Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0009193

Physical Location & Seq

Genomic Coordinates Reverse (-)

21667707 .. 21674010

Gene Structure 6304 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG214000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGGCTGCGGTTGCTGAGATTGCCGGTGACGCAGCCTCTGCCAACAACCAGAACTTGGATTCAATATCAAAACCCTTATCTGAATCGAAACCCAAATCGGAATTCGATGTGCAGAAGCTGGTGGATATGTTCACCAAGTTGAACCCTTTAGCCAAAGAGTTCTTCCCTTCATCTTACTCACCTCTGCAAAATCACAATTTTGATAACTCTTTTGCTGTCAATAACAATAAGCTCTTGCCCACTGACAATCAGGCCAACAATCGAAGGAGAAGAAATAACTATAATCAGGGGAAGAGAAGGTTGAGTGGGAGAGCTTTCAGAGCTGAGCGCGAAAATAGTATTAGACGAACAGTTTATGTTTCTGATATTGATCAGCAAGTTACCGAAGAGCGTCTTGCTGCCATATTTAGTAATTGTGGACAAGTTTTTGACTGCCGAATTTGTGGTGATCCGCATTCAGTGCTCCGTTTTGCATTTGTGGAGTTTGCTGATGAGCATGGTGCGAGAGCAGCCTTGAACCTTGGTGGGACGATGCTAGGGTATTATCCCGTTAGGGTCTTACCTTCAAAAACTGCCATCCTTCCTGTGAATCCTACATTCCTCCCTAGGGTTACTCGTTTGAGGCTTTTGGGAGATCATGTGCATTCAACCCGTATAGCTTTTGTTGAATTTGCAATGGCAGAAAGTGCCATACTTGCACTGAACTGTAGCGGAATGGTGTTGGGAACACAACCCATCAGGGTAAGTCCTTCAAAGACACCTGTGCGGCCACGGGTCACTCGTCCAACGTTGCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

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

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PAM2 RRM_1

Protein Analysis

265

Amino Acids

29.53

Weight (kDa)

9.76

Isoelectric Point (pI)

