Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0013536

Physical Location & Seq

Genomic Coordinates Forward (+)

43445130 .. 43450126

Gene Structure 4997 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00116350.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGGCTTCCTTATTCAAGGATCAAGCCAAGCTTTCACAATATCGGGATAGAAGATTTCCTGGATCGCAAGAGGAATTTGAACAAGCACTTCTGGCATCAATGACTGTTTATATTGGGAATATGTCTTTTTATACAACAGAAGAGCAAGTTTATGAGCTTTTCTCTCGTGCTGGAGAAATTAAGAAGATAATTATGGGCTTGGATAAGAATACAAAAACGCCGTGTGGCTTTTGTTTTGTCCTATTCTATTCTCGAGAAGATACTGAGGATGCTGTAAAATATATAAGCGGGACTATTCTTGATGATCGTCCTATTCGTGTGGATTTTGATTGGGGATTCCAAGAAGGAAGGCAATGGGGCCGAGGGCGAAGTGGTGGGCAGGTTCGCGATGAATATCGTACTGATTATGATCCAGGTAGGGGTGGATATGGTAAATTAGTTCAACGGGAGTTGGAAGCTCAGAGAACACTTGTAGATTATGGTACTGGATCATTGGGTTCTTTCCCTCCAGTCATGCCACCTCCTCACTATGGTAGACAAGGGGGAGGCAATAATCATGGCGGTTCTCATCGGCATGGTAGAGATTTTCATCGGAAACGACACCGTGATGATGACCGCCAGCCATATGAGACCTCAAAGAGAAACTCAAATTATGAACCGCGGAAGAACTCTGATCTTGACTCTAGACCGGAGAAAAATCCACGGTTTCGTGAGAGTGGTGACTCTGATGATGAGGAAGAAGATGGCAAAAAGCGGCGACCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000339 GO:0000375 GO:0000377 GO:0000394 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005845 GO:0005846 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016071 GO:0016441 GO:0016458 GO:0019222 GO:0031047 GO:0031050 GO:0031053 GO:0032991 GO:0034470 GO:0034518 GO:0034641 GO:0034660 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043331 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901698 GO:1901699

KEGG Pathways

Metabolic & Signaling

ko03013 ko03015 ko03040 map03013 map03015 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

254

Amino Acids

29.4

Weight (kDa)

7.03

Isoelectric Point (pI)

