Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0000929

Physical Location & Seq

Genomic Coordinates Reverse (-)

20791115 .. 20791996

Gene Structure 882 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG123100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGGGGTCTTTGGAGCCTCCGGAGGACGAAAGCATTCGGACTTTGTATGTGGGGGGTGTGGTTGATGGGAGAGTTTCGGAGCAGGACTTGAGGGATTGCTTTTGGGTTCATGGCGATATCGAATCGATTAGGGTGGTGGGGCAAAGAGGATGTGCTTTTGTGACTTATGTAACGAGAGAAGGTGCGGAGAAGGCTGCGGAGGAACTTTGTAATAAGCTGGTGGTGAAGGGTTTGAGACTGAAGTTGGCATGGGGTAGACCTCAGGTGCCGCGAATGCAGGATGAGGGAGCTAGTAGGCAGCCGGAGTGGGTGGTTGCCTCAAGGAGGCGTGCCCCAAAGAGACCAATGTGCAGTACAACAATACTACTACATGCCGCCGCCACCTTCGCAAGGGGGAACAACATTTTATCCATCAATGGATCCTCAAAGAATGGGCGCCCTTGTTGGTCGGACTTAATGGTGAGTAGGTTTGACAAATTATCATGGGAAAGGGATGGTTTTATATCTTGGCAAATTGAAGTATGTTGCATCCTAATTAGAGTGTATGTATTCTTCCAGATTTCAATAATTTTTTTTAATGAGAATAATAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000387 GO:0000398 GO:0000974 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008380 GO:0009605 GO:0009607 GO:0009617 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0017069 GO:0017070 GO:0022607 GO:0022613 GO:0022618 GO:0032991 GO:0034622 GO:0034641 GO:0036002 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0050896 GO:0051704 GO:0051707 GO:0065003 GO:0071006 GO:0071007 GO:0071012 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:0098542 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1 Torus

Protein Analysis

197

Amino Acids

22.34

Weight (kDa)

8.51

Isoelectric Point (pI)

