Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0006802

Physical Location & Seq

Genomic Coordinates Reverse (-)

32497076 .. 32501093

Gene Structure 4018 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG309600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1092 bp

ATGGAAAACCGCTGCAAGTTTTGGCTCCCTAAAAAGAAGAGATTTTGTGCCAATGTTCCCCTTACTGAATCAGTGTTCTGTGGCAACCACACACCCAGGTCCGACAGCCAGTGGATTCCATGCCCAATAGACCCTTCTCACTCTGTGCTTGAAGAAAATCTTGAAGGACATGTTAGGAGATGCCCATTGCTCAAACAAGTGGAGTCTCTGACTCACCAGCCCTTTTACCAAAAGGGTATCAATGCTGGCAAAGAAGAAGACCAACAAGAAATAGAAACAGCCAGTAGTACTAGATTGGAGGATTCGGCATTGGCTGATGACCCCAAGTCGGAGGCTTTCGGTTACATTCTTTCAGAGATGAAGAGGACTGTTTATAGTATGTCTGTGCCTGATTTCTATAAATTAATCGAAAAAATTGAGTCTGTTCATAAGTCCATATGCAAGGATATTCAGGAGTCGTATAAGGAACCGGAAGCTTGCGGAATGTGGATCAAAAGAGAGGTAGACAGAAAATTGCCATTTCAAGAGAAACATGTTATGCAGCAGGTGTCGATTCTTGGAAACATGGAAGACGTTGGGTTAATAAAGAGTTCCATAGCAAAGGAGAGGGCTGACTGTGATGATAGCAATGGTTTCCCTGTGAGGGATGACTGTGATTATAGCAATGGTGTCCCTGCGGTGGTTGAGTTTGGAGCGGGAAGAGGATACTTGACACAAATGCTGGCAGATTGTTATGGCATTAAAAGGGTCTTTTTGGTTGAAAGGAAGTCATACAAGCTGAAGGCTGATCGATCCTTGCGACAGAAAGAGAGCTTGATACTGCAACGTTTGAGAATTGACATTGAGGATTTAAACCTGAATGCCGTTGAGTCATTGCGGGAAGGTCCTTTCATTTCTATCGGTAAACATCTTTGTGGGCCTGCAACAGATTTGACTCTGAGATGTTGCCTTGGGGAACAATCCAATCAAAGTAATTGTGGAGGGTGCGTTAACCCGAACCTAAGAGGTCTAGCTATTGCCACATGTTGCCATCATCTTTGCCAATGGAAGCACTACATAAGTAATCAATTGATCTCACCATATAATTTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001510 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0008033 GO:0008150 GO:0008152 GO:0008168 GO:0008173 GO:0008175 GO:0009451 GO:0009628 GO:0009651 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016741 GO:0030488 GO:0032259 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0046483 GO:0050896 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TRM13 zf-TRM13_CCCH zf-U11-48K

Protein Analysis

363

Amino Acids

41.2

Weight (kDa)

6.39

Isoelectric Point (pI)