44.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	118 - 180	1.4e-11	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: OG0009193)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G53650 AT1G53650 AT3G14450
fragaria_vesca	FvH4_3g16680 FvH4_3g16680
malus_domestica	MD05G1208300.v1.1 MD10G1194800.v1.1
prunus_persica	Prupe.4G149200_v2.0.a1 Prupe.4G149200_v2.0.a1
pyrus_communis	pycom05g19400 pycom10g16820
rosa_chinensis	RchiOBHm_Chr5g0027791
rosa_laevigata	RLG00000033043
rosa_multiflora	Rmu_sc0000920.1_g000007
rosa_roxburghii	Rroxscaffold_1G00051820
rosa_rugosa	Rorug05G0101100 Rorug05G0101200
rosa_samantha	Rh5AG195400 Rh5BG193700 Rh5CG214000 Rh5DG195700
rosa_wichuraiana	Rw5G017830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	55
AccII	CGCG	1 cut(s)	330
AciI	CCGC	4 cut(s)	8, 452, 711, 766
AclI	AACGTT	1 cut(s)	788
AclWI	GGATC	1 cut(s)	443
AcoI	YGGCCR	1 cut(s)	767
AcsI	RAATTY	3 cut(s)	101, 438, 668
AfiI	CCNNNNNNNGG	2 cut(s)	55, 607
AgsI	TTSAA	7 cut(s)	63, 142, 517, 567, 648, 668, 753
AjuI	GAANNNNNNNTTGG	4 cut(s)	86, 118, 146, 178
AluBI	AGCT	5 cut(s)	118, 232, 314, 323, 659
AluI	AGCT	5 cut(s)	118, 232, 314, 323, 659
Alw21I	GWGCWC	1 cut(s)	465
AlwI	GGATC	1 cut(s)	443
AlwNI	CAGNNNCTG	2 cut(s)	38, 118
AoxI	GGCC	2 cut(s)	252, 767
ApeKI	GCWGC	4 cut(s)	5, 32, 398, 509
ApoI	RAATTY	3 cut(s)	101, 438, 668
AspA2I	CCTAGG	1 cut(s)	605
AspLEI	GCGC	1 cut(s)	330
AsuHPI	GGTGA	4 cut(s)	38, 124, 171, 458
AvrII	CCTAGG	1 cut(s)	605
Bbv12I	GWGCWC	1 cut(s)	465
BbvI	GCAGC	3 cut(s)	44, 385, 521
BccI	CCATC	2 cut(s)	584, 743
BclI	TGATCA	1 cut(s)	370
BfaI	CTAG	2 cut(s)	536, 606
BfmI	CTRYAG	1 cut(s)	706
BisI	GCNGC	5 cut(s)	6, 33, 399, 510, 767
BlnI	CCTAGG	1 cut(s)	605
BlpI	GCTNAGC	1 cut(s)	324
BlsI	GCNGC	5 cut(s)	7, 34, 400, 511, 768
BmsI	GCATC	1 cut(s)	522
Bpu1102I	GCTNAGC	1 cut(s)	324
BsaBI	GATNNNNATC	1 cut(s)	369
BsaJI	CCNNGG	3 cut(s)	520, 605, 770
BsaXI	ACNNNNNCTCC	2 cut(s)	624, 654
Bsc4I	CCNNNNNNNGG	2 cut(s)	55, 607
Bse118I	RCCGGY	1 cut(s)	23
Bse3DI	GCAATG	1 cut(s)	681
Bse8I	GATNNNNATC	1 cut(s)	369
BseDI	CCNNGG	3 cut(s)	520, 605, 770
BseGI	GGATG	1 cut(s)	576
BseJI	GATNNNNATC	1 cut(s)	369
BseLI	CCNNNNNNNGG	2 cut(s)	55, 607
BseMI	GCAATG	1 cut(s)	681
BseMII	CTCAG	2 cut(s)	6, 315
BseXI	GCAGC	3 cut(s)	44, 385, 521
BsgI	GTGCAG	1 cut(s)	131
Bsh1236I	CGCG	1 cut(s)	330
BshFI	GGCC	2 cut(s)	254, 769
BsiHKAI	GWGCWC	1 cut(s)	465
BsiSI	CCGG	1 cut(s)	24