43.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	15 - 72	2.7e-09	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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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000929)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07360 AT2G29580 AT5G04210 AT5G07060 AT5G07060
fragaria_vesca	FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g11590 FvH4_4g36530 FvH4_4g36530 FvH4_7g07370
malus_domestica	MD01G1110000.v1.1 MD07G1175800.v1.1 MD16G1006600.v1.1
prunus_persica	Prupe.2G214800_v2.0.a1 Prupe.8G143100_v2.0.a1 Prupe.8G143100_v2.0.a1 Prupe.8G143100_v2.0.a1
pyrus_communis	pycom01g13690 pycom07g17000 pycom16g00630
rosa_chinensis	RchiOBHm_Chr1g0337351 RchiOBHm_Chr4g0408701 RchiOBHm_Chr4g0446281
rosa_laevigata	RLG00000005673 RLG00000008640 RLG00000029280 RLG00000029283
rosa_multiflora	Rmu_co8341103.1_g000001 Rmu_co8350441.1_g000001 Rmu_co8408813.1_g000001 Rmu_co8519167.1_g000003 Rmu_co8522047.1_g000002 Rmu_sc0002266.1_g000007 Rmu_sc0003060.1_g000002 Rmu_sc0005878.1_g000023 Rmu_sc0021927.1_g000001
rosa_roxburghii	Rroxscaffold_4G00314450 Rroxscaffold_4G00314490 Rroxscaffold_5G00353060 Rroxscaffold_5G00386720
rosa_rugosa	Rorug01G0134600.1 Rorug01G0134800.1 Rorug04G0086900 Rorug04G0369600 Rorug04G0369600
rosa_samantha	Rh1AG153600 Rh1BG122900 Rh1BG123100 Rh1CG144600 Rh1DG161300 Rh1DG161500 Rh4AG431500 Rh4BG148400 Rh4BG440900 Rh4CG159100 Rh4CG458200 Rh4DG144000 Rh4DG439400
rosa_wichuraiana	Rw1G012580 Rw4G012370 Rw4G036850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	265, 435
AccI	GTMKAC	1 cut(s)	256
AccII	CGCG	1 cut(s)	271
AccIII	TCCGGA	1 cut(s)	19
AciI	CCGC	5 cut(s)	185, 197, 269, 375, 378
AclWI	GGATC	2 cut(s)	414, 427
AcuI	CTGAAG	1 cut(s)	260
AcyI	GRCGYC	1 cut(s)	436
AfaI	GTAC	1 cut(s)	355
AfiI	CCNNNNNNNGG	2 cut(s)	324, 390
AgsI	TTSAA	2 cut(s)	518, 564
AluBI	AGCT	2 cut(s)	217, 290
AluI	AGCT	2 cut(s)	217, 290
Alw26I	GTCTC	2 cut(s)	229, 334
AlwI	GGATC	2 cut(s)	414, 427
Aor13HI	TCCGGA	1 cut(s)	19
ApeKI	GCWGC	2 cut(s)	194, 298
Asp700I	GAANNNNTTC	1 cut(s)	33
AspLEI	GCGC	1 cut(s)	438
AsuHPI	GGTGA	2 cut(s)	235, 472
AxyI	CCTNAGG	1 cut(s)	261
BaeGI	GKGCMC	1 cut(s)	334
BamHI	GGATCC	1 cut(s)	419
BanI	GGYRCC	2 cut(s)	265, 435
BarI	GAAGNNNNNNTAC	2 cut(s)	536, 568
BbvI	GCAGC	2 cut(s)	181, 310
BccI	CCATC	3 cut(s)	59, 419, 488
BcoDI	GTCTC	2 cut(s)	229, 334
BfaI	CTAG	1 cut(s)	291
BfoI	RGCGCY	1 cut(s)	439
BisI	GCNGC	5 cut(s)	195, 269, 299, 375, 378
BlsI	GCNGC	5 cut(s)	196, 270, 300, 376, 379
BmiI	GGNNCC	4 cut(s)	15, 267, 421, 437
BmsI	GCATC	1 cut(s)	537
BpuEI	CTTGAG	2 cut(s)	109, 304
Bsa29I	ATCGAT	1 cut(s)	125
BsaHI	GRCGYC	1 cut(s)	436