55.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-TRM13_CCCH	PF11722	3 - 30	3.2e-12	CCCH zinc finger in TRM13 protein
zf-U11-48K	PF05253	38 - 62	6.3e-08	U11-48K-like CHHC zinc finger
TRM13	PF05206	180 - 358	6.8e-50	Methyltransferase TRM13
Methyltransf_32	PF13679	220 - 331	8.2e-08	Methyltransferase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006802)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01880 AT4G01880 AT4G01880
fragaria_vesca	FvH4_1g26500
malus_domestica	MD09G1293200.v1.1 MD17G1281000.v1.1
prunus_persica	Prupe.3G004500_v2.0.a1
pyrus_communis	pycom09g19590 pycom17g27870
rosa_chinensis	RchiOBHm_Chr3g0486571 RchiOBHm_Chr7g0232271
rosa_laevigata	RLG00000001358 RLG00000023076
rosa_multiflora	Rmu_co8193526.1_g000001 Rmu_sc0023880.1_g000001
rosa_roxburghii	Rroxscaffold_6G00395790
rosa_rugosa	Rorug03G0225200 Rorug07G0272400
rosa_samantha	Rh3AG275300 Rh3BG310300 Rh3CG309600 Rh3DG306300 Rh7CG446100 Rh7DG417400 Rh7DG417600
rosa_wichuraiana	Rw3G024530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	535
Acc36I	ACCTGC	1 cut(s)	535
AccBSI	CCGCTC	1 cut(s)	695
AccI	GTMKAC	1 cut(s)	504
AciI	CCGC	5 cut(s)	10, 480, 677, 695, 877
AclI	AACGTT	1 cut(s)	826
AclWI	GGATC	2 cut(s)	497, 786
AcuI	CTGAAG	1 cut(s)	800
AdeI	CACNNNGTG	1 cut(s)	145
AfaI	GTAC	1 cut(s)	289
AfiI	CCNNNNNNNGG	3 cut(s)	328, 643, 679
AflIII	ACRYGT	3 cut(s)	169, 532, 1022
AgsI	TTSAA	4 cut(s)	152, 164, 524, 761
AhdI	GACNNNNNGTC	1 cut(s)	325
AjnI	CCWGG	1 cut(s)	95
AjuI	GAANNNNNNNTTGG	2 cut(s)	118, 150
AluBI	AGCT	4 cut(s)	476, 778, 813, 1013
AluI	AGCT	4 cut(s)	476, 778, 813, 1013
Alw26I	GTCTC	1 cut(s)	210
AlwI	GGATC	2 cut(s)	497, 786
AoxI	GGCC	1 cut(s)	917
ApeKI	GCWGC	2 cut(s)	12, 541
AseI	ATTAAT	1 cut(s)	404
AspS9I	GGNCC	3 cut(s)	99, 884, 917
AsuHPI	GGTGA	2 cut(s)	206, 1068
AvaII	GGWCC	2 cut(s)	99, 884
BbsI	GAAGAC	2 cut(s)	264, 576
BbvI	GCAGC	1 cut(s)	553
BccI	CCATC	1 cut(s)	1038
BceAI	ACGGC	1 cut(s)	848
BciT130I	CCWGG	1 cut(s)	97
BciVI	GTATCC	1 cut(s)	698
BcoDI	GTCTC	1 cut(s)	210
BfaI	CTAG	2 cut(s)	291, 1010
BfuAI	ACCTGC	1 cut(s)	535
BfuI	GTATCC	1 cut(s)	698
BisI	GCNGC	2 cut(s)	13, 542
BlsI	GCNGC	2 cut(s)	14, 543
BmcAI	AGTACT	1 cut(s)	289
Bme1390I	CCNGG	1 cut(s)	97
