Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0007614

Physical Location & Seq

Genomic Coordinates Forward (+)

16063832 .. 16066973

Gene Structure 3142 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG173300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 891 bp

ATGGCGGAGCACTTGGCATCGATCTTCGGCACAGAGAAGGACAGGGTTAACTGCCCTTTCTACTTCAAGATCGGCGCCTGCCGACATGGCGACCGCTGCTCTCGCCTCCACACCAAGCCCAGCATCAGCCCCACCCTTCTCCTCTCCAACATGTACCAGCGCCCCGATATGCTCACCAACCCCGGCGTCGACCCTCAGGGCCAGGCCCTCGACCCCCGCAAGATCCAAGACAACTTCGAGGTTGGGAATGTGTACGTTCAGTTCAGGGAGGAAGAACATGCTGCCGCCGCGCTTCAGAATCTCACTGGGAGGTTCTATGCAGGGCGCCCCATCATTGTTGACTTTTCACCGGTGACCGACTTCCGTGAAGCTACTTGTAGGCAGTATGAAGAAAATGTATGCAATCGAGGTGGCTACTGCAATTTCATGCATTTAAAGAAGATTAGCAGGGAATTGAGGAGGCGATTATTTGGAAGAAACAGGCGAAGGCGGAGCCGCAGTCGCAGCAGAAGCCATAGTCCTCAAAAGCATCAGCGTGGTGGTTATCAGGAGCGTCCACACGGAGGTCGTGGTTTTGGCAGAAGAGGAGGAGATGATGAAAGAGATCGTTTCAATGATAAAAACAGGAGGCCTAGAAGCCGTAGTCCTGGTGGACGTAGAGGAAGAAGTAGAAGCCCTGTGGGGAGAAGGAATAGGAGTCCTCCAGCCAGGGAAAGCAGTGCTGAAAGAAGGGCCAAGATTGAGCAATGGAACAGGGAAAAGGAACAGGTTGATTCTGGAGAAAAGCATGATAATAATAATAACAACAGCAACAATAATGATGATGAATGGAATGGTGATAATAATAGTGATCAGTACTACGATCCTCAGCAGCAGCAGCAACAGCAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009314 GO:0009416 GO:0009628 GO:0009648 GO:0009791 GO:0009987 GO:0010228 GO:0010467 GO:0016070 GO:0016071 GO:0022414 GO:0030628 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0036002 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048573 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0071704 GO:0089701 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 ko05131 map03040 map05131

Pfam Domains

Protein Families

RRM_1 zf-CCCH

Protein Analysis

296

Amino Acids

34.53

Weight (kDa)

10.15

Isoelectric Point (pI)

78.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	14 - 37	2.2e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)