47.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	36 - 106	1.2e-14	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0013536)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G44200 AT5G44200
fragaria_vesca	FvH4_6g26630
malus_domestica	MD09G1242300.v1.1 MD17G1234600.v1.1
prunus_persica	Prupe.3G134700_v2.0.a1
pyrus_communis	pycom09g16080 pycom17g23780
rosa_chinensis	RchiOBHm_Chr2g0127331
rosa_laevigata	RLG00000018966
rosa_multiflora	Rmu_sc0039747.1_g000001
rosa_roxburghii	Rroxscaffold_2G00116350
rosa_rugosa	Rorug02G0275100
rosa_samantha	Rh2AG326200 Rh2BG335700 Rh2CG313900 Rh2DG353400
rosa_wichuraiana	Rw2G026460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	370
AccI	GTMKAC	1 cut(s)	535
AccII	CGCG	2 cut(s)	387, 661
AciI	CCGC	6 cut(s)	288, 561, 616, 659, 661, 754
AclWI	GGATC	4 cut(s)	27, 70, 404, 496
AcsI	RAATTY	1 cut(s)	74
AfaI	GTAC	2 cut(s)	400, 484
AfiI	CCNNNNNNNGG	2 cut(s)	419, 530
AgsI	TTSAA	3 cut(s)	16, 80, 443
AjnI	CCWGG	2 cut(s)	58, 412
AluBI	AGCT	3 cut(s)	31, 157, 458
AluI	AGCT	3 cut(s)	31, 157, 458
Alw26I	GTCTC	1 cut(s)	623
AlwI	GGATC	4 cut(s)	27, 70, 404, 496
Ama87I	CYCGRG	1 cut(s)	252
AoxI	GGCC	1 cut(s)	358
ApoI	RAATTY	1 cut(s)	74
AspS9I	GGNCC	1 cut(s)	358
AsuHPI	GGTGA	1 cut(s)	731
AvaI	CYCGRG	1 cut(s)	252
BauI	CACGAG	1 cut(s)	165
BccI	CCATC	1 cut(s)	737
BceAI	ACGGC	1 cut(s)	205
BciT130I	CCWGG	2 cut(s)	60, 414
BcoDI	GTCTC	1 cut(s)	623
BfaI	CTAG	1 cut(s)	684
BfuAI	ACCTGC	1 cut(s)	370
BisI	GCNGC	1 cut(s)	755
BlsI	GCNGC	1 cut(s)	756
Bme1390I	CCNGG	2 cut(s)	60, 414
BmeT110I	CYCGRG	1 cut(s)	252
BmgT120I	GGNCC	1 cut(s)	358
BmiI	GGNNCC	1 cut(s)	359
BmrFI	CCNGG	2 cut(s)	60, 414
BmsI	GCATC	2 cut(s)	104, 259
BplI	GAGNNNNNCTC	2 cut(s)	146, 178
BpmI	CTGGAG	2 cut(s)	192, 492
BsaBI	GATNNNNATC	3 cut(s)	393, 408, 588
BsaI	GGTCTC	1 cut(s)	623
BsaJI	CCNNGG	3 cut(s)	361, 659, 701
BsaWI	WCCGGW	1 cut(s)	688
Bsc4I	CCNNNNNNNGG	2 cut(s)	419, 530
Bse1I	ACTGG	2 cut(s)	490, 509
Bse3DI	GCAATG	1 cut(s)	359
Bse8I	GATNNNNATC	3 cut(s)	393, 408, 588
BseBI	CCWGG	2 cut(s)	60, 414
BseDI	CCNNGG	3 cut(s)	361, 659, 701
BseGI	GGATG	1 cut(s)	274
BseJI	GATNNNNATC	3 cut(s)	393, 408, 588
BseLI	CCNNNNNNNGG	2 cut(s)	419, 530
BseMI	GCAATG	1 cut(s)	359
BseMII	CTCAG	2 cut(s)	255, 473
BseNI	ACTGG	2 cut(s)	490, 509
BseRI	GAGGAG	1 cut(s)	513
Bsh1236I	CGCG	2 cut(s)	387, 661
BshFI	GGCC	1 cut(s)	360
BsiHKCI	CYCGRG	1 cut(s)	252
BsiSI	CCGG	1 cut(s)	689
BslFI	GGGAC	1 cut(s)	304
BslI	CCNNNNNNNGG	2 cut(s)	419, 530
BsmAI	GTCTC	1 cut(s)	623
BsmFI	GGGAC	1 cut(s)	304
BsnI	GGCC	1 cut(s)	360
Bso31I	GGTCTC	1 cut(s)	623
BsoBI	CYCGRG	1 cut(s)	252
