Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0000747

Physical Location & Seq

Genomic Coordinates Forward (+)

47497468 .. 47503167

Gene Structure 5700 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG330300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 687 bp

ATGCAGCAGCTCCAGACGAGAACTGTCCAAGTAAAGCAACTATCAGATCTAGCCAGCGAGAGAGAGATTCACGAGTTCTTCTCCTTTTCTGGAGAGATCGAACGCATTCAGATCCAACGTGATCCTGCACAATCAAAGACTGCATTTGTTACTTTCAAGGATGCCAAAGCTCTTGAAATCGCACTCTTGTTATCGGGAGCAACAATGGTTGATCAGATTGTGACTATATCTCCTGTTGAAAATTATGTGCCAATCAATGAGATGCCGGAAGTAAGATTGGTGGAAGGTGCTGATTGTGCTGCCCCTGCTGAAAGTGTTTCACCAAATGCTGAGGATAAAGATGGCTCTCCTAACAACGGAAGGGTGTACGTAAATAGAGCTCAAGATGTAGTGTCTAGTATGTTTGCAAAAGGTTCAGCAATTGGACAAGATGCCGTGAACAAGGCTAAAGCATTTGATGAAAAGCATCGGTTGAGAGCAAGTGCATCTGAGAAAGTAACTTCCTTTGACAAGAGAGTGGGGCTCACAGAGAAATTGACAGTAGGCCTTTCAGTGGTTAACGAGAAAGTGAAGTCTGTTGATCAAAGACTTCAGGTCTCAGATAAAACAATGGCAGCAATATTTGCAGCAGAGAGAAAATTAAATGATACTGGATCAGCTGTCAAAACAAGCAGGTATGTGATATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

228

Amino Acids

24.95

Weight (kDa)

6.2

Isoelectric Point (pI)