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: OG0007614)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G44785
fragaria_vesca	FvH4_6g17780
malus_domestica	MD00G1150600.v1.1 MD03G1134000.v1.1 MD12G1016800.v1.1 MD12G1094300.v1.1 MD14G1014800.v1.1
prunus_persica	Prupe.7G118600_v2.0.a1
pyrus_communis	pycom03g09010 pycom12g01370 pycom14g01230
rosa_chinensis	RchiOBHm_Chr3g0472021
rosa_laevigata	RLG00000024111
rosa_multiflora	Rmu_sc0000090.1_g000034 Rmu_sc0002532.1_g000005 Rmu_sc0002532.1_g000007 Rmu_sc0002532.1_g000008
rosa_roxburghii	Rroxscaffold_6G00409320
rosa_rugosa	Rorug03G0121700
rosa_samantha	Rh3AG173300 Rh3BG198700 Rh3CG189900 Rh3CG197200
rosa_wichuraiana	Rw3G016730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	74, 324
AccI	GTMKAC	1 cut(s)	189
AccII	CGCG	1 cut(s)	290
AciI	CCGC	7 cut(s)	5, 94, 217, 285, 288, 490, 496
AclWI	GGATC	2 cut(s)	217, 857
AcuI	CTGAAG	1 cut(s)	278
AcyI	GRCGYC	3 cut(s)	75, 186, 325
AfaI	GTAC	3 cut(s)	155, 254, 857
AfiI	CCNNNNNNNGG	1 cut(s)	563
AflIII	ACRYGT	1 cut(s)	150
AgeI	ACCGGT	1 cut(s)	349
AgsI	TTSAA	2 cut(s)	67, 613
AjnI	CCWGG	3 cut(s)	201, 646, 707
AluBI	AGCT	1 cut(s)	371
AluI	AGCT	1 cut(s)	371
Alw21I	GWGCWC	1 cut(s)	12
AlwI	GGATC	2 cut(s)	217, 857
AoxI	GGCC	4 cut(s)	199, 204, 629, 732
ApeKI	GCWGC	6 cut(s)	96, 281, 504, 871, 874, 877
AsiGI	ACCGGT	1 cut(s)	349
AspLEI	GCGC	4 cut(s)	77, 162, 292, 327
AspS9I	GGNCC	3 cut(s)	199, 205, 732
AsuC2I	CCSGG	1 cut(s)	183
AsuHPI	GGTGA	4 cut(s)	166, 339, 364, 848
AxyI	CCTNAGG	1 cut(s)	195
BanI	GGYRCC	2 cut(s)	74, 324
Bbv12I	GWGCWC	1 cut(s)	12
BbvCI	CCTCAGC	1 cut(s)	867
BbvI	GCAGC	5 cut(s)	83, 268, 516, 883, 886
BccI	CCATC	1 cut(s)	338
BceAI	ACGGC	1 cut(s)	624
BciT130I	CCWGG	3 cut(s)	203, 648, 709
BclI	TGATCA	1 cut(s)	850
BcnI	CCSGG	1 cut(s)	183
BfaI	CTAG	1 cut(s)	633
BfoI	RGCGCY	3 cut(s)	78, 163, 328
BglI	GCCNNNNNGGC	1 cut(s)	87
BisI	GCNGC	9 cut(s)	97, 282, 285, 288, 496, 505, 872, 875, 878
BlsI	GCNGC	9 cut(s)	98, 283, 286, 289, 497, 506, 873, 876, 879
BmcAI	AGTACT	1 cut(s)	857
Bme1390I	CCNGG	4 cut(s)	183, 203, 648, 709
BmgT120I	GGNCC	3 cut(s)	199, 205, 732
BmiI	GGNNCC	3 cut(s)	76, 326, 494
BmrFI	CCNGG	4 cut(s)	183, 203, 648, 709
BmrI	ACTGGG	1 cut(s)	315
BmsI	GCATC	3 cut(s)	26, 132, 538
BmuI	ACTGGG	1 cut(s)	315
BpmI	CTGGAG	2 cut(s)	687, 798
Bpu10I	CCTNAGC	1 cut(s)	867
BpuMI	CCSGG	1 cut(s)	183
Bsa29I	ATCGAT	1 cut(s)	20
BsaHI	GRCGYC	3 cut(s)	75, 186, 325
BsaJI	CCNNGG	2 cut(s)	181, 708
BsaWI	WCCGGW	1 cut(s)	349
BsaXI	ACNNNNNCTCC	2 cut(s)	484, 514
Bsc4I	CCNNNNNNNGG	1 cut(s)	563
Bse118I	RCCGGY	1 cut(s)	349
Bse1I	ACTGG	1 cut(s)	310
Bse21I	CCTNAGG	1 cut(s)	195