Bsp143I	GATC	6 cut(s)	19, 62, 304, 409, 488, 673
Bsp68I	TCGCGA	1 cut(s)	387
BspACI	CCGC	6 cut(s)	288, 561, 616, 659, 661, 754
BspANI	GGCC	1 cut(s)	360
BspCNI	CTCAG	2 cut(s)	256, 472
BspFNI	CGCG	2 cut(s)	387, 661
BspLI	GGNNCC	1 cut(s)	359
BspMI	ACCTGC	1 cut(s)	370
BspPI	GGATC	4 cut(s)	27, 70, 404, 496
BspQI	GCTCTTC	1 cut(s)	135
BspTNI	GGTCTC	1 cut(s)	623
BsrDI	GCAATG	1 cut(s)	359
BsrI	ACTGG	2 cut(s)	490, 509
BssECI	CCNNGG	3 cut(s)	361, 659, 701
BssMI	GATC	6 cut(s)	19, 62, 304, 409, 488, 673
BssSI	CACGAG	1 cut(s)	165
Bst2BI	CACGAG	1 cut(s)	165
Bst2UI	CCWGG	2 cut(s)	60, 414
Bst4CI	ACNGT	3 cut(s)	106, 605, 705
Bst6I	CTCTTC	1 cut(s)	135
BstC8I	GCNNGC	1 cut(s)	620
BstDEI	CTNAG	2 cut(s)	264, 459
BstDSI	CCRYGG	2 cut(s)	659, 701
BstF5I	GGATG	1 cut(s)	274
BstFNI	CGCG	2 cut(s)	387, 661
BstKTI	GATC	6 cut(s)	22, 65, 307, 412, 491, 676
BstMAI	GTCTC	1 cut(s)	623
BstMBI	GATC	6 cut(s)	19, 62, 304, 409, 488, 673
BstMWI	GCNNNNNNNGC	1 cut(s)	92
BstNI	CCWGG	2 cut(s)	60, 414
BstSCI	CCNGG	2 cut(s)	58, 412
BstUI	CGCG	2 cut(s)	387, 661
BsuRI	GGCC	1 cut(s)	360
BtgI	CCRYGG	2 cut(s)	659, 701
BtgZI	GCGATG	1 cut(s)	402
BtsCI	GGATG	1 cut(s)	274
BtuMI	TCGCGA	1 cut(s)	387
BveI	ACCTGC	1 cut(s)	370
Cac8I	GCNNGC	1 cut(s)	620
Cfr13I	GGNCC	1 cut(s)	358
Cfr42I	CCGCGG	1 cut(s)	662
Csp6I	GTAC	2 cut(s)	399, 483
CviAII	CATG	3 cut(s)	514, 557, 575
CviJI	RGCY	9 cut(s)	5, 26, 31, 157, 198, 228, 360, 458, 622
CviKI_1	RGCY	9 cut(s)	5, 26, 31, 157, 198, 228, 360, 458, 622
CviQI	GTAC	2 cut(s)	399, 483
DdeI	CTNAG	2 cut(s)	264, 459
DpnI	GATC	6 cut(s)	21, 64, 306, 411, 490, 675
DpnII	GATC	6 cut(s)	19, 62, 304, 409, 488, 673
Eam1104I	CTCTTC	1 cut(s)	135
EarI	CTCTTC	1 cut(s)	135
Eco31I	GGTCTC	1 cut(s)	623
Eco88I	CYCGRG	1 cut(s)	252
EcoRII	CCWGG	2 cut(s)	58, 412
FaeI	CATG	3 cut(s)	517, 560, 578
FalI	AAGNNNNNCTT	2 cut(s)	15, 47
FaqI	GGGAC	1 cut(s)	304
FatI	CATG	3 cut(s)	513, 556, 574
FauI	CCCGC	1 cut(s)	281
FauNDI	CATATG	1 cut(s)	625
FblI	GTMKAC	1 cut(s)	535
Fnu4HI	GCNGC	1 cut(s)	755
FokI	GGATG	1 cut(s)	281
Fsp4HI	GCNGC	1 cut(s)	755
FspBI	CTAG	1 cut(s)	684
GluI	GCNGC	1 cut(s)	755
GsuI	CTGGAG	2 cut(s)	192, 492
HaeIII	GGCC	1 cut(s)	360
HapII	CCGG	1 cut(s)	689
Hin1II	CATG	3 cut(s)	517, 560, 578
HindIII	AAGCTT	1 cut(s)	29
HinfI	GANTC	3 cut(s)	336, 680, 722
HpaII	CCGG	1 cut(s)	689
HphI	GGTGA	1 cut(s)	731
Hpy166II	GTNNAC	1 cut(s)	536
Hpy188I	TCNGA	4 cut(s)	462, 594, 673, 727
Hpy188III	TCNNGA	8 cut(s)	44, 252, 254, 299, 386, 677, 684, 710
Hpy8I	GTNNAC	1 cut(s)	536
HpyAV	CCTTC	2 cut(s)	338, 342
HpyCH4III	ACNGT	3 cut(s)	106, 605, 705
HpyF10VI	GCNNNNNNNGC	1 cut(s)	92
