Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0002496

Physical Location & Seq

Genomic Coordinates Reverse (-)

67821369 .. 67825517

Gene Structure 4149 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG461100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1041 bp

ATGGCTGTTGCTGAGAATGCACCGAGCTTCGATAACTCATCGGAGTCCAATGCTCAGAGCGATCTCGAAAACCCACCAAAACCCAAAATGGACTCGGCTGCTGTGGTGAGTGTGGACCCCAATTTGCAGTCCAATGGTGGTGGTGGTGATGATCAGAACAATTCTGAGCTGAAGAGCCAGGAGGGTTTGTCAGTCCCCAACCACAAGGCTCAAACGGGCCAGATGCAAAATGGGTTCGAGTCCAATGGGGTGGCTGCTGATGACCATCAGATGGCGAAGGCTGGTGGGTATGGGACTGATCAGAGCTCCAATGGGGATGAGAATTTCAAGAGGGATATGAGGGATTTGGAAGAGTTGTTGTCCAAGTTGAATCCCATGGCTCAGGAATTCATACCTCTAAGCCTTGCCAACAACCAAGGGTTTGCTCTTCCTGGTGGATTTGGCTACACTAACAATCTGTTGCTGCAGGCCAATTCCGGCAATGGGAATGGATTTATGGGTAAAAGGAAGAAGAATGGCTATAGTAATCAAGCCAGGAGAAGGAACTATTACAAGCTGAGTTTGGCACAGCGAGAGGAGATGATTAGGAGGACTGTGTATGTTTCTGACATTGACCAACAGGTTACTGAAGAGAACCTGGCTGCTCTCTTTATTAATTGCGGACAGGTTGTAGACTGTCGTGTATGTGGTGATCCTAATTCTGTTCTTCGATTTGCTTTTATTGAGTTTACAGATGAAGAAGGTGCAATGGCTGCTTTGAGTCTGTCAGGAACCATGCTTGGCTACTACCCTGTAAGAGTGCTGCCTTCCAAAACTGCAATTGCACCTGTTAACCCAACATTTTTGCCCAGGTCAGATGATGAACGTGAAATGTGCTCAAGAACTATTTATTGTACCAATATTGACAAGAAGGTTACTCAAGCTGATGTCAAACTGTTTTTTGAATCACTTTGTGGAGAGGTTCAACGCCTGAGGCTCCTTGGAGACTATCATCATTCCACTCGTATTTGTTTTGTTGAGTTTACAGTGGTAATGACATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0016604 GO:0016607 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0070013 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PAM2 RRM_1

Protein Analysis

346

Amino Acids

38.04

Weight (kDa)

4.98

Isoelectric Point (pI)