Bse3DI	GCAATG	1 cut(s)	752
BseBI	CCWGG	3 cut(s)	203, 648, 709
BseCI	ATCGAT	1 cut(s)	20
BseDI	CCNNGG	2 cut(s)	181, 708
BseLI	CCNNNNNNNGG	1 cut(s)	563
BseMI	GCAATG	1 cut(s)	752
BseMII	CTCAG	2 cut(s)	209, 881
BseNI	ACTGG	1 cut(s)	310
BseRI	GAGGAG	4 cut(s)	131, 472, 600, 603
BseXI	GCAGC	5 cut(s)	83, 268, 516, 883, 886
BseYI	CCCAGC	1 cut(s)	119
Bsh1236I	CGCG	1 cut(s)	290
Bsh1285I	CGRYCG	1 cut(s)	94
BshFI	GGCC	4 cut(s)	201, 206, 631, 734
BshNI	GGYRCC	2 cut(s)	74, 324
BshTI	ACCGGT	1 cut(s)	349
BshVI	ATCGAT	1 cut(s)	20
BsiEI	CGRYCG	1 cut(s)	94
BsiHKAI	GWGCWC	1 cut(s)	12
BsiSI	CCGG	2 cut(s)	183, 350
BslI	CCNNNNNNNGG	1 cut(s)	563
BsnI	GGCC	4 cut(s)	201, 206, 631, 734
Bsp1286I	GDGCHC	1 cut(s)	12
Bsp143I	GATC	6 cut(s)	21, 69, 222, 604, 850, 862
BspACI	CCGC	7 cut(s)	5, 94, 217, 285, 288, 490, 496
BspANI	GGCC	4 cut(s)	201, 206, 631, 734
BspCNI	CTCAG	2 cut(s)	208, 880
BspDI	ATCGAT	1 cut(s)	20
BspFNI	CGCG	1 cut(s)	290
BspLI	GGNNCC	3 cut(s)	76, 326, 494
BspPI	GGATC	2 cut(s)	217, 857
BspT107I	GGYRCC	2 cut(s)	74, 324
BsrDI	GCAATG	1 cut(s)	752
BsrFI	RCCGGY	1 cut(s)	349
BsrI	ACTGG	1 cut(s)	310
BssAI	RCCGGY	1 cut(s)	349
BssECI	CCNNGG	2 cut(s)	181, 708
BssMI	GATC	6 cut(s)	21, 69, 222, 604, 850, 862
BssNI	GRCGYC	3 cut(s)	75, 186, 325
Bst2UI	CCWGG	3 cut(s)	203, 648, 709
Bst6I	CTCTTC	1 cut(s)	577
BstACI	GRCGYC	3 cut(s)	75, 186, 325
BstC8I	GCNNGC	1 cut(s)	79
BstDEI	CTNAG	2 cut(s)	195, 867
BstEII	GGTNACC	1 cut(s)	352
BstFNI	CGCG	1 cut(s)	290
BstH2I	RGCGCY	3 cut(s)	78, 163, 328
BstHHI	GCGC	4 cut(s)	77, 162, 292, 327
BstKTI	GATC	6 cut(s)	24, 72, 225, 607, 853, 865
BstMBI	GATC	6 cut(s)	21, 69, 222, 604, 850, 862
BstMCI	CGRYCG	1 cut(s)	94
BstMWI	GCNNNNNNNGC	9 cut(s)	87, 96, 102, 287, 501, 504, 510, 877, 883
BstNI	CCWGG	3 cut(s)	203, 648, 709
BstNSI	RCATGY	2 cut(s)	154, 281
BstPI	GGTNACC	1 cut(s)	352
BstSCI	CCNGG	4 cut(s)	181, 201, 646, 707
BstUI	CGCG	1 cut(s)	290
BstV1I	GCAGC	5 cut(s)	83, 268, 516, 883, 886
BstX2I	RGATCY	1 cut(s)	222
BstYI	RGATCY	1 cut(s)	222
Bsu15I	ATCGAT	1 cut(s)	20
Bsu36I	CCTNAGG	1 cut(s)	195
BsuRI	GGCC	4 cut(s)	201, 206, 631, 734
BsuTUI	ATCGAT	1 cut(s)	20
BtsI	GCAGTG	1 cut(s)	724
BtsIMutI	CAGTG	2 cut(s)	303, 724
Cac8I	GCNNGC	1 cut(s)	79
CfoI	GCGC	4 cut(s)	77, 162, 292, 327
Cfr10I	RCCGGY	1 cut(s)	349
Cfr13I	GGNCC	3 cut(s)	199, 205, 732
ClaI	ATCGAT	1 cut(s)	20
CseI	GACGC	2 cut(s)	175, 542
Csp6I	GTAC	3 cut(s)	154, 253, 856
CspAI	ACCGGT	1 cut(s)	349
CspCI	CAANNNNNGTGG	2 cut(s)	391, 426
CviAII	CATG	5 cut(s)	86, 151, 278, 427, 788
CviQI	GTAC	3 cut(s)	154, 253, 856
DdeI	CTNAG	2 cut(s)	195, 867
DinI	GGCGCC	2 cut(s)	76, 326
DpnI	GATC	6 cut(s)	23, 71, 224, 606, 852, 864
