Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0019563

Physical Location & Seq

Genomic Coordinates Reverse (-)

65399186 .. 65402216

Gene Structure 3031 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG424700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 795 bp

ATGTCCACTGCTTTTCCGTTTCCGGAAGCCTCCATCAACATCACCCTTTTCTCTTCGCCGACATCAGCGGCACATGACTGGAAGCTTTCCACTCCATGCAAGCCACTACCACAGTTTATAAAAATGTCGGAAGAACCAGAGTATCGTTGCTTTATTGGTGGCCTTGCCTGGTCAACATCTGATAGGAGTCTAAAAGAAGCTTTTGACAAGCATGGGAAGCTTGTTGAAGCCAAGGTTGTTGTTGATAAGTTGTCGGGGCGCTCTCGTGGATATGGGTTTATCACTTTTGCTGATAAAAAAGCAATGGAAGAGGCAATTGAGGAGATGAATGGGATCGATTTAGATGGTCGAACTATAACTGTTGAAAAAGCTCATCCCCACCAAGGTTCAGGTAGTGATTATGGAGGTGGACGTGGATCTGATGGTGGAGGAAGTTGCTTCAAGTGTGGCAAGCCAGGACATTTTGCAAGGGAATGTCCTAGTAGTGAAGTTTCAAGAGGAGGTGGCGGCAGGTATGGTGGTAGGGATGATAAGTACAGTGGTGGAGAAGATTACTTCAAGTGTGGCAAGCCAGGACATTTTGCAAGGGAGTGTCCTAGTAGTGAAGTTTCCAGAGGTGGCAGCGGCAGGTATGGTGATAGGGATGATAAGTACAGTGGAGGAGGAGGAGGTGGTTGTGGTAGCCGCAGGGATTCTGGTTCGGGTGATTGTTCAAGCTCTGGAAGCAATCGTTTTAGTTGTGACCGCTCTGGTCCATATGAGCGTCGGGAGACAGGAGGTTACCGTTCTGAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006950 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0036094 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0050896 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

264

Amino Acids

28.17

Weight (kDa)

7.53

Isoelectric Point (pI)

51.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	51 - 120	5.3e-20	RNA recognition motif
zf-CCHC	PF00098	145 - 161	7.1e-08	Zinc knuckle
zf-CCHC	PF00098	186 - 200	2.7e-06	Zinc knuckle