38.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	199 - 261	7.2e-12	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0002496)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G32790 AT1G32790 AT4G10610 AT4G10610
fragaria_vesca	FvH4_5g10630 FvH4_5g10630 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841
malus_domestica	MD01G1227700.v1.1 MD06G1121700.v1.1 MD07G1298200.v1.1 MD14G1138200.v1.1
prunus_persica	Prupe.2G318100_v2.0.a1 Prupe.2G318100_v2.0.a1 Prupe.2G318100_v2.0.a1 Prupe.5G132400_v2.0.a1
pyrus_communis	pycom01g23600 pycom06g11280 pycom07g27070 pycom14g11330
rosa_chinensis	RchiOBHm_Chr1g0382781 RchiOBHm_Chr7g0187511
rosa_laevigata	RLG00000004775 RLG00000026160
rosa_multiflora	Rmu_sc0003389.1_g000001 Rmu_sc0019127.1_g000002
rosa_roxburghii	Rroxscaffold_3G00267370 Rroxscaffold_4G00277910
rosa_rugosa	Rorug01G0435800 Rorug06G0482100
rosa_samantha	Rh1AG461100 Rh1BG417800 Rh1DG450000 Rh7BG088300 Rh7CG087600 Rh7DG089200
rosa_wichuraiana	Rw1G041060 Rw7G007660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	271
AccI	GTMKAC	1 cut(s)	672
AciI	CCGC	1 cut(s)	660
AclWI	GGATC	1 cut(s)	686
AcsI	RAATTY	2 cut(s)	322, 386
AcuI	CTGAAG	2 cut(s)	191, 648
AdeI	CACNNNGTG	1 cut(s)	953
AfaI	GTAC	1 cut(s)	895
AfiI	CCNNNNNNNGG	3 cut(s)	271, 483, 540
AgsI	TTSAA	4 cut(s)	328, 370, 944, 965
AjnI	CCWGG	5 cut(s)	177, 430, 533, 636, 848
AluBI	AGCT	5 cut(s)	27, 169, 306, 556, 923
AluI	AGCT	5 cut(s)	27, 169, 306, 556, 923
Alw21I	GWGCWC	2 cut(s)	308, 878
Alw26I	GTCTC	1 cut(s)	978
AlwI	GGATC	1 cut(s)	686
AoxI	GGCC	2 cut(s)	217, 468
ApeKI	GCWGC	6 cut(s)	98, 254, 463, 641, 752, 802
ApoI	RAATTY	2 cut(s)	322, 386
AseI	ATTAAT	1 cut(s)	654
AspS9I	GGNCC	2 cut(s)	115, 217
AsuHPI	GGTGA	3 cut(s)	118, 158, 701
AvaII	GGWCC	1 cut(s)	115
AxyI	CCTNAGG	1 cut(s)	971
BanII	GRGCYC	1 cut(s)	308
Bbv12I	GWGCWC	2 cut(s)	308, 878
BbvI	GCAGC	6 cut(s)	85, 241, 450, 628, 739, 789
BccI	CCATC	2 cut(s)	265, 273
BciT130I	CCWGG	5 cut(s)	179, 432, 535, 638, 850
BclI	TGATCA	2 cut(s)	151, 298
BcoDI	GTCTC	1 cut(s)	978
BfmI	CTRYAG	2 cut(s)	464, 520
BisI	GCNGC	6 cut(s)	99, 255, 464, 642, 753, 803
BlsI	GCNGC	6 cut(s)	100, 256, 465, 643, 754, 804
Bme1390I	CCNGG	5 cut(s)	179, 432, 535, 638, 850
Bme18I	GGWCC	1 cut(s)	115
BmgT120I	GGNCC	2 cut(s)	115, 217
BmiI	GGNNCC	3 cut(s)	117, 772, 977
BmrFI	CCNGG	5 cut(s)	179, 432, 535, 638, 850