DpnII	GATC	6 cut(s)	21, 69, 222, 604, 850, 862
DraI	TTTAAA	1 cut(s)	435
Eam1104I	CTCTTC	1 cut(s)	577
EarI	CTCTTC	1 cut(s)	577
EciI	GGCGGA	2 cut(s)	20, 505
Eco147I	AGGCCT	1 cut(s)	631
Eco57I	CTGAAG	1 cut(s)	278
Eco81I	CCTNAGG	1 cut(s)	195
Eco91I	GGTNACC	1 cut(s)	352
EcoO109I	RGGNCCY	1 cut(s)	205
EcoO65I	GGTNACC	1 cut(s)	352
EcoRII	CCWGG	3 cut(s)	201, 646, 707
EcoT22I	ATGCAT	1 cut(s)	432
EgeI	GGCGCC	2 cut(s)	76, 326
EheI	GGCGCC	2 cut(s)	76, 326
FaeI	CATG	5 cut(s)	89, 154, 281, 430, 791
FatI	CATG	5 cut(s)	85, 150, 277, 426, 787
FauI	CCCGC	1 cut(s)	224
FbaI	TGATCA	1 cut(s)	850
FblI	GTMKAC	1 cut(s)	189
Fnu4HI	GCNGC	9 cut(s)	97, 282, 285, 288, 496, 505, 872, 875, 878
Fsp4HI	GCNGC	9 cut(s)	97, 282, 285, 288, 496, 505, 872, 875, 878
FspBI	CTAG	1 cut(s)	633
GlaI	GCGC	4 cut(s)	76, 161, 291, 326
GluI	GCNGC	9 cut(s)	97, 282, 285, 288, 496, 505, 872, 875, 878
GsaI	CCCAGC	1 cut(s)	123
GsuI	CTGGAG	2 cut(s)	687, 798
HaeII	RGCGCY	3 cut(s)	78, 163, 328
HaeIII	GGCC	4 cut(s)	201, 206, 631, 734
HapII	CCGG	2 cut(s)	183, 350
HgaI	GACGC	2 cut(s)	175, 542
HhaI	GCGC	4 cut(s)	77, 162, 292, 327
Hin1I	GRCGYC	3 cut(s)	75, 186, 325
Hin1II	CATG	5 cut(s)	89, 154, 281, 430, 791
Hin6I	GCGC	4 cut(s)	75, 160, 290, 325
HinP1I	GCGC	4 cut(s)	75, 160, 290, 325
HincII	GTYRAC	3 cut(s)	49, 190, 340
HindII	GTYRAC	3 cut(s)	49, 190, 340
HinfI	GANTC	3 cut(s)	298, 697, 773
HpaI	GTTAAC	1 cut(s)	49
HpaII	CCGG	2 cut(s)	183, 350
HphI	GGTGA	4 cut(s)	166, 339, 364, 848
Hpy166II	GTNNAC	6 cut(s)	49, 190, 253, 340, 557, 653
Hpy188I	TCNGA	1 cut(s)	297
Hpy188III	TCNNGA	3 cut(s)	67, 548, 777
Hpy8I	GTNNAC	6 cut(s)	49, 190, 253, 340, 557, 653
Hpy99I	CGWCG	1 cut(s)	191
HpyAV	CCTTC	5 cut(s)	31, 146, 480, 681, 723
HpyCH4IV	ACGT	2 cut(s)	255, 655
HpyCH4V	TGCA	4 cut(s)	320, 402, 420, 430
HpyF10VI	GCNNNNNNNGC	9 cut(s)	87, 96, 102, 287, 501, 504, 510, 877, 883
HpyF3I	CTNAG	2 cut(s)	195, 867
HpySE526I	ACGT	2 cut(s)	255, 655
Hsp92I	GRCGYC	3 cut(s)	75, 186, 325
Hsp92II	CATG	5 cut(s)	89, 154, 281, 430, 791
HspAI	GCGC	4 cut(s)	75, 160, 290, 325
KasI	GGCGCC	2 cut(s)	74, 324
Ksp22I	TGATCA	1 cut(s)	850
KspAI	GTTAAC	1 cut(s)	49
Kzo9I	GATC	6 cut(s)	21, 69, 222, 604, 850, 862
LmnI	GCTCC	3 cut(s)	7, 492, 550
Lsp1109I	GCAGC	5 cut(s)	83, 268, 516, 883, 886
LweI	GCATC	3 cut(s)	26, 132, 538
MaeI	CTAG	1 cut(s)	633
MaeII	ACGT	2 cut(s)	255, 655
MaeIII	GTNAC	1 cut(s)	352
MalI	GATC	6 cut(s)	23, 71, 224, 606, 852, 864
MboI	GATC	6 cut(s)	21, 69, 222, 604, 850, 862
MboII	GAAGA	7 cut(s)	16, 284, 401, 451, 486, 594, 675
MflI	RGATCY	1 cut(s)	222
MhlI	GDGCHC	1 cut(s)	12
MluCI	AATT	2 cut(s)	421, 452
Mly113I	GGCGCC	2 cut(s)	75, 325
MlyI	GAGTC	1 cut(s)	706
