Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0006802

Physical Location & Seq

Genomic Coordinates Reverse (-)

810657 .. 812930

Gene Structure 2274 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT4G01880.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1362 bp

ATGGAGGCGAAAAGTAGCAATCGATGCAGTTTCTGGCTTCCGAAGAAGAAAAGATCATGCGCGAATACTCGAATCGAGAGTTCTATGTTTTGTGGAAACCATAGCCAGAGATTGGAAGGTCAATGGATTCCATGCCCTATTGATCCTTCTCACTCTGTGTTGCAGGAGAATCTCGAATGGCATGTAAAGAGATGTCCTTTACTTAAACAAACTGTAGAATTGTCTGGTCAACGATTTTATCAGAAGGGTATTAATGCTGGGAACGACGAAGAAGAAGAAAAGATGGGATCTTGTTCTCTTGTTACTTCAGAGATGAAGAGAAATCTGCTCTATAGTATGAGTGTTTCTAAGTTTCATCAGCTTATTAAGAAAATTGAGGATGTTCATGGCGGTATTTGTAAAGATATCGAAGATTCGTATTTGTCACCTGAAGCTTGTAACATATGGTTTAATAAGGAGATAGATAGGAAATTACCATTTCAAGAGAAACATGTTTTGCAGCAAGGTTCAATTCTTGGTAACTTGGAAGAGATTGGTGTATTGAAGAGGTGCAACATAAATGTGGAATGTTGCGAAAGCGATCTGGAAGAGAAAGACGATAATACTGCGCCAGCGGTTGTTGAATTTGGCGCTGGGAGAGGATACTTAACACAGATGCTAGCAGATTGCTATGGGATCAAAAAAGTGTATCTAGTTGAGAGGAAATCTTACAAGCTTAAGGCTGATAGGTCATTGAGGCAAAAGGAGAGCTTAGTATTAGAGCGTATGAGAATCGATATTGAGGATTTGAACCTTAACGCGGTTGAATCTTTGCACGGTGTTCCTTATGTGGCCGTAGGGAAACATCTCTGTGGTCCTGCAACAGATTTGAGCTTAAGATGTTGTTTATCCAGACAAGATGGTGAAAGCCCAGTACTTAGAGGTCTCGCTATTGCGACTTGTTGCCATCATCTTTCCCAATGGAAAAGCTACATAAATAAAGAATATATCCTTAGCCTGGGGATTTCCAAGGACGAGTTCCATATCATGACTTCGTTCACTAGCTGGGCAGTAGATGATGATCACGGTTCCAAGCTTCCCGGTGTTGATGACATTGACCTTCTTGATTCAAATGCAAAGGAGGAGGAAGAAGGAGAAGTAAGAGATGCTTCTTTGATCAGCGTGGAGGAAGTTGTGAAGAAAATGAAACCCATGGAAAGAGCTGTTTTAGGATTCAAATGCAAACAGATCATCGATGCAGGGAGGATGAAGTGGGTTAAGAAACATGGATTAAATTCAAAGCTAGTGAAGTATATCCCGGCAAGCATCTCGCCGGAAAATACTTTACTGATCGCCGGAAAACCCAATCCTTCTATTGCTTGA

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

453

Amino Acids

51.11

Weight (kDa)

6.52

Isoelectric Point (pI)