BmsI	GCATC	1 cut(s)	213
Bpu10I	CCTNAGC	1 cut(s)	381
BpuEI	CTTGAG	2 cut(s)	862, 903
BsaBI	GATNNNNATC	1 cut(s)	264
BsaJI	CCNNGG	4 cut(s)	375, 415, 848, 979
BsaXI	ACNNNNNCTCC	2 cut(s)	173, 203
Bsc4I	CCNNNNNNNGG	3 cut(s)	271, 483, 540
Bse21I	CCTNAGG	1 cut(s)	971
Bse3DI	GCAATG	2 cut(s)	487, 753
Bse8I	GATNNNNATC	1 cut(s)	264
BseBI	CCWGG	5 cut(s)	179, 432, 535, 638, 850
BseDI	CCNNGG	4 cut(s)	375, 415, 848, 979
BseGI	GGATG	1 cut(s)	322
BseJI	GATNNNNATC	1 cut(s)	264
BseLI	CCNNNNNNNGG	3 cut(s)	271, 483, 540
BseMI	GCAATG	2 cut(s)	487, 753
BseMII	CTCAG	5 cut(s)	68, 156, 395, 548, 962
BseRI	GAGGAG	1 cut(s)	590
BseXI	GCAGC	6 cut(s)	85, 241, 450, 628, 739, 789
BshFI	GGCC	2 cut(s)	219, 470
BsiHKAI	GWGCWC	2 cut(s)	308, 878
BsiSI	CCGG	1 cut(s)	477
BslFI	GGGAC	2 cut(s)	179, 307
BslI	CCNNNNNNNGG	3 cut(s)	271, 483, 540
BsmAI	GTCTC	1 cut(s)	978
BsmFI	GGGAC	2 cut(s)	179, 307
BsmI	GAATGC	1 cut(s)	22
BsnI	GGCC	2 cut(s)	219, 470
Bsp1286I	GDGCHC	2 cut(s)	308, 878
Bsp143I	GATC	4 cut(s)	61, 151, 298, 691
Bsp19I	CCATGG	1 cut(s)	375
BspACI	CCGC	1 cut(s)	660
BspANI	GGCC	2 cut(s)	219, 470
BspCNI	CTCAG	6 cut(s)	4, 67, 157, 394, 549, 963
BspLI	GGNNCC	3 cut(s)	117, 772, 977
BspMAI	CTGCAG	1 cut(s)	468
BspPI	GGATC	1 cut(s)	686
BspQI	GCTCTTC	2 cut(s)	167, 432
BsrDI	GCAATG	2 cut(s)	487, 753
BssECI	CCNNGG	4 cut(s)	375, 415, 848, 979
BssMI	GATC	4 cut(s)	61, 151, 298, 691
BssT1I	CCWWGG	3 cut(s)	375, 415, 979
Bst2UI	CCWGG	5 cut(s)	179, 432, 535, 638, 850
Bst4CI	ACNGT	4 cut(s)	595, 677, 936, 1027
Bst6I	CTCTTC	4 cut(s)	167, 345, 432, 624
BstAPI	GCANNNNNTGC	1 cut(s)	752
BstC8I	GCNNGC	1 cut(s)	468
BstDEI	CTNAG	7 cut(s)	12, 54, 165, 381, 398, 557, 971
BstDSI	CCRYGG	1 cut(s)	375
BstF5I	GGATG	1 cut(s)	322
BstKTI	GATC	4 cut(s)	64, 154, 301, 694
BstMAI	GTCTC	1 cut(s)	978
BstMBI	GATC	4 cut(s)	61, 151, 298, 691
BstMWI	GCNNNNNNNGC	2 cut(s)	17, 752
BstNI	CCWGG	5 cut(s)	179, 432, 535, 638, 850
BstSCI	CCNGG	5 cut(s)	177, 430, 533, 636, 848
BstSFI	CTRYAG	2 cut(s)	464, 520
BstV1I	GCAGC	6 cut(s)	85, 241, 450, 628, 739, 789
BstXI	CCANNNNNNTGG	1 cut(s)	250
Bsu36I	CCTNAGG	1 cut(s)	971
BsuRI	GGCC	2 cut(s)	219, 470
BtgI	CCRYGG	1 cut(s)	375
BtsCI	GGATG	1 cut(s)	322
BtsIMutI	CAGTG	1 cut(s)	1032
Cac8I	GCNNGC	1 cut(s)	468
Cfr13I	GGNCC	2 cut(s)	115, 217
Csp6I	GTAC	1 cut(s)	894
CspCI	CAANNNNNGTGG	2 cut(s)	121, 156
CviAII	CATG	2 cut(s)	376, 775