HpyF3I	CTNAG	2 cut(s)	264, 459
Hsp92II	CATG	3 cut(s)	517, 560, 578
KspI	CCGCGG	1 cut(s)	662
Kzo9I	GATC	6 cut(s)	19, 62, 304, 409, 488, 673
LguI	GCTCTTC	1 cut(s)	135
LweI	GCATC	2 cut(s)	104, 259
MaeI	CTAG	1 cut(s)	684
MaeIII	GTNAC	1 cut(s)	719
MalI	GATC	6 cut(s)	21, 64, 306, 411, 490, 675
MboI	GATC	6 cut(s)	19, 62, 304, 409, 488, 673
MboII	GAAGA	7 cut(s)	63, 152, 196, 269, 676, 749, 752
MluCI	AATT	5 cut(s)	74, 177, 189, 434, 649
MlyI	GAGTC	2 cut(s)	674, 716
MmeI	TCCRAC	1 cut(s)	432
MnlI	CCTC	9 cut(s)	64, 259, 356, 516, 531, 534, 539, 643, 727
MseI	TTAA	2 cut(s)	180, 763
MslI	CAYNNNNRTG	2 cut(s)	573, 606
MspA1I	CMGCKG	1 cut(s)	661
MspI	CCGG	1 cut(s)	689
MspR9I	CCNGG	2 cut(s)	60, 414
MvaI	CCWGG	2 cut(s)	60, 414
MvnI	CGCG	2 cut(s)	387, 661
MwoI	GCNNNNNNNGC	1 cut(s)	92
NdeI	CATATG	1 cut(s)	625
NdeII	GATC	6 cut(s)	19, 62, 304, 409, 488, 673
NlaIII	CATG	3 cut(s)	517, 560, 578
NlaIV	GGNNCC	1 cut(s)	359
NmeAIII	GCCGAG	1 cut(s)	386
NmuCI	GTSAC	1 cut(s)	719
NruI	TCGCGA	1 cut(s)	387
PaeR7I	CTCGAG	1 cut(s)	252
PciSI	GCTCTTC	1 cut(s)	135
PcsI	WCGNNNNNNNCGW	1 cut(s)	313
PfeI	GAWTC	1 cut(s)	336
PfoI	TCCNGGA	1 cut(s)	58
PkrI	GCNGC	1 cut(s)	756
PleI	GAGTC	2 cut(s)	674, 716
PpsI	GAGTC	2 cut(s)	674, 716
Psp6I	CCWGG	2 cut(s)	58, 412
PspGI	CCWGG	2 cut(s)	58, 412
PspN4I	GGNNCC	1 cut(s)	359
PspPI	GGNCC	1 cut(s)	358
RruI	TCGCGA	1 cut(s)	387
RsaI	GTAC	2 cut(s)	400, 484
RsaNI	GTAC	2 cut(s)	399, 483
RseI	CAYNNNNRTG	2 cut(s)	573, 606
SacII	CCGCGG	1 cut(s)	662
SapI	GCTCTTC	1 cut(s)	135
SaqAI	TTAA	2 cut(s)	180, 763
SatI	GCNGC	1 cut(s)	755
Sau3AI	GATC	6 cut(s)	19, 62, 304, 409, 488, 673
Sau96I	GGNCC	1 cut(s)	358
SchI	GAGTC	2 cut(s)	674, 716
ScrFI	CCNGG	2 cut(s)	60, 414
SetI	ASST	8 cut(s)	33, 159, 384, 418, 460, 523, 635, 763
SfaNI	GCATC	2 cut(s)	104, 259
Sfr274I	CTCGAG	1 cut(s)	252
Sfr303I	CCGCGG	1 cut(s)	662
SgrBI	CCGCGG	1 cut(s)	662
SlaI	CTCGAG	1 cut(s)	252
SmiMI	CAYNNNNRTG	2 cut(s)	573, 606
SmlI	CTYRAG	1 cut(s)	252
SmoI	CTYRAG	1 cut(s)	252
Sse9I	AATT	5 cut(s)	74, 177, 189, 434, 649
SsiI	CCGC	6 cut(s)	288, 561, 616, 659, 661, 754
SspMI	CTAG	1 cut(s)	684
StyD4I	CCNGG	2 cut(s)	58, 412
TaaI	ACNGT	3 cut(s)	106, 605, 705
TaqI	TCGA	1 cut(s)	253
TasI	AATT	5 cut(s)	74, 177, 189, 434, 649
TauI	GCSGC	1 cut(s)	757
TfiI	GAWTC	1 cut(s)	336
Tru1I	TTAA	2 cut(s)	180, 763
Tru9I	TTAA	2 cut(s)	180, 763
TseFI	GTSAC	1 cut(s)	719
Tsp45I	GTSAC	1 cut(s)	719
TspDTI	ATGAA	3 cut(s)	405, 578, 669
XapI	RAATTY	1 cut(s)	74
XbaI	TCTAGA	1 cut(s)	683
XhoI	CTCGAG	1 cut(s)	252
XmiI	GTMKAC	1 cut(s)	535
XspI	CTAG	1 cut(s)	684

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