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: OG0019563)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G39260 AT4G39260 AT4G39260 AT4G39260
rosa_chinensis	RchiOBHm_Chr1g0378041
rosa_samantha	Rh1AG424700
rosa_wichuraiana	Rw1G037330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	119
Acc36I	ACCTGC	2 cut(s)	501, 618
AccBSI	CCGCTC	1 cut(s)	747
AccIII	TCCGGA	1 cut(s)	22
AciI	CCGC	5 cut(s)	68, 507, 624, 685, 745
AclWI	GGATC	2 cut(s)	341, 424
AfaI	GTAC	2 cut(s)	536, 653
AfiI	CCNNNNNNNGG	1 cut(s)	383
AgsI	TTSAA	6 cut(s)	227, 365, 442, 495, 559, 714
AjiI	CACGTC	1 cut(s)	413
AjnI	CCWGG	3 cut(s)	167, 454, 571
AluBI	AGCT	5 cut(s)	85, 200, 220, 371, 717
AluI	AGCT	5 cut(s)	85, 200, 220, 371, 717
Alw26I	GTCTC	1 cut(s)	764
AlwI	GGATC	2 cut(s)	341, 424
Aor13HI	TCCGGA	1 cut(s)	22
AoxI	GGCC	1 cut(s)	160
ApeKI	GCWGC	1 cut(s)	621
AspLEI	GCGC	1 cut(s)	261
AspS9I	GGNCC	1 cut(s)	752
AsuHPI	GGTGA	3 cut(s)	34, 647, 716
AvaII	GGWCC	1 cut(s)	752
BaeI	ACNNNNGTAYC	2 cut(s)	125, 158
BauI	CACGAG	1 cut(s)	264
BbvI	GCAGC	1 cut(s)	633
BccI	CCATC	3 cut(s)	41, 338, 416
BciT130I	CCWGG	3 cut(s)	169, 456, 573
BcoDI	GTCTC	1 cut(s)	764
BfaI	CTAG	2 cut(s)	480, 597
BfoI	RGCGCY	1 cut(s)	262
BfuAI	ACCTGC	2 cut(s)	501, 618
BisI	GCNGC	5 cut(s)	69, 508, 622, 625, 685
BlsI	GCNGC	5 cut(s)	70, 509, 623, 626, 686
Bme1390I	CCNGG	3 cut(s)	169, 456, 573
Bme18I	GGWCC	1 cut(s)	752
BmgBI	CACGTC	1 cut(s)	413
BmgT120I	GGNCC	1 cut(s)	752
BmrFI	CCNGG	3 cut(s)	169, 456, 573
Bsa29I	ATCGAT	1 cut(s)	336
BsaJI	CCNNGG	2 cut(s)	231, 382
BsaWI	WCCGGW	1 cut(s)	22
Bsc4I	CCNNNNNNNGG	1 cut(s)	383
Bse1I	ACTGG	1 cut(s)	83
Bse3DI	GCAATG	1 cut(s)	309
BseAI	TCCGGA	1 cut(s)	22
BseBI	CCWGG	3 cut(s)	169, 456, 573
BseCI	ATCGAT	1 cut(s)	336
BseDI	CCNNGG	2 cut(s)	231, 382
BseGI	GGATG	3 cut(s)	373, 532, 649
BseLI	CCNNNNNNNGG	1 cut(s)	383
BseMI	GCAATG	1 cut(s)	309
BseNI	ACTGG	1 cut(s)	83
BseRI	GAGGAG	5 cut(s)	335, 513, 675, 678, 681
BseXI	GCAGC	1 cut(s)	633
BshFI	GGCC	1 cut(s)	162
BshVI	ATCGAT	1 cut(s)	336
BsiSI	CCGG	1 cut(s)	23
BslI	CCNNNNNNNGG	1 cut(s)	383
BsmAI	GTCTC	1 cut(s)	764
BsnI	GGCC	1 cut(s)	162
Bsp13I	TCCGGA	1 cut(s)	22
Bsp143I	GATC	2 cut(s)	333, 416
BspACI	CCGC	5 cut(s)	68, 507, 624, 685, 745
BspANI	GGCC	1 cut(s)	162
BspDI	ATCGAT	1 cut(s)	336
BspEI	TCCGGA	1 cut(s)	22
BspMI	ACCTGC	2 cut(s)	501, 618
BspPI	GGATC	2 cut(s)	341, 424