35.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	11 - 66	6.2e-06	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: OG0000747)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G32450
fragaria_vesca	FvH4_1g25684 FvH4_1g28380 FvH4_1g28380 FvH4_1g28380 FvH4_1g28380 FvH4_1g28380 FvH4_1g28380 FvH4_1g28380 FvH4_1g28380 FvH4_1g28380 FvH4_1g28380
malus_domestica	MD11G1185100.v1.1 MD12G1007200.v1.1
prunus_persica	Prupe.7G008000_v2.0.a1 Prupe.7G008000_v2.0.a1 Prupe.7G008000_v2.0.a1 Prupe.7G008000_v2.0.a1
pyrus_communis	pycom01g08160 pycom07g12190
rosa_chinensis	RchiOBHm_Chr1g0313801 RchiOBHm_Chr1g0341411 RchiOBHm_Chr1g0378871 RchiOBHm_Chr3g0496611 RchiOBHm_Chr5g0046611 RchiOBHm_Chr5g0076531 RchiOBHm_Chr5g0077261 RchiOBHm_Chr6g0266381 RchiOBHm_Chr7g0210931
rosa_laevigata	RLG00000002209 RLG00000022514 RLG00000030654 RLG00000033625
rosa_multiflora	Rmu_sc0001647.1_g000010 Rmu_sc0005010.1_g000006 Rmu_ssc0000022.1_g000017 Rmu_ssc0000197.1_g000039
rosa_roxburghii	Rroxscaffold_2G00110930 Rroxscaffold_4G00321400 Rroxscaffold_5G00373640 Rroxscaffold_6G00388880 Rroxscaffold_6G00389360
rosa_rugosa	Rorug01G0251700 Rorug02G0202500 Rorug02G0268400 Rorug03G0284900 Rorug03G0340100 Rorug04G0449700 Rorug05G0292200 Rorug05G0366600 Rorug06G0053700
rosa_samantha	Rh1AG006600 Rh2BG556400 Rh2CG526400 Rh2CG526500 Rh3AG330300 Rh3BG366000 Rh3DG366200 Rh4AG014800 Rh4AG117300 Rh5AG194500 Rh5BG318800 Rh6BG260800 Rh7AG255200 Rh7CG271800
rosa_wichuraiana	Rw1G012940 Rw2G020140 Rw2G026630 Rw3G028910 Rw5G031890 Rw7G031070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	663
AclWI	GGATC	3 cut(s)	106, 116, 661
AcuI	CTGAAG	1 cut(s)	575
AfaI	GTAC	1 cut(s)	368
AfiI	CCNNNNNNNGG	2 cut(s)	356, 553
AgsI	TTSAA	3 cut(s)	157, 176, 239
AhdI	GACNNNNNGTC	1 cut(s)	593
AluBI	AGCT	4 cut(s)	10, 170, 380, 659
AluI	AGCT	4 cut(s)	10, 170, 380, 659
Alw21I	GWGCWC	1 cut(s)	382
Alw26I	GTCTC	1 cut(s)	601
AlwI	GGATC	3 cut(s)	106, 116, 661
AoxI	GGCC	1 cut(s)	544
ApeKI	GCWGC	5 cut(s)	4, 7, 299, 614, 626
Asp700I	GAANNNNTTC	1 cut(s)	105
AsuHPI	GGTGA	1 cut(s)	312
BanII	GRGCYC	2 cut(s)	382, 525
BauI	CACGAG	1 cut(s)	71
Bbv12I	GWGCWC	1 cut(s)	382
BbvCI	CCTCAGC	1 cut(s)	330
BbvI	GCAGC	5 cut(s)	16, 19, 286, 626, 638
BccI	CCATC	1 cut(s)	335
BceAI	ACGGC	1 cut(s)	419
BclI	TGATCA	2 cut(s)	211, 580
BcoDI	GTCTC	1 cut(s)	601
BfaI	CTAG	2 cut(s)	50, 396
BfuAI	ACCTGC	1 cut(s)	663
BglII	AGATCT	1 cut(s)	46
BisI	GCNGC	5 cut(s)	5, 8, 300, 615, 627
BlsI	GCNGC	5 cut(s)	6, 9, 301, 616, 628
BmeRI	GACNNNNNGTC	1 cut(s)	593
BmsI	GCATC	5 cut(s)	151, 252, 421, 475, 494
BplI	GAGNNNNNCTC	4 cut(s)	65, 97, 507, 539
BpmI	CTGGAG	1 cut(s)	111
Bpu10I	CCTNAGC	1 cut(s)	330