BslFI	GGGAC	1 cut(s)	541
BslI	CCNNNNNNNGG	2 cut(s)	55, 607
BsmFI	GGGAC	1 cut(s)	541
BsmI	GAATGC	2 cut(s)	454, 643
BsnI	GGCC	2 cut(s)	254, 769
Bsp1286I	GDGCHC	1 cut(s)	465
Bsp143I	GATC	3 cut(s)	370, 448, 634
Bsp1720I	GCTNAGC	1 cut(s)	324
BspACI	CCGC	4 cut(s)	8, 452, 711, 766
BspANI	GGCC	2 cut(s)	254, 769
BspCNI	CTCAG	2 cut(s)	7, 316
BspFNI	CGCG	1 cut(s)	330
BspPI	GGATC	1 cut(s)	443
BspQI	GCTCTTC	1 cut(s)	381
BsrDI	GCAATG	1 cut(s)	681
BsrFI	RCCGGY	1 cut(s)	23
BssAI	RCCGGY	1 cut(s)	23
BssECI	CCNNGG	3 cut(s)	520, 605, 770
BssMI	GATC	3 cut(s)	370, 448, 634
BssT1I	CCWWGG	2 cut(s)	520, 605
Bst4CI	ACNGT	2 cut(s)	352, 707
Bst6I	CTCTTC	2 cut(s)	287, 381
BstAPI	GCANNNNNTGC	3 cut(s)	38, 460, 686
BstDEI	CTNAG	2 cut(s)	15, 324
BstDSI	CCRYGG	1 cut(s)	770
BstF5I	GGATG	1 cut(s)	576
BstFNI	CGCG	1 cut(s)	330
BstHHI	GCGC	1 cut(s)	330
BstKTI	GATC	3 cut(s)	373, 451, 637
BstMBI	GATC	3 cut(s)	370, 448, 634
BstMWI	GCNNNNNNNGC	9 cut(s)	11, 20, 29, 38, 320, 460, 509, 686, 695
BstSFI	CTRYAG	1 cut(s)	706
BstUI	CGCG	1 cut(s)	330
BstV1I	GCAGC	3 cut(s)	44, 385, 521
BsuRI	GGCC	2 cut(s)	254, 769
BtgI	CCRYGG	1 cut(s)	770
BtsCI	GGATG	1 cut(s)	576
BtsIMutI	CAGTG	3 cut(s)	240, 465, 698
CaiI	CAGNNNCTG	2 cut(s)	38, 118
CfoI	GCGC	1 cut(s)	330
Cfr10I	RCCGGY	1 cut(s)	23
CseI	GACGC	2 cut(s)	38, 380
CviAII	CATG	2 cut(s)	497, 638
DdeI	CTNAG	2 cut(s)	15, 324
DpnI	GATC	3 cut(s)	372, 450, 636
DpnII	GATC	3 cut(s)	370, 448, 634
EaeI	YGGCCR	1 cut(s)	767
Eam1104I	CTCTTC	2 cut(s)	287, 381
EarI	CTCTTC	2 cut(s)	287, 381
Eco130I	CCWWGG	2 cut(s)	520, 605
EcoRI	GAATTC	1 cut(s)	101
EcoT14I	CCWWGG	2 cut(s)	520, 605
ErhI	CCWWGG	2 cut(s)	520, 605
FaeI	CATG	2 cut(s)	500, 641
FaiI	YATR	8 cut(s)	128, 282, 357, 404, 498, 639, 656, 692
FalI	AAGNNNNNCTT	2 cut(s)	378, 410
FaqI	GGGAC	1 cut(s)	541
FatI	CATG	2 cut(s)	496, 637
FbaI	TGATCA	1 cut(s)	370
Fnu4HI	GCNGC	5 cut(s)	6, 33, 399, 510, 767
FokI	GGATG	1 cut(s)	563
Fsp4HI	GCNGC	5 cut(s)	6, 33, 399, 510, 767
FspBI	CTAG	2 cut(s)	536, 606
GlaI	GCGC	1 cut(s)	329
GluI	GCNGC	5 cut(s)	6, 33, 399, 510, 767
HaeIII	GGCC	2 cut(s)	254, 769
HapII	CCGG	1 cut(s)	24
HgaI	GACGC	2 cut(s)	38, 380
HhaI	GCGC	1 cut(s)	330
Hin1II	CATG	2 cut(s)	500, 641
Hin6I	GCGC	1 cut(s)	328
HinP1I	GCGC	1 cut(s)	328
HinfI	GANTC	3 cut(s)	59, 83, 589
HpaII	CCGG	1 cut(s)	24
HphI	GGTGA	4 cut(s)	38, 124, 171, 458
Hpy166II	GTNNAC	2 cut(s)	132, 419
Hpy188I	TCNGA	4 cut(s)	82, 100, 320, 364
Hpy8I	GTNNAC	2 cut(s)	132, 419