BsrBI	CCGCTC	1 cut(s)	747
BsrDI	GCAATG	1 cut(s)	309
BsrI	ACTGG	1 cut(s)	83
BssECI	CCNNGG	2 cut(s)	231, 382
BssMI	GATC	2 cut(s)	333, 416
BssSI	CACGAG	1 cut(s)	264
BssT1I	CCWWGG	2 cut(s)	231, 382
Bst2BI	CACGAG	1 cut(s)	264
Bst2UI	CCWGG	3 cut(s)	169, 456, 573
Bst4CI	ACNGT	5 cut(s)	114, 361, 539, 656, 785
Bst6I	CTCTTC	2 cut(s)	58, 303
BstC8I	GCNNGC	3 cut(s)	101, 452, 569
BstEII	GGTNACC	1 cut(s)	779
BstF5I	GGATG	3 cut(s)	373, 532, 649
BstH2I	RGCGCY	1 cut(s)	262
BstHHI	GCGC	1 cut(s)	261
BstKTI	GATC	2 cut(s)	336, 419
BstMAI	GTCTC	1 cut(s)	764
BstMBI	GATC	2 cut(s)	333, 416
BstMWI	GCNNNNNNNGC	2 cut(s)	217, 723
BstNI	CCWGG	3 cut(s)	169, 456, 573
BstPI	GGTNACC	1 cut(s)	779
BstSCI	CCNGG	3 cut(s)	167, 454, 571
BstV1I	GCAGC	1 cut(s)	633
BstX2I	RGATCY	1 cut(s)	416
BstYI	RGATCY	1 cut(s)	416
Bsu15I	ATCGAT	1 cut(s)	336
BsuRI	GGCC	1 cut(s)	162
BsuTUI	ATCGAT	1 cut(s)	336
BtrI	CACGTC	1 cut(s)	413
BtsCI	GGATG	3 cut(s)	373, 532, 649
BtsI	GCAGTG	1 cut(s)	6
BtsIMutI	CAGTG	3 cut(s)	6, 544, 661
BveI	ACCTGC	2 cut(s)	501, 618
Cac8I	GCNNGC	3 cut(s)	101, 452, 569
CfoI	GCGC	1 cut(s)	261
Cfr13I	GGNCC	1 cut(s)	752
ClaI	ATCGAT	1 cut(s)	336
CseI	GACGC	1 cut(s)	752
Csp6I	GTAC	2 cut(s)	535, 652
CviAII	CATG	3 cut(s)	74, 96, 212
CviQI	GTAC	2 cut(s)	535, 652
DpnI	GATC	2 cut(s)	335, 418
DpnII	GATC	2 cut(s)	333, 416
Eam1104I	CTCTTC	2 cut(s)	58, 303
EarI	CTCTTC	2 cut(s)	58, 303
Eco130I	CCWWGG	2 cut(s)	231, 382
Eco47I	GGWCC	1 cut(s)	752
Eco91I	GGTNACC	1 cut(s)	779
EcoO65I	GGTNACC	1 cut(s)	779
EcoRII	CCWGG	3 cut(s)	167, 454, 571
EcoT14I	CCWWGG	2 cut(s)	231, 382
ErhI	CCWWGG	2 cut(s)	231, 382
FaeI	CATG	3 cut(s)	77, 99, 215
FatI	CATG	3 cut(s)	73, 95, 211
FauNDI	CATATG	1 cut(s)	757
Fnu4HI	GCNGC	5 cut(s)	69, 508, 622, 625, 685
FokI	GGATG	3 cut(s)	360, 539, 656
Fsp4HI	GCNGC	5 cut(s)	69, 508, 622, 625, 685
FspBI	CTAG	2 cut(s)	480, 597
GlaI	GCGC	1 cut(s)	260
GluI	GCNGC	5 cut(s)	69, 508, 622, 625, 685
HaeII	RGCGCY	1 cut(s)	262
HaeIII	GGCC	1 cut(s)	162
HapII	CCGG	1 cut(s)	23
HgaI	GACGC	1 cut(s)	752
HhaI	GCGC	1 cut(s)	261
Hin1II	CATG	3 cut(s)	77, 99, 215
Hin6I	GCGC	1 cut(s)	259
HinP1I	GCGC	1 cut(s)	259
HincII	GTYRAC	1 cut(s)	174
HindII	GTYRAC	1 cut(s)	174
HindIII	AAGCTT	3 cut(s)	83, 198, 218
HinfI	GANTC	2 cut(s)	187, 692
HpaII	CCGG	1 cut(s)	23
HphI	GGTGA	3 cut(s)	34, 647, 716
Hpy166II	GTNNAC	3 cut(s)	6, 174, 410