BpuEI	CTTGAG	1 cut(s)	366
BsaAI	YACGTR	1 cut(s)	370
BsaI	GGTCTC	1 cut(s)	601
BsaXI	ACNNNNNCTCC	2 cut(s)	214, 244
Bsc4I	CCNNNNNNNGG	2 cut(s)	356, 553
Bse1I	ACTGG	1 cut(s)	655
BseGI	GGATG	1 cut(s)	166
BseLI	CCNNNNNNNGG	2 cut(s)	356, 553
BseMII	CTCAG	3 cut(s)	321, 480, 612
BseNI	ACTGG	1 cut(s)	655
BseXI	GCAGC	5 cut(s)	16, 19, 286, 626, 638
BsgI	GTGCAG	1 cut(s)	111
BshFI	GGCC	1 cut(s)	546
BsiHKAI	GWGCWC	1 cut(s)	382
BsiSI	CCGG	1 cut(s)	266
BslI	CCNNNNNNNGG	2 cut(s)	356, 553
BsmAI	GTCTC	1 cut(s)	601
BsmI	GAATGC	1 cut(s)	105
BsnI	GGCC	1 cut(s)	546
Bso31I	GGTCTC	1 cut(s)	601
Bsp1286I	GDGCHC	2 cut(s)	382, 525
Bsp143I	GATC	7 cut(s)	46, 96, 111, 121, 211, 580, 653
BspANI	GGCC	1 cut(s)	546
BspCNI	CTCAG	3 cut(s)	322, 481, 611
BspMI	ACCTGC	1 cut(s)	663
BspPI	GGATC	3 cut(s)	106, 116, 661
BspTNI	GGTCTC	1 cut(s)	601
BsrI	ACTGG	1 cut(s)	655
BssMI	GATC	7 cut(s)	46, 96, 111, 121, 211, 580, 653
BssSI	CACGAG	1 cut(s)	71
Bst2BI	CACGAG	1 cut(s)	71
Bst4CI	ACNGT	2 cut(s)	25, 541
BstAPI	GCANNNNNTGC	1 cut(s)	623
BstBAI	YACGTR	1 cut(s)	370
BstC8I	GCNNGC	1 cut(s)	55
BstDEI	CTNAG	3 cut(s)	330, 489, 598
BstF5I	GGATG	1 cut(s)	166
BstKTI	GATC	7 cut(s)	49, 99, 114, 124, 214, 583, 656
BstMAI	GTCTC	1 cut(s)	601
BstMBI	GATC	7 cut(s)	46, 96, 111, 121, 211, 580, 653
BstMWI	GCNNNNNNNGC	3 cut(s)	296, 305, 623
BstSNI	TACGTA	1 cut(s)	370
BstV1I	GCAGC	5 cut(s)	16, 19, 286, 626, 638
BstX2I	RGATCY	2 cut(s)	46, 111
BstYI	RGATCY	2 cut(s)	46, 111
BsuRI	GGCC	1 cut(s)	546
BtsCI	GGATG	1 cut(s)	166
BtsIMutI	CAGTG	1 cut(s)	558
BveI	ACCTGC	1 cut(s)	663
Cac8I	GCNNGC	1 cut(s)	55
Csp6I	GTAC	1 cut(s)	367
CviJI	RGCY	9 cut(s)	10, 53, 170, 345, 380, 446, 523, 546, 659
CviKI_1	RGCY	9 cut(s)	10, 53, 170, 345, 380, 446, 523, 546, 659
CviQI	GTAC	1 cut(s)	367
DdeI	CTNAG	3 cut(s)	330, 489, 598
DpnI	GATC	7 cut(s)	48, 98, 113, 123, 213, 582, 655
DpnII	GATC	7 cut(s)	46, 96, 111, 121, 211, 580, 653
DriI	GACNNNNNGTC	1 cut(s)	593
Eam1105I	GACNNNNNGTC	1 cut(s)	593
Ecl136II	GAGCTC	1 cut(s)	380
Eco105I	TACGTA	1 cut(s)	370
Eco147I	AGGCCT	1 cut(s)	546
Eco24I	GRGCYC	2 cut(s)	382, 525
Eco31I	GGTCTC	1 cut(s)	601
Eco53kI	GAGCTC	1 cut(s)	380
Eco57I	CTGAAG	1 cut(s)	575
EcoICRI	GAGCTC	1 cut(s)	380
EcoT38I	GRGCYC	2 cut(s)	382, 525
FaiI	YATR	5 cut(s)	227, 246, 401, 678, 685
FbaI	TGATCA	2 cut(s)	211, 580
Fnu4HI	GCNGC	5 cut(s)	5, 8, 300, 615, 627
FokI	GGATG	1 cut(s)	173
FriOI	GRGCYC	2 cut(s)	382, 525
Fsp4HI	GCNGC	5 cut(s)	5, 8, 300, 615, 627
FspBI	CTAG	2 cut(s)	50, 396
GluI	GCNGC	5 cut(s)	5, 8, 300, 615, 627
GsuI	CTGGAG	1 cut(s)	111
HaeIII	GGCC	1 cut(s)	546
HapII	CCGG	1 cut(s)	266
HincII	GTYRAC	1 cut(s)	559
HindII	GTYRAC	1 cut(s)	559
HinfI	GANTC	1 cut(s)	67
HpaI	GTTAAC	1 cut(s)	559