51.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TRM13	PF05206	73 - 351	2.1e-84	Methyltransferase TRM13
Methyltransf_32	PF13679	90 - 224	1.3e-09	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)
AccB7I	CCANNNNNTGG	1 cut(s)	112
AccII	CGCG	2 cut(s)	62, 800
AciI	CCGC	3 cut(s)	390, 614, 800
AclWI	GGATC	3 cut(s)	137, 295, 683
AcoI	YGGCCR	1 cut(s)	831
AcsI	RAATTY	2 cut(s)	623, 1273
AcuI	CTGAAG	2 cut(s)	291, 450
AdeI	CACNNNGTG	1 cut(s)	157
AfaI	GTAC	1 cut(s)	915
AfiI	CCNNNNNNNGG	3 cut(s)	112, 799, 997
AflII	CTTAAG	2 cut(s)	716, 874
AflIII	ACRYGT	1 cut(s)	490
AgsI	TTSAA	9 cut(s)	482, 510, 544, 623, 790, 806, 1110, 1216, 1278
AjnI	CCWGG	1 cut(s)	996
AjuI	GAANNNNNNNTTGG	2 cut(s)	1001, 1033
Alw26I	GTCTC	1 cut(s)	929
AlwI	GGATC	3 cut(s)	137, 295, 683
AlwNI	CAGNNNCTG	1 cut(s)	33
AoxI	GGCC	1 cut(s)	831
ApeKI	GCWGC	1 cut(s)	499
ApoI	RAATTY	2 cut(s)	623, 1273
AseI	ATTAAT	1 cut(s)	252
AspLEI	GCGC	3 cut(s)	62, 610, 632
AspS9I	GGNCC	1 cut(s)	854
AsuC2I	CCSGG	2 cut(s)	1080, 1298
AsuHPI	GGTGA	2 cut(s)	417, 914
AsuNHI	GCTAGC	1 cut(s)	658
AvaII	GGWCC	1 cut(s)	854
BbvI	GCAGC	1 cut(s)	511
BccI	CCATC	3 cut(s)	277, 893, 954
BceAI	ACGGC	1 cut(s)	818
BcgI	CGANNNNNNTGC	4 cut(s)	587, 621, 1290, 1324
BciT130I	CCWGG	1 cut(s)	998
BciVI	GTATCC	1 cut(s)	635
BclI	TGATCA	2 cut(s)	1060, 1155
BcnI	CCSGG	2 cut(s)	1080, 1298
BcoDI	GTCTC	1 cut(s)	929
BfaI	CTAG	4 cut(s)	659, 692, 1041, 1283
BfmI	CTRYAG	2 cut(s)	213, 331
BfoI	RGCGCY	1 cut(s)	633
BfrI	CTTAAG	2 cut(s)	716, 874
BfuI	GTATCC	1 cut(s)	635
BisI	GCNGC	1 cut(s)	500
BlsI	GCNGC	1 cut(s)	501
BmcAI	AGTACT	1 cut(s)	915
Bme1390I	CCNGG	3 cut(s)	998, 1080, 1298
Bme18I	GGWCC	1 cut(s)	854
BmgT120I	GGNCC	1 cut(s)	854
BmiI	GGNNCC	1 cut(s)	1069
BmrFI	CCNGG	3 cut(s)	998, 1080, 1298
BmrI	ACTGGG	1 cut(s)	905
BmsI	GCATC	5 cut(s)	14, 645, 1135, 1225, 1314
BmtI	GCTAGC	1 cut(s)	662
BmuI	ACTGGG	1 cut(s)	905
Bpu10I	CCTNAGC	1 cut(s)	992
BpuMI	CCSGG	2 cut(s)	1080, 1298
Bsa29I	ATCGAT	3 cut(s)	22, 774, 1233
BsaBI	GATNNNNATC	1 cut(s)	1059
BsaI	GGTCTC	1 cut(s)	929
BsaJI	CCNNGG	3 cut(s)	997, 1008, 1191
Bsc4I	CCNNNNNNNGG	3 cut(s)	112, 799, 997
Bse1I	ACTGG	1 cut(s)	911
Bse8I	GATNNNNATC	1 cut(s)	1059
BseBI	CCWGG	1 cut(s)	998
BseCI	ATCGAT	3 cut(s)	22, 774, 1233
BseDI	CCNNGG	3 cut(s)	997, 1008, 1191
BseGI	GGATG	2 cut(s)	385, 1251
BseJI	GATNNNNATC	1 cut(s)	1059
BseLI	CCNNNNNNNGG	3 cut(s)	112, 799, 997
BseNI	ACTGG	1 cut(s)	911
BseRI	GAGGAG	1 cut(s)	1136
BseXI	GCAGC	1 cut(s)	511