Bme18I	GGWCC	2 cut(s)	99, 884
BmeRI	GACNNNNNGTC	1 cut(s)	325
BmgT120I	GGNCC	3 cut(s)	99, 884, 917
BmiI	GGNNCC	2 cut(s)	26, 468
BmrFI	CCNGG	1 cut(s)	97
BmsI	GCATC	1 cut(s)	170
BpiI	GAAGAC	2 cut(s)	264, 576
Bsa29I	ATCGAT	1 cut(s)	790
BsaJI	CCNNGG	2 cut(s)	95, 949
BsaWI	WCCGGW	1 cut(s)	469
BsaXI	ACNNNNNCTCC	2 cut(s)	972, 1002
Bsc4I	CCNNNNNNNGG	3 cut(s)	328, 643, 679
Bse1I	ACTGG	2 cut(s)	109, 282
Bse3DI	GCAATG	4 cut(s)	185, 634, 670, 872
BseBI	CCWGG	1 cut(s)	97
BseCI	ATCGAT	1 cut(s)	790
BseDI	CCNNGG	2 cut(s)	95, 949
BseGI	GGATG	1 cut(s)	652
BseLI	CCNNNNNNNGG	3 cut(s)	328, 643, 679
BseMI	GCAATG	4 cut(s)	185, 634, 670, 872
BseMII	CTCAG	1 cut(s)	929
BseNI	ACTGG	2 cut(s)	109, 282
BseXI	GCAGC	1 cut(s)	553
BshFI	GGCC	1 cut(s)	919
BshVI	ATCGAT	1 cut(s)	790
BsiSI	CCGG	1 cut(s)	470
BslFI	GGGAC	1 cut(s)	656
BslI	CCNNNNNNNGG	3 cut(s)	328, 643, 679
BsmAI	GTCTC	1 cut(s)	210
BsmFI	GGGAC	1 cut(s)	656
BsmI	GAATGC	1 cut(s)	865
BsnI	GGCC	1 cut(s)	919
Bsp143I	GATC	4 cut(s)	489, 787, 791, 1071
BspACI	CCGC	5 cut(s)	10, 480, 677, 695, 877
BspANI	GGCC	1 cut(s)	919
BspCNI	CTCAG	1 cut(s)	930
BspDI	ATCGAT	1 cut(s)	790
BspLI	GGNNCC	2 cut(s)	26, 468
BspMI	ACCTGC	1 cut(s)	535
BspPI	GGATC	2 cut(s)	497, 786
BsrBI	CCGCTC	1 cut(s)	695
BsrDI	GCAATG	4 cut(s)	185, 634, 670, 872
BsrI	ACTGG	2 cut(s)	109, 282
BssECI	CCNNGG	2 cut(s)	95, 949
BssMI	GATC	4 cut(s)	489, 787, 791, 1071
BssT1I	CCWWGG	1 cut(s)	949
Bst2UI	CCWGG	1 cut(s)	97
Bst4CI	ACNGT	3 cut(s)	370, 617, 653
Bst6I	CTCTTC	3 cut(s)	32, 356, 694
BstC8I	GCNNGC	4 cut(s)	247, 478, 723, 921
BstDEI	CTNAG	2 cut(s)	938, 1001
BstF5I	GGATG	1 cut(s)	652
BstKTI	GATC	4 cut(s)	492, 790, 794, 1074
BstMAI	GTCTC	1 cut(s)	210
BstMBI	GATC	4 cut(s)	489, 787, 791, 1071
BstNI	CCWGG	1 cut(s)	97
BstNSI	RCATGY	3 cut(s)	173, 536, 1026
BstSCI	CCNGG	1 cut(s)	95
BstV1I	GCAGC	1 cut(s)	553
BstV2I	GAAGAC	2 cut(s)	264, 576
Bsu15I	ATCGAT	1 cut(s)	790
BsuI	GTATCC	1 cut(s)	698
BsuRI	GGCC	1 cut(s)	919
BsuTUI	ATCGAT	1 cut(s)	790
BtsCI	GGATG	1 cut(s)	652
BtsIMutI	CAGTG	2 cut(s)	78, 116
BveI	ACCTGC	1 cut(s)	535
Cac8I	GCNNGC	4 cut(s)	247, 478, 723, 921
Cfr13I	GGNCC	3 cut(s)	99, 884, 917
ClaI	ATCGAT	1 cut(s)	790
Csp6I	GTAC	1 cut(s)	288
CviAII	CATG	5 cut(s)	120, 170, 533, 565, 1023