HpaII	CCGG	1 cut(s)	266
HphI	GGTGA	1 cut(s)	312
Hpy166II	GTNNAC	3 cut(s)	367, 439, 559
Hpy188I	TCNGA	5 cut(s)	46, 111, 216, 490, 601
Hpy188III	TCNNGA	6 cut(s)	13, 71, 90, 173, 195, 383
Hpy8I	GTNNAC	3 cut(s)	367, 439, 559
HpyAV	CCTTC	2 cut(s)	278, 354
HpyCH4III	ACNGT	2 cut(s)	25, 541
HpyCH4IV	ACGT	2 cut(s)	118, 369
HpyCH4V	TGCA	6 cut(s)	4, 128, 143, 407, 485, 626
HpyF10VI	GCNNNNNNNGC	3 cut(s)	296, 305, 623
HpyF3I	CTNAG	3 cut(s)	330, 489, 598
HpySE526I	ACGT	2 cut(s)	118, 369
Ksp22I	TGATCA	2 cut(s)	211, 580
KspAI	GTTAAC	1 cut(s)	559
Kzo9I	GATC	7 cut(s)	46, 96, 111, 121, 211, 580, 653
LmnI	GCTCC	2 cut(s)	15, 197
Lsp1109I	GCAGC	5 cut(s)	16, 19, 286, 626, 638
LweI	GCATC	5 cut(s)	151, 252, 421, 475, 494
MaeI	CTAG	2 cut(s)	50, 396
MaeII	ACGT	2 cut(s)	118, 369
MaeIII	GTNAC	3 cut(s)	148, 220, 496
MalI	GATC	7 cut(s)	48, 98, 113, 123, 213, 582, 655
MboI	GATC	7 cut(s)	46, 96, 111, 121, 211, 580, 653
MboII	GAAGA	1 cut(s)	70
MfeI	CAATTG	1 cut(s)	420
MflI	RGATCY	2 cut(s)	46, 111
MhlI	GDGCHC	2 cut(s)	382, 525
MluCI	AATT	4 cut(s)	241, 420, 533, 638
MmeI	TCCRAC	1 cut(s)	139
MnlI	CCTC	1 cut(s)	325
MroXI	GAANNNNTTC	1 cut(s)	105
MseI	TTAA	2 cut(s)	558, 641
MspA1I	CMGCKG	1 cut(s)	659
MspI	CCGG	1 cut(s)	266
MunI	CAATTG	1 cut(s)	420
Mva1269I	GAATGC	1 cut(s)	105
MwoI	GCNNNNNNNGC	3 cut(s)	296, 305, 623
NdeII	GATC	7 cut(s)	46, 96, 111, 121, 211, 580, 653
NmuCI	GTSAC	1 cut(s)	220
PceI	AGGCCT	1 cut(s)	546
PctI	GAATGC	1 cut(s)	105
PdmI	GAANNNNTTC	1 cut(s)	105
PfeI	GAWTC	1 cut(s)	67
PkrI	GCNGC	5 cut(s)	6, 9, 301, 616, 628
Ppu21I	YACGTR	1 cut(s)	370
Psp124BI	GAGCTC	1 cut(s)	382
PsuI	RGATCY	2 cut(s)	46, 111
PvuII	CAGCTG	1 cut(s)	659
RsaI	GTAC	1 cut(s)	368
RsaNI	GTAC	1 cut(s)	367
SacI	GAGCTC	1 cut(s)	382
SaqAI	TTAA	2 cut(s)	558, 641
SatI	GCNGC	5 cut(s)	5, 8, 300, 615, 627
Sau3AI	GATC	7 cut(s)	46, 96, 111, 121, 211, 580, 653
SduI	GDGCHC	2 cut(s)	382, 525
SfaNI	GCATC	5 cut(s)	151, 252, 421, 475, 494
SmlI	CTYRAG	1 cut(s)	381
SmoI	CTYRAG	1 cut(s)	381
SnaBI	TACGTA	1 cut(s)	370
Sse9I	AATT	4 cut(s)	241, 420, 533, 638
SseBI	AGGCCT	1 cut(s)	546
SspI	AATATT	1 cut(s)	621
SspMI	CTAG	2 cut(s)	50, 396
SstI	GAGCTC	1 cut(s)	382
StuI	AGGCCT	1 cut(s)	546
TaaI	ACNGT	2 cut(s)	25, 541
TaiI	ACGT	2 cut(s)	121, 372
TaqI	TCGA	1 cut(s)	99
TasI	AATT	4 cut(s)	241, 420, 533, 638
TfiI	GAWTC	1 cut(s)	67
Tru1I	TTAA	2 cut(s)	558, 641
Tru9I	TTAA	2 cut(s)	558, 641
TscAI	CASTG	1 cut(s)	558
TseFI	GTSAC	1 cut(s)	220
TseI	GCWGC	5 cut(s)	4, 7, 299, 614, 626
Tsp45I	GTSAC	1 cut(s)	220
TspDTI	ATGAA	1 cut(s)	474
TspGWI	ACGGA	1 cut(s)	372
TspRI	CASTG	1 cut(s)	558
XmnI	GAANNNNTTC	1 cut(s)	105
XspI	CTAG	2 cut(s)	50, 396

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