BseYI	CCCAGC	3 cut(s)	257, 632, 1044
Bsh1236I	CGCG	2 cut(s)	62, 800
BshFI	GGCC	1 cut(s)	833
BshVI	ATCGAT	3 cut(s)	22, 774, 1233
BsiSI	CCGG	4 cut(s)	1080, 1298, 1313, 1335
BslI	CCNNNNNNNGG	3 cut(s)	112, 799, 997
BsmAI	GTCTC	1 cut(s)	929
BsnI	GGCC	1 cut(s)	833
Bso31I	GGTCTC	1 cut(s)	929
Bsp143I	GATC	9 cut(s)	53, 142, 287, 580, 675, 1060, 1155, 1227, 1329
Bsp19I	CCATGG	1 cut(s)	1191
BspACI	CCGC	3 cut(s)	390, 614, 800
BspANI	GGCC	1 cut(s)	833
BspDI	ATCGAT	3 cut(s)	22, 774, 1233
BspFNI	CGCG	2 cut(s)	62, 800
BspHI	TCATGA	1 cut(s)	1026
BspLI	GGNNCC	1 cut(s)	1069
BspOI	GCTAGC	1 cut(s)	662
BspPI	GGATC	3 cut(s)	137, 295, 683
BspTI	CTTAAG	2 cut(s)	716, 874
BspTNI	GGTCTC	1 cut(s)	929
BsrI	ACTGG	1 cut(s)	911
BssECI	CCNNGG	3 cut(s)	997, 1008, 1191
BssMI	GATC	9 cut(s)	53, 142, 287, 580, 675, 1060, 1155, 1227, 1329
BssT1I	CCWWGG	2 cut(s)	1008, 1191
Bst2UI	CCWGG	1 cut(s)	998
Bst4CI	ACNGT	3 cut(s)	214, 818, 1067
Bst6I	CTCTTC	4 cut(s)	311, 522, 539, 582
BstAFI	CTTAAG	2 cut(s)	716, 874
BstAPI	GCANNNNNTGC	1 cut(s)	24
BstC8I	GCNNGC	3 cut(s)	612, 660, 1303
BstDEI	CTNAG	4 cut(s)	348, 751, 917, 992
BstDSI	CCRYGG	1 cut(s)	1191
BstF5I	GGATG	2 cut(s)	385, 1251
BstFNI	CGCG	2 cut(s)	62, 800
BstH2I	RGCGCY	1 cut(s)	633
BstHHI	GCGC	3 cut(s)	62, 610, 632
BstKTI	GATC	9 cut(s)	56, 145, 290, 583, 678, 1063, 1158, 1230, 1332
BstMAI	GTCTC	1 cut(s)	929
BstMBI	GATC	9 cut(s)	53, 142, 287, 580, 675, 1060, 1155, 1227, 1329
BstMWI	GCNNNNNNNGC	1 cut(s)	24
BstNI	CCWGG	1 cut(s)	998
BstNSI	RCATGY	2 cut(s)	185, 494
BstSCI	CCNGG	3 cut(s)	996, 1078, 1296
BstSFI	CTRYAG	2 cut(s)	213, 331
BstUI	CGCG	2 cut(s)	62, 800
BstV1I	GCAGC	1 cut(s)	511
BstX2I	RGATCY	1 cut(s)	287
BstYI	RGATCY	1 cut(s)	287
Bsu15I	ATCGAT	3 cut(s)	22, 774, 1233
BsuI	GTATCC	1 cut(s)	635
BsuRI	GGCC	1 cut(s)	833
BsuTUI	ATCGAT	3 cut(s)	22, 774, 1233
BtgI	CCRYGG	1 cut(s)	1191
BtsCI	GGATG	2 cut(s)	385, 1251
Cac8I	GCNNGC	3 cut(s)	612, 660, 1303
CaiI	CAGNNNCTG	1 cut(s)	33
CciI	TCATGA	1 cut(s)	1026
CfoI	GCGC	3 cut(s)	62, 610, 632
Cfr13I	GGNCC	1 cut(s)	854
ClaI	ATCGAT	3 cut(s)	22, 774, 1233
Csp6I	GTAC	1 cut(s)	914
CviAII	CATG	8 cut(s)	57, 132, 182, 386, 491, 1027, 1192, 1265
CviQI	GTAC	1 cut(s)	914
DdeI	CTNAG	4 cut(s)	348, 751, 917, 992
DpnI	GATC	9 cut(s)	55, 144, 289, 582, 677, 1062, 1157, 1229, 1331
DpnII	GATC	9 cut(s)	53, 142, 287, 580, 675, 1060, 1155, 1227, 1329
DraIII	CACNNNGTG	1 cut(s)	157
EaeI	YGGCCR	1 cut(s)	831
Eam1104I	CTCTTC	4 cut(s)	311, 522, 539, 582
EarI	CTCTTC	4 cut(s)	311, 522, 539, 582
