363, 477, 675, 1076, 1151
TscAI	CASTG	1 cut(s)	523
TseFI	GTSAC	2 cut(s)	439, 514
TseI	GCWGC	2 cut(s)	43, 146
Tsp45I	GTSAC	2 cut(s)	439, 514
TspDTI	ATGAA	1 cut(s)	1167
TspRI	CASTG	1 cut(s)	523
XagI	CCTNNNNNAGG	1 cut(s)	219
XapI	RAATTY	2 cut(s)	356, 1196
XbaI	TCTAGA	1 cut(s)	251
XceI	RCATGY	1 cut(s)	128
XmiI	GTMKAC	1 cut(s)	508
XspI	CTAG	3 cut(s)	252, 267, 512
ZrmI	AGTACT	2 cut(s)	482, 727
Zsp2I	ATGCAT	1 cut(s)	476

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