MmeI	TCCRAC	1 cut(s)	171
Mph1103I	ATGCAT	1 cut(s)	432
MseI	TTAA	2 cut(s)	48, 434
MslI	CAYNNNNRTG	1 cut(s)	534
MspA1I	CMGCKG	1 cut(s)	96
MspI	CCGG	2 cut(s)	183, 350
MspR9I	CCNGG	4 cut(s)	183, 203, 648, 709
MvaI	CCWGG	3 cut(s)	203, 648, 709
MvnI	CGCG	1 cut(s)	290
MwoI	GCNNNNNNNGC	9 cut(s)	87, 96, 102, 287, 501, 504, 510, 877, 883
NarI	GGCGCC	2 cut(s)	75, 325
NciI	CCSGG	1 cut(s)	183
NdeII	GATC	6 cut(s)	21, 69, 222, 604, 850, 862
NlaIII	CATG	5 cut(s)	89, 154, 281, 430, 791
NlaIV	GGNNCC	3 cut(s)	76, 326, 494
NmuCI	GTSAC	1 cut(s)	352
NsiI	ATGCAT	1 cut(s)	432
NspI	RCATGY	2 cut(s)	154, 281
PceI	AGGCCT	1 cut(s)	631
PciI	ACATGT	1 cut(s)	150
PfeI	GAWTC	2 cut(s)	298, 773
PinAI	ACCGGT	1 cut(s)	349
PkrI	GCNGC	9 cut(s)	98, 283, 286, 289, 497, 506, 873, 876, 879
PleI	GAGTC	1 cut(s)	705
PluTI	GGCGCC	2 cut(s)	78, 328
PpsI	GAGTC	1 cut(s)	705
PscI	ACATGT	1 cut(s)	150
Psp6I	CCWGG	3 cut(s)	201, 646, 707
PspEI	GGTNACC	1 cut(s)	352
PspFI	CCCAGC	1 cut(s)	119
PspGI	CCWGG	3 cut(s)	201, 646, 707
PspN4I	GGNNCC	3 cut(s)	76, 326, 494
PspPI	GGNCC	3 cut(s)	199, 205, 732
PsrI	GAACNNNNNNTAC	2 cut(s)	245, 277
PsuI	RGATCY	1 cut(s)	222
RsaI	GTAC	3 cut(s)	155, 254, 857
RsaNI	GTAC	3 cut(s)	154, 253, 856
RseI	CAYNNNNRTG	1 cut(s)	534
SalI	GTCGAC	1 cut(s)	188
SaqAI	TTAA	2 cut(s)	48, 434
SatI	GCNGC	9 cut(s)	97, 282, 285, 288, 496, 505, 872, 875, 878
Sau3AI	GATC	6 cut(s)	21, 69, 222, 604, 850, 862
Sau96I	GGNCC	3 cut(s)	199, 205, 732
ScaI	AGTACT	1 cut(s)	857
SchI	GAGTC	1 cut(s)	706
ScrFI	CCNGG	4 cut(s)	183, 203, 648, 709
SduI	GDGCHC	1 cut(s)	12
SetI	ASST	8 cut(s)	243, 258, 314, 373, 412, 568, 658, 771
SfaNI	GCATC	3 cut(s)	26, 132, 538
SfoI	GGCGCC	2 cut(s)	76, 326
SgrAI	CRCCGGYG	1 cut(s)	349
SmiMI	CAYNNNNRTG	1 cut(s)	534
Sse9I	AATT	2 cut(s)	421, 452
SseBI	AGGCCT	1 cut(s)	631
SsiI	CCGC	7 cut(s)	5, 94, 217, 285, 288, 490, 496
SspDI	GGCGCC	2 cut(s)	74, 324
SspMI	CTAG	1 cut(s)	633
StuI	AGGCCT	1 cut(s)	631
StyD4I	CCNGG	4 cut(s)	181, 201, 646, 707
TaiI	ACGT	2 cut(s)	258, 658
TaqI	TCGA	5 cut(s)	20, 189, 210, 237, 406
TaqII	GACCGA	1 cut(s)	371
TasI	AATT	2 cut(s)	421, 452
TatI	WGTACW	1 cut(s)	855
TauI	GCSGC	3 cut(s)	287, 290, 498
TfiI	GAWTC	2 cut(s)	298, 773
Tru1I	TTAA	2 cut(s)	48, 434
Tru9I	TTAA	2 cut(s)	48, 434
TscAI	CASTG	2 cut(s)	310, 724
TseFI	GTSAC	1 cut(s)	352
TseI	GCWGC	6 cut(s)	96, 281, 504, 871, 874, 877
Tsp45I	GTSAC	1 cut(s)	352
TspDTI	ATGAA	4 cut(s)	402, 415, 612, 840
TspGWI	ACGGA	2 cut(s)	353, 576
TspRI	CASTG	2 cut(s)	310, 724
XceI	RCATGY	2 cut(s)	154, 281
XmiI	GTMKAC	1 cut(s)	189
XspI	CTAG	1 cut(s)	633
ZrmI	AGTACT	1 cut(s)	857
Zsp2I	ATGCAT	1 cut(s)	432

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