BsaI	GGTCTC	1 cut(s)	334
BsaWI	WCCGGW	1 cut(s)	19
Bsc4I	CCNNNNNNNGG	2 cut(s)	324, 390
Bse21I	CCTNAGG	1 cut(s)	261
BseAI	TCCGGA	1 cut(s)	19
BseCI	ATCGAT	1 cut(s)	125
BseGI	GGATG	4 cut(s)	155, 286, 499, 528
BseLI	CCNNNNNNNGG	2 cut(s)	324, 390
BseMII	CTCAG	1 cut(s)	275
BseSI	GKGCMC	1 cut(s)	334
BseXI	GCAGC	2 cut(s)	181, 310
BsgI	GTGCAG	1 cut(s)	370
Bsh1236I	CGCG	1 cut(s)	271
BshNI	GGYRCC	2 cut(s)	265, 435
BshVI	ATCGAT	1 cut(s)	125
BsiSI	CCGG	2 cut(s)	20, 302
BslI	CCNNNNNNNGG	2 cut(s)	324, 390
BsmAI	GTCTC	2 cut(s)	229, 334
BsmI	GAATGC	2 cut(s)	33, 279
Bso31I	GGTCTC	1 cut(s)	334
Bsp1286I	GDGCHC	1 cut(s)	334
Bsp13I	TCCGGA	1 cut(s)	19
Bsp143I	GATC	1 cut(s)	419
BspACI	CCGC	5 cut(s)	185, 197, 269, 375, 378
BspCNI	CTCAG	1 cut(s)	274
BspDI	ATCGAT	1 cut(s)	125
BspEI	TCCGGA	1 cut(s)	19
BspFNI	CGCG	1 cut(s)	271
BspLI	GGNNCC	4 cut(s)	15, 267, 421, 437
BspPI	GGATC	2 cut(s)	414, 427
BspT107I	GGYRCC	2 cut(s)	265, 435
BspTNI	GGTCTC	1 cut(s)	334
BssMI	GATC	1 cut(s)	419
BssNI	GRCGYC	1 cut(s)	436
BstACI	GRCGYC	1 cut(s)	436
BstC8I	GCNNGC	1 cut(s)	330
BstDEI	CTNAG	1 cut(s)	261
BstENI	CCTNNNNNAGG	2 cut(s)	322, 388
BstF5I	GGATG	4 cut(s)	155, 286, 499, 528
BstFNI	CGCG	1 cut(s)	271
BstH2I	RGCGCY	1 cut(s)	439
BstHHI	GCGC	1 cut(s)	438
BstKTI	GATC	1 cut(s)	422
BstMAI	GTCTC	2 cut(s)	229, 334
BstMBI	GATC	1 cut(s)	419
BstMWI	GCNNNNNNNGC	3 cut(s)	191, 274, 386
BstNSI	RCATGY	1 cut(s)	374
BstSLI	GKGCMC	1 cut(s)	334
BstUI	CGCG	1 cut(s)	271
BstV1I	GCAGC	2 cut(s)	181, 310
BstX2I	RGATCY	1 cut(s)	419
BstYI	RGATCY	1 cut(s)	419
Bsu15I	ATCGAT	1 cut(s)	125
Bsu36I	CCTNAGG	1 cut(s)	261
BsuTUI	ATCGAT	1 cut(s)	125
BtsCI	GGATG	4 cut(s)	155, 286, 499, 528
Cac8I	GCNNGC	1 cut(s)	330
CfoI	GCGC	1 cut(s)	438
ClaI	ATCGAT	1 cut(s)	125
Csp6I	GTAC	1 cut(s)	354
CviAII	CATG	4 cut(s)	110, 249, 371, 483
CviJI	RGCY	5 cut(s)	16, 194, 217, 290, 301
CviKI_1	RGCY	5 cut(s)	16, 194, 217, 290, 301
CviQI	GTAC	1 cut(s)	354
DdeI	CTNAG	1 cut(s)	261
DinI	GGCGCC	1 cut(s)	437
DpnI	GATC	1 cut(s)	421
DpnII	GATC	1 cut(s)	419
Eco31I	GGTCTC	1 cut(s)	334
Eco32I	GATATC	1 cut(s)	118
Eco57I	CTGAAG	1 cut(s)	260
Eco81I	CCTNAGG	1 cut(s)	261
EcoNI	CCTNNNNNAGG	2 cut(s)	322, 388
EcoRV	GATATC	1 cut(s)	118
EgeI	GGCGCC	1 cut(s)	437
EheI	GGCGCC	1 cut(s)	437
FaeI	CATG	4 cut(s)	113, 252, 374, 486
FaiI	YATR	9 cut(s)	48, 111, 168, 250, 372, 484, 503, 523, 546
FatI	CATG	4 cut(s)	109, 248, 370, 482
FblI	GTMKAC	1 cut(s)	256
Fnu4HI	GCNGC	5 cut(s)	195, 269, 299, 375, 378
FokI	GGATG	4 cut(s)	162, 293, 506, 515
Fsp4HI	GCNGC	5 cut(s)	195, 269, 299, 375, 378
FspBI	CTAG	1 cut(s)	291
GlaI	GCGC	1 cut(s)	437
GluI	GCNGC	5 cut(s)	195, 269, 299, 375, 378
HaeII	RGCGCY	1 cut(s)	439
HapII	CCGG	2 cut(s)	20, 302