Eco130I	CCWWGG	2 cut(s)	1008, 1191
Eco31I	GGTCTC	1 cut(s)	929
Eco32I	GATATC	1 cut(s)	406
Eco47I	GGWCC	1 cut(s)	854
Eco57I	CTGAAG	2 cut(s)	291, 450
EcoRII	CCWGG	1 cut(s)	996
EcoRV	GATATC	1 cut(s)	406
EcoT14I	CCWWGG	2 cut(s)	1008, 1191
ErhI	CCWWGG	2 cut(s)	1008, 1191
FaeI	CATG	8 cut(s)	60, 135, 185, 389, 494, 1030, 1195, 1268
FalI	AAGNNNNNCTT	4 cut(s)	734, 766, 1132, 1164
FatI	CATG	8 cut(s)	56, 131, 181, 385, 490, 1026, 1191, 1264
FauNDI	CATATG	1 cut(s)	443
FbaI	TGATCA	2 cut(s)	1060, 1155
Fnu4HI	GCNGC	1 cut(s)	500
FokI	GGATG	2 cut(s)	392, 1258
Fsp4HI	GCNGC	1 cut(s)	500
FspBI	CTAG	4 cut(s)	659, 692, 1041, 1283
GlaI	GCGC	3 cut(s)	61, 609, 631
GluI	GCNGC	1 cut(s)	500
GsaI	CCCAGC	3 cut(s)	261, 636, 1048
HaeII	RGCGCY	1 cut(s)	633
HaeIII	GGCC	1 cut(s)	833
HapII	CCGG	4 cut(s)	1080, 1298, 1313, 1335
HhaI	GCGC	3 cut(s)	62, 610, 632
Hin1II	CATG	8 cut(s)	60, 135, 185, 389, 494, 1030, 1195, 1268
Hin6I	GCGC	3 cut(s)	60, 608, 630
HinP1I	GCGC	3 cut(s)	60, 608, 630
HincII	GTYRAC	1 cut(s)	230
HindII	GTYRAC	1 cut(s)	230
HindIII	AAGCTT	3 cut(s)	432, 713, 1073
HinfI	GANTC	8 cut(s)	72, 127, 169, 413, 771, 806, 1106, 1212
HpaII	CCGG	4 cut(s)	1080, 1298, 1313, 1335
HphI	GGTGA	2 cut(s)	417, 914
Hpy166II	GTNNAC	2 cut(s)	230, 1038
Hpy188I	TCNGA	3 cut(s)	42, 243, 310
Hpy188III	TCNNGA	7 cut(s)	76, 173, 482, 584, 891, 1027, 1103
Hpy8I	GTNNAC	2 cut(s)	230, 1038
Hpy99I	CGWCG	1 cut(s)	269
HpyAV	CCTTC	6 cut(s)	110, 156, 238, 1109, 1124, 1359
HpyCH4III	ACNGT	3 cut(s)	214, 818, 1067
HpyCH4V	TGCA	9 cut(s)	27, 163, 499, 552, 814, 860, 1115, 1221, 1238
HpyF10VI	GCNNNNNNNGC	1 cut(s)	24
HpyF3I	CTNAG	4 cut(s)	348, 751, 917, 992
Hsp92II	CATG	8 cut(s)	60, 135, 185, 389, 494, 1030, 1195, 1268
HspAI	GCGC	3 cut(s)	60, 608, 630
Ksp22I	TGATCA	2 cut(s)	1060, 1155
Kzo9I	GATC	9 cut(s)	53, 142, 287, 580, 675, 1060, 1155, 1227, 1329
Lsp1109I	GCAGC	1 cut(s)	511
LweI	GCATC	5 cut(s)	14, 645, 1135, 1225, 1314
MaeI	CTAG	4 cut(s)	659, 692, 1041, 1283
MaeIII	GTNAC	4 cut(s)	301, 423, 437, 518
MalI	GATC	9 cut(s)	55, 144, 289, 582, 677, 1062, 1157, 1229, 1331
MboI	GATC	9 cut(s)	53, 142, 287, 580, 675, 1060, 1155, 1227, 1329
MflI	RGATCY	1 cut(s)	287
MluCI	AATT	6 cut(s)	218, 372, 470, 510, 623, 1273
MslI	CAYNNNNRTG	2 cut(s)	560, 849
MspA1I	CMGCKG	1 cut(s)	614
MspCI	CTTAAG	2 cut(s)	716, 874
MspI	CCGG	4 cut(s)	1080, 1298, 1313, 1335
MspR9I	CCNGG	3 cut(s)	998, 1080, 1298
MvaI	CCWGG	1 cut(s)	998
MvnI	CGCG	2 cut(s)	62, 800
MwoI	GCNNNNNNNGC	1 cut