Hpy188I	TCNGA	4 cut(s)	130, 181, 421, 790
Hpy188III	TCNNGA	5 cut(s)	23, 495, 612, 720, 767
Hpy8I	GTNNAC	3 cut(s)	6, 174, 410
Hpy99I	CGWCG	1 cut(s)	768
HpyCH4III	ACNGT	5 cut(s)	114, 361, 539, 656, 785
HpyCH4IV	ACGT	1 cut(s)	412
HpyCH4V	TGCA	3 cut(s)	99, 467, 584
HpyF10VI	GCNNNNNNNGC	2 cut(s)	217, 723
HpySE526I	ACGT	1 cut(s)	412
Hsp92II	CATG	3 cut(s)	77, 99, 215
HspAI	GCGC	1 cut(s)	259
Kpn2I	TCCGGA	1 cut(s)	22
Kzo9I	GATC	2 cut(s)	333, 416
Lsp1109I	GCAGC	1 cut(s)	633
MaeI	CTAG	2 cut(s)	480, 597
MaeII	ACGT	1 cut(s)	412
MaeIII	GTNAC	2 cut(s)	740, 779
MalI	GATC	2 cut(s)	335, 418
MbiI	CCGCTC	1 cut(s)	747
MboI	GATC	2 cut(s)	333, 416
MboII	GAAGA	4 cut(s)	45, 143, 320, 560
MfeI	CAATTG	1 cut(s)	315
MflI	RGATCY	1 cut(s)	416
MluCI	AATT	1 cut(s)	315
MlyI	GAGTC	1 cut(s)	196
MmeI	TCCRAC	1 cut(s)	108
MroI	TCCGGA	1 cut(s)	22
MspA1I	CMGCKG	2 cut(s)	68, 624
MspI	CCGG	1 cut(s)	23
MspR9I	CCNGG	3 cut(s)	169, 456, 573
MunI	CAATTG	1 cut(s)	315
MvaI	CCWGG	3 cut(s)	169, 456, 573
MwoI	GCNNNNNNNGC	2 cut(s)	217, 723
NdeI	CATATG	1 cut(s)	757
NdeII	GATC	2 cut(s)	333, 416
NlaIII	CATG	3 cut(s)	77, 99, 215
NmuCI	GTSAC	1 cut(s)	740
PfeI	GAWTC	1 cut(s)	692
PkrI	GCNGC	5 cut(s)	70, 509, 623, 626, 686
PleI	GAGTC	1 cut(s)	195
PpsI	GAGTC	1 cut(s)	195
PsiI	TTATAA	1 cut(s)	119
Psp6I	CCWGG	3 cut(s)	167, 454, 571
PspEI	GGTNACC	1 cut(s)	779
PspGI	CCWGG	3 cut(s)	167, 454, 571
PspPI	GGNCC	1 cut(s)	752
PsuI	RGATCY	1 cut(s)	416
RsaI	GTAC	2 cut(s)	536, 653
RsaNI	GTAC	2 cut(s)	535, 652
SatI	GCNGC	5 cut(s)	69, 508, 622, 625, 685
Sau3AI	GATC	2 cut(s)	333, 416
Sau96I	GGNCC	1 cut(s)	752
SchI	GAGTC	1 cut(s)	196
ScrFI	CCNGG	3 cut(s)	169, 456, 573
SinI	GGWCC	1 cut(s)	752
Sse9I	AATT	1 cut(s)	315
SsiI	CCGC	5 cut(s)	68, 507, 624, 685, 745
SspMI	CTAG	2 cut(s)	480, 597
StyD4I	CCNGG	3 cut(s)	167, 454, 571
StyI	CCWWGG	2 cut(s)	231, 382
TaaI	ACNGT	5 cut(s)	114, 361, 539, 656, 785
TaiI	ACGT	1 cut(s)	415
TaqI	TCGA	2 cut(s)	336, 349
TasI	AATT	1 cut(s)	315
TatI	WGTACW	2 cut(s)	534, 651
TauI	GCSGC	4 cut(s)	71, 510, 627, 687
TfiI	GAWTC	1 cut(s)	692
TscAI	CASTG	3 cut(s)	13, 544, 661
TseFI	GTSAC	1 cut(s)	740
TseI	GCWGC	1 cut(s)	621
Tsp45I	GTSAC	1 cut(s)	740
TspDTI	ATGAA	1 cut(s)	341
TspGWI	ACGGA	1 cut(s)	6
TspRI	CASTG	3 cut(s)	13, 544, 661
VpaK11BI	GGWCC	1 cut(s)	752
XspI	CTAG	2 cut(s)	480, 597

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