HhaI	GCGC	1 cut(s)	438
Hin1I	GRCGYC	1 cut(s)	436
Hin1II	CATG	4 cut(s)	113, 252, 374, 486
Hin6I	GCGC	1 cut(s)	436
HinP1I	GCGC	1 cut(s)	436
HinfI	GANTC	1 cut(s)	122
HpaII	CCGG	2 cut(s)	20, 302
HphI	GGTGA	2 cut(s)	235, 472
Hpy166II	GTNNAC	1 cut(s)	257
Hpy188I	TCNGA	3 cut(s)	39, 79, 451
Hpy188III	TCNNGA	2 cut(s)	20, 556
Hpy8I	GTNNAC	1 cut(s)	257
HpyAV	CCTTC	4 cut(s)	173, 184, 220, 394
HpyCH4V	TGCA	3 cut(s)	277, 351, 528
HpyF10VI	GCNNNNNNNGC	3 cut(s)	191, 274, 386
HpyF3I	CTNAG	1 cut(s)	261
Hsp92I	GRCGYC	1 cut(s)	436
Hsp92II	CATG	4 cut(s)	113, 252, 374, 486
HspAI	GCGC	1 cut(s)	436
KasI	GGCGCC	1 cut(s)	435
Kpn2I	TCCGGA	1 cut(s)	19
Kzo9I	GATC	1 cut(s)	419
LmnI	GCTCC	3 cut(s)	13, 79, 287
LpnPI	CCDG	7 cut(s)	33, 68, 203, 248, 263, 315, 569
Lsp1109I	GCAGC	2 cut(s)	181, 310
LweI	GCATC	1 cut(s)	537
MaeI	CTAG	1 cut(s)	291
MaeIII	GTNAC	2 cut(s)	160, 169
MalI	GATC	1 cut(s)	421
MboI	GATC	1 cut(s)	419
MboII	GAAGA	1 cut(s)	544
MflI	RGATCY	1 cut(s)	419
MhlI	GDGCHC	1 cut(s)	334
MluCI	AATT	5 cut(s)	476, 513, 534, 567, 589
Mly113I	GGCGCC	1 cut(s)	436
MmeI	TCCRAC	1 cut(s)	429
MroI	TCCGGA	1 cut(s)	19
MroXI	GAANNNNTTC	1 cut(s)	33
MseI	TTAA	2 cut(s)	455, 576
MspI	CCGG	2 cut(s)	20, 302
Mva1269I	GAATGC	2 cut(s)	33, 279
MvnI	CGCG	1 cut(s)	271
MwoI	GCNNNNNNNGC	3 cut(s)	191, 274, 386
NarI	GGCGCC	1 cut(s)	436
NdeII	GATC	1 cut(s)	419
NlaIII	CATG	4 cut(s)	113, 252, 374, 486
NlaIV	GGNNCC	4 cut(s)	15, 267, 421, 437
NmuCI	GTSAC	1 cut(s)	160
NspI	RCATGY	1 cut(s)	374
PctI	GAATGC	2 cut(s)	33, 279
PdmI	GAANNNNTTC	1 cut(s)	33
PfeI	GAWTC	1 cut(s)	122
PkrI	GCNGC	5 cut(s)	196, 270, 300, 376, 379
PluTI	GGCGCC	1 cut(s)	439
PspN4I	GGNNCC	4 cut(s)	15, 267, 421, 437
PsuI	RGATCY	1 cut(s)	419
RsaI	GTAC	1 cut(s)	355
RsaNI	GTAC	1 cut(s)	354
SaqAI	TTAA	2 cut(s)	455, 576
SatI	GCNGC	5 cut(s)	195, 269, 299, 375, 378
Sau3AI	GATC	1 cut(s)	419
SduI	GDGCHC	1 cut(s)	334
SetI	ASST	7 cut(s)	184, 219, 262, 267, 292, 386, 470
SfaNI	GCATC	1 cut(s)	537
SfoI	GGCGCC	1 cut(s)	437
SmlI	CTYRAG	2 cut(s)	88, 319
SmoI	CTYRAG	2 cut(s)	88, 319
Sse9I	AATT	5 cut(s)	476, 513, 534, 567, 589
SsiI	CCGC	5 cut(s)	185, 197, 269, 375, 378
SspDI	GGCGCC	1 cut(s)	435
SspMI	CTAG	1 cut(s)	291
TaqI	TCGA	2 cut(s)	120, 125
TasI	AATT	5 cut(s)	476, 513, 534, 567, 589
TatI	WGTACW	1 cut(s)	353
TauI	GCSGC	3 cut(s)	271, 377, 380
TfiI	GAWTC	1 cut(s)	122
Tru1I	TTAA	2 cut(s)	455, 576
Tru9I	TTAA	2 cut(s)	455, 576
TseFI	GTSAC	1 cut(s)	160
TseI	GCWGC	2 cut(s)	194, 298
Tsp45I	GTSAC	1 cut(s)	160
TspDTI	ATGAA	1 cut(s)	98
XagI	CCTNNNNNAGG	2 cut(s)	322, 388
XceI	RCATGY	1 cut(s)	374
XmiI	GTMKAC	1 cut(s)	256
XmnI	GAANNNNTTC	1 cut(s)	33
XspI	CTAG	1 cut(s)	291

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