HpyAV	CCTTC	6 cut(s)	177, 258, 291, 573, 590, 759
HpyCH4III	ACNGT	2 cut(s)	352, 707
HpyCH4IV	ACGT	1 cut(s)	788
HpyCH4V	TGCA	7 cut(s)	112, 187, 473, 643, 674, 698, 793
HpyF10VI	GCNNNNNNNGC	9 cut(s)	11, 20, 29, 38, 320, 460, 509, 686, 695
HpyF3I	CTNAG	2 cut(s)	15, 324
HpySE526I	ACGT	1 cut(s)	788
Hsp92II	CATG	2 cut(s)	500, 641
HspAI	GCGC	1 cut(s)	328
Ksp22I	TGATCA	1 cut(s)	370
Kzo9I	GATC	3 cut(s)	370, 448, 634
LguI	GCTCTTC	1 cut(s)	381
LmnI	GCTCC	1 cut(s)	468
LpnPI	CCDG	8 cut(s)	37, 62, 104, 236, 272, 597, 724, 774
Lsp1109I	GCAGC	3 cut(s)	44, 385, 521
LweI	GCATC	1 cut(s)	522
MaeI	CTAG	2 cut(s)	536, 606
MaeII	ACGT	1 cut(s)	788
MaeIII	GTNAC	4 cut(s)	26, 379, 610, 775
MalI	GATC	3 cut(s)	372, 450, 636
MboI	GATC	3 cut(s)	370, 448, 634
MboII	GAAGA	4 cut(s)	154, 282, 304, 398
MhlI	GDGCHC	1 cut(s)	465
MluCI	AATT	5 cut(s)	101, 196, 412, 438, 668
MnlI	CCTC	4 cut(s)	46, 192, 611, 615
MseI	TTAA	1 cut(s)	796
MspI	CCGG	1 cut(s)	24
Mva1269I	GAATGC	2 cut(s)	454, 643
MvnI	CGCG	1 cut(s)	330
MwoI	GCNNNNNNNGC	9 cut(s)	11, 20, 29, 38, 320, 460, 509, 686, 695
NdeII	GATC	3 cut(s)	370, 448, 634
NlaIII	CATG	2 cut(s)	500, 641
NmuCI	GTSAC	2 cut(s)	26, 775
PciSI	GCTCTTC	1 cut(s)	381
PcsI	WCGNNNNNNNCGW	1 cut(s)	778
PctI	GAATGC	2 cut(s)	454, 643
PfeI	GAWTC	3 cut(s)	59, 83, 589
PflMI	CCANNNNNTGG	1 cut(s)	55
PkrI	GCNGC	5 cut(s)	7, 34, 400, 511, 768
Psp1406I	AACGTT	1 cut(s)	788
PstNI	CAGNNNCTG	2 cut(s)	38, 118
SapI	GCTCTTC	1 cut(s)	381
SaqAI	TTAA	1 cut(s)	796
SatI	GCNGC	5 cut(s)	6, 33, 399, 510, 767
Sau3AI	GATC	3 cut(s)	370, 448, 634
SduI	GDGCHC	1 cut(s)	465
SfaNI	GCATC	1 cut(s)	522
SfcI	CTRYAG	1 cut(s)	706
Sse9I	AATT	5 cut(s)	101, 196, 412, 438, 668
SsiI	CCGC	4 cut(s)	8, 452, 711, 766
SspMI	CTAG	2 cut(s)	536, 606
StyI	CCWWGG	2 cut(s)	520, 605
TaaI	ACNGT	2 cut(s)	352, 707
TaiI	ACGT	1 cut(s)	791
TaqI	TCGA	3 cut(s)	86, 105, 262
TasI	AATT	5 cut(s)	101, 196, 412, 438, 668
TauI	GCSGC	1 cut(s)	769
TfiI	GAWTC	3 cut(s)	59, 83, 589
Tru1I	TTAA	1 cut(s)	796
Tru9I	TTAA	1 cut(s)	796
TscAI	CASTG	3 cut(s)	247, 465, 705
TseFI	GTSAC	2 cut(s)	26, 775
TseI	GCWGC	4 cut(s)	5, 32, 398, 509
Tsp45I	GTSAC	2 cut(s)	26, 775
TspDTI	ATGAA	1 cut(s)	159
TspGWI	ACGGA	1 cut(s)	455
TspRI	CASTG	3 cut(s)	247, 465, 705
Van91I	CCANNNNNTGG	1 cut(s)	55
XapI	RAATTY	3 cut(s)	101, 438, 668
XmaJI	CCTAGG	1 cut(s)	605
XspI	CTAG	2 cut(s)	536, 606

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