CviQI	GTAC	1 cut(s)	288
DdeI	CTNAG	2 cut(s)	938, 1001
DpnI	GATC	4 cut(s)	491, 789, 793, 1073
DpnII	GATC	4 cut(s)	489, 787, 791, 1071
DraI	TTTAAA	1 cut(s)	852
DraIII	CACNNNGTG	1 cut(s)	145
DriI	GACNNNNNGTC	1 cut(s)	325
Eam1104I	CTCTTC	3 cut(s)	32, 356, 694
Eam1105I	GACNNNNNGTC	1 cut(s)	325
EarI	CTCTTC	3 cut(s)	32, 356, 694
Eco130I	CCWWGG	1 cut(s)	949
Eco47I	GGWCC	2 cut(s)	99, 884
Eco57I	CTGAAG	1 cut(s)	800
EcoO109I	RGGNCCY	1 cut(s)	884
EcoRII	CCWGG	1 cut(s)	95
EcoT14I	CCWWGG	1 cut(s)	949
ErhI	CCWWGG	1 cut(s)	949
FaeI	CATG	5 cut(s)	123, 173, 536, 568, 1026
FalI	AAGNNNNNCTT	2 cut(s)	144, 176
FaqI	GGGAC	1 cut(s)	656
FatI	CATG	5 cut(s)	119, 169, 532, 564, 1022
FauI	CCCGC	2 cut(s)	688, 870
FauNDI	CATATG	1 cut(s)	437
FblI	GTMKAC	1 cut(s)	504
Fnu4HI	GCNGC	2 cut(s)	13, 542
FokI	GGATG	1 cut(s)	659
Fsp4HI	GCNGC	2 cut(s)	13, 542
FspBI	CTAG	2 cut(s)	291, 1010
GluI	GCNGC	2 cut(s)	13, 542
HaeIII	GGCC	1 cut(s)	919
HapII	CCGG	1 cut(s)	470
Hin1II	CATG	5 cut(s)	123, 173, 536, 568, 1026
HincII	GTYRAC	1 cut(s)	991
HindII	GTYRAC	1 cut(s)	991
HindIII	AAGCTT	1 cut(s)	474
HpaI	GTTAAC	1 cut(s)	991
HpaII	CCGG	1 cut(s)	470
HphI	GGTGA	2 cut(s)	206, 1068
Hpy166II	GTNNAC	3 cut(s)	505, 905, 991
Hpy188I	TCNGA	5 cut(s)	103, 210, 331, 355, 939
Hpy188III	TCNNGA	3 cut(s)	161, 452, 524
Hpy8I	GTNNAC	3 cut(s)	505, 905, 991
HpyAV	CCTTC	4 cut(s)	144, 158, 775, 875
HpyCH4III	ACNGT	3 cut(s)	370, 617, 653
HpyCH4IV	ACGT	2 cut(s)	573, 826
HpyCH4V	TGCA	5 cut(s)	15, 441, 541, 823, 923
HpyF3I	CTNAG	2 cut(s)	938, 1001
HpySE526I	ACGT	2 cut(s)	573, 826
Hsp92II	CATG	5 cut(s)	123, 173, 536, 568, 1026
KspAI	GTTAAC	1 cut(s)	991
Kzo9I	GATC	4 cut(s)	489, 787, 791, 1071
LmnI	GCTCC	2 cut(s)	30, 692
Lsp1109I	GCAGC	1 cut(s)	553
LweI	GCATC	1 cut(s)	170
MaeI	CTAG	2 cut(s)	291, 1010
MaeII	ACGT	2 cut(s)	573, 826
MaeIII	GTNAC	1 cut(s)	341
MalI	GATC	4 cut(s)	491, 789, 793, 1073
MbiI	CCGCTC	1 cut(s)	695
MboI	GATC	4 cut(s)	489, 787, 791, 1071
MboII	GAAGA	7 cut(s)	49, 164, 266, 269, 373, 581, 711
MfeI	CAATTG	1 cut(s)	1067
MluCI	AATT	7 cut(s)	401, 414, 512, 834, 973, 1067, 1084
MlyI	GAGTC	6 cut(s)	205, 212, 428, 464, 878, 928
MmeI	TCCRAC	2 cut(s)	126, 309
MseI	TTAA	5 cut(s)	404, 581, 741, 851, 990