CviQI	GTAC	1 cut(s)	894
DdeI	CTNAG	7 cut(s)	12, 54, 165, 381, 398, 557, 971
DpnI	GATC	4 cut(s)	63, 153, 300, 693
DpnII	GATC	4 cut(s)	61, 151, 298, 691
DraIII	CACNNNGTG	1 cut(s)	953
Eam1104I	CTCTTC	4 cut(s)	167, 345, 432, 624
EarI	CTCTTC	4 cut(s)	167, 345, 432, 624
Ecl136II	GAGCTC	1 cut(s)	306
Eco130I	CCWWGG	3 cut(s)	375, 415, 979
Eco24I	GRGCYC	1 cut(s)	308
Eco47I	GGWCC	1 cut(s)	115
Eco53kI	GAGCTC	1 cut(s)	306
Eco57I	CTGAAG	2 cut(s)	191, 648
Eco81I	CCTNAGG	1 cut(s)	971
EcoICRI	GAGCTC	1 cut(s)	306
EcoRI	GAATTC	1 cut(s)	386
EcoRII	CCWGG	5 cut(s)	177, 430, 533, 636, 848
EcoT14I	CCWWGG	3 cut(s)	375, 415, 979
EcoT38I	GRGCYC	1 cut(s)	308
ErhI	CCWWGG	3 cut(s)	375, 415, 979
FaeI	CATG	2 cut(s)	379, 778
FaqI	GGGAC	2 cut(s)	179, 307
FatI	CATG	2 cut(s)	375, 774
FbaI	TGATCA	2 cut(s)	151, 298
FblI	GTMKAC	1 cut(s)	672
Fnu4HI	GCNGC	6 cut(s)	99, 255, 464, 642, 753, 803
FokI	GGATG	1 cut(s)	329
FriOI	GRGCYC	1 cut(s)	308
Fsp4HI	GCNGC	6 cut(s)	99, 255, 464, 642, 753, 803
GluI	GCNGC	6 cut(s)	99, 255, 464, 642, 753, 803
HaeIII	GGCC	2 cut(s)	219, 470
HapII	CCGG	1 cut(s)	477
Hin1II	CATG	2 cut(s)	379, 778
HincII	GTYRAC	1 cut(s)	832
HindII	GTYRAC	1 cut(s)	832
HinfI	GANTC	6 cut(s)	44, 92, 239, 370, 760, 944
HpaI	GTTAAC	1 cut(s)	832
HpaII	CCGG	1 cut(s)	477
HphI	GGTGA	3 cut(s)	118, 158, 701
Hpy166II	GTNNAC	5 cut(s)	115, 673, 729, 832, 1023
Hpy188I	TCNGA	8 cut(s)	43, 57, 156, 166, 270, 303, 607, 856
Hpy188III	TCNNGA	5 cut(s)	65, 328, 383, 768, 879
Hpy8I	GTNNAC	5 cut(s)	115, 673, 729, 832, 1023
HpyAV	CCTTC	5 cut(s)	271, 534, 734, 816, 904
HpyCH4III	ACNGT	4 cut(s)	595, 677, 936, 1027
HpyCH4IV	ACGT	1 cut(s)	865
HpyCH4V	TGCA	7 cut(s)	20, 127, 226, 466, 746, 818, 824
HpyF10VI	GCNNNNNNNGC	2 cut(s)	17, 752
HpyF3I	CTNAG	7 cut(s)	12, 54, 165, 381, 398, 557, 971
HpySE526I	ACGT	1 cut(s)	865
Hsp92II	CATG	2 cut(s)	379, 778
Ksp22I	TGATCA	2 cut(s)	151, 298
KspAI	GTTAAC	1 cut(s)	832
Kzo9I	GATC	4 cut(s)	61, 151, 298, 691
LguI	GCTCTTC	2 cut(s)	167, 432
LmnI	GCTCC	2 cut(s)	311, 981
Lsp1109I	GCAGC	6 cut(s)	85, 241, 450, 628, 739, 789
LweI	GCATC	1 cut(s)	213
MaeII	ACGT	1 cut(s)	865
MaeIII	GTNAC	2 cut(s)	622, 913
MalI	GATC	4 cut(s)	63, 153, 300, 693
MboI	GATC	4 cut(s)	61, 151, 298, 691
MboII	GAAGA	8 cut(s)	184, 362, 419, 520, 523, 641, 698, 749
MfeI	CAATTG	1 cut(s)	819
MhlI	GDGCHC	2 cut(s)	308, 878