MslI	CAYNNNNRTG	1 cut(s)	912
MspA1I	CMGCKG	1 cut(s)	12
MspI	CCGG	1 cut(s)	470
MspR9I	CCNGG	1 cut(s)	97
MunI	CAATTG	1 cut(s)	1067
Mva1269I	GAATGC	1 cut(s)	865
MvaI	CCWGG	1 cut(s)	97
NdeI	CATATG	1 cut(s)	437
NdeII	GATC	4 cut(s)	489, 787, 791, 1071
NlaIII	CATG	5 cut(s)	123, 173, 536, 568, 1026
NlaIV	GGNNCC	2 cut(s)	26, 468
NspI	RCATGY	3 cut(s)	173, 536, 1026
PaqCI	CACCTGC	1 cut(s)	535
PciI	ACATGT	3 cut(s)	169, 532, 1022
PcsI	WCGNNNNNNNCGW	1 cut(s)	796
PctI	GAATGC	1 cut(s)	865
PfeI	GAWTC	4 cut(s)	68, 115, 302, 553
PkrI	GCNGC	2 cut(s)	14, 543
PleI	GAGTC	6 cut(s)	205, 211, 427, 463, 877, 928
PpsI	GAGTC	6 cut(s)	205, 211, 427, 463, 877, 928
PpuMI	RGGWCCY	1 cut(s)	884
PscI	ACATGT	3 cut(s)	169, 532, 1022
PshBI	ATTAAT	1 cut(s)	404
Psp1406I	AACGTT	1 cut(s)	826
Psp5II	RGGWCCY	1 cut(s)	884
Psp6I	CCWGG	1 cut(s)	95
PspGI	CCWGG	1 cut(s)	95
PspN4I	GGNNCC	2 cut(s)	26, 468
PspPI	GGNCC	3 cut(s)	99, 884, 917
PspPPI	RGGWCCY	1 cut(s)	884
RsaI	GTAC	1 cut(s)	289
RsaNI	GTAC	1 cut(s)	288
RseI	CAYNNNNRTG	1 cut(s)	912
SaqAI	TTAA	5 cut(s)	404, 581, 741, 851, 990
SatI	GCNGC	2 cut(s)	13, 542
Sau3AI	GATC	4 cut(s)	489, 787, 791, 1071
Sau96I	GGNCC	3 cut(s)	99, 884, 917
ScaI	AGTACT	1 cut(s)	289
SchI	GAGTC	6 cut(s)	205, 212, 428, 464, 878, 928
ScrFI	CCNGG	1 cut(s)	97
SfaNI	GCATC	1 cut(s)	170
SinI	GGWCC	2 cut(s)	99, 884
SmiMI	CAYNNNNRTG	1 cut(s)	912
Sse9I	AATT	7 cut(s)	401, 414, 512, 834, 973, 1067, 1084
SsiI	CCGC	5 cut(s)	10, 480, 677, 695, 877
SspMI	CTAG	2 cut(s)	291, 1010
StyD4I	CCNGG	1 cut(s)	95
StyI	CCWWGG	1 cut(s)	949
TaaI	ACNGT	3 cut(s)	370, 617, 653
TaiI	ACGT	2 cut(s)	576, 829
TaqI	TCGA	3 cut(s)	408, 551, 790
TasI	AATT	7 cut(s)	401, 414, 512, 834, 973, 1067, 1084
TatI	WGTACW	1 cut(s)	287
TfiI	GAWTC	4 cut(s)	68, 115, 302, 553
Tru1I	TTAA	5 cut(s)	404, 581, 741, 851, 990
Tru9I	TTAA	5 cut(s)	404, 581, 741, 851, 990
TscAI	CASTG	2 cut(s)	78, 116
TseI	GCWGC	2 cut(s)	12, 541
TspDTI	ATGAA	3 cut(s)	374, 416, 880
TspRI	CASTG	2 cut(s)	78, 116
VpaK11BI	GGWCC	2 cut(s)	99, 884
VspI	ATTAAT	1 cut(s)	404
XceI	RCATGY	3 cut(s)	173, 536, 1026
XmiI	GTMKAC	1 cut(s)	504
XspI	CTAG	2 cut(s)	291, 1010
ZrmI	AGTACT	1 cut(s)	289

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