MluCI	AATT	8 cut(s)	121, 160, 322, 386, 472, 655, 697, 819
MlyI	GAGTC	4 cut(s)	53, 86, 248, 769
MnlI	CCTC	8 cut(s)	175, 324, 333, 405, 568, 582, 952, 966
MseI	TTAA	2 cut(s)	654, 831
MspI	CCGG	1 cut(s)	477
MspR9I	CCNGG	5 cut(s)	179, 432, 535, 638, 850
MunI	CAATTG	1 cut(s)	819
Mva1269I	GAATGC	1 cut(s)	22
MvaI	CCWGG	5 cut(s)	179, 432, 535, 638, 850
MwoI	GCNNNNNNNGC	2 cut(s)	17, 752
NcoI	CCATGG	1 cut(s)	375
NdeII	GATC	4 cut(s)	61, 151, 298, 691
NlaIII	CATG	2 cut(s)	379, 778
NlaIV	GGNNCC	3 cut(s)	117, 772, 977
NmeAIII	GCCGAG	1 cut(s)	74
PciSI	GCTCTTC	2 cut(s)	167, 432
PctI	GAATGC	1 cut(s)	22
PfeI	GAWTC	2 cut(s)	370, 944
PflMI	CCANNNNNTGG	1 cut(s)	271
PkrI	GCNGC	6 cut(s)	100, 256, 465, 643, 754, 804
PleI	GAGTC	4 cut(s)	52, 86, 247, 768
PpsI	GAGTC	4 cut(s)	52, 86, 247, 768
PshBI	ATTAAT	1 cut(s)	654
Psp124BI	GAGCTC	1 cut(s)	308
Psp6I	CCWGG	5 cut(s)	177, 430, 533, 636, 848
PspGI	CCWGG	5 cut(s)	177, 430, 533, 636, 848
PspN4I	GGNNCC	3 cut(s)	117, 772, 977
PspPI	GGNCC	2 cut(s)	115, 217
PstI	CTGCAG	1 cut(s)	468
RsaI	GTAC	1 cut(s)	895
RsaNI	GTAC	1 cut(s)	894
SacI	GAGCTC	1 cut(s)	308
SapI	GCTCTTC	2 cut(s)	167, 432
SaqAI	TTAA	2 cut(s)	654, 831
SatI	GCNGC	6 cut(s)	99, 255, 464, 642, 753, 803
Sau3AI	GATC	4 cut(s)	61, 151, 298, 691
Sau96I	GGNCC	2 cut(s)	115, 217
SchI	GAGTC	4 cut(s)	53, 86, 248, 769
ScrFI	CCNGG	5 cut(s)	179, 432, 535, 638, 850
SduI	GDGCHC	2 cut(s)	308, 878
SfaNI	GCATC	1 cut(s)	213
SfcI	CTRYAG	2 cut(s)	464, 520
SinI	GGWCC	1 cut(s)	115
SmlI	CTYRAG	2 cut(s)	877, 918
SmoI	CTYRAG	2 cut(s)	877, 918
Sse9I	AATT	8 cut(s)	121, 160, 322, 386, 472, 655, 697, 819
SsiI	CCGC	1 cut(s)	660
SspI	AATATT	1 cut(s)	901
SstI	GAGCTC	1 cut(s)	308
StyD4I	CCNGG	5 cut(s)	177, 430, 533, 636, 848
StyI	CCWWGG	3 cut(s)	375, 415, 979
TaaI	ACNGT	4 cut(s)	595, 677, 936, 1027
TaiI	ACGT	1 cut(s)	868
TaqI	TCGA	4 cut(s)	30, 66, 237, 709
TasI	AATT	8 cut(s)	121, 160, 322, 386, 472, 655, 697, 819
TfiI	GAWTC	2 cut(s)	370, 944
Tru1I	TTAA	2 cut(s)	654, 831
Tru9I	TTAA	2 cut(s)	654, 831
TscAI	CASTG	1 cut(s)	1032
TseI	GCWGC	6 cut(s)	98, 254, 463, 641, 752, 802
TspDTI	ATGAA	3 cut(s)	379, 750, 876
TspRI	CASTG	1 cut(s)	1032
Van91I	CCANNNNNTGG	1 cut(s)	271
VpaK11BI	GGWCC	1 cut(s)	115
VspI	ATTAAT	1 cut(s)	654
XapI	RAATTY	2 cut(s)	322, 386
XcmI	CCANNNNNNNNNTGG	1 cut(s)	227
XmiI	GTMKAC	1 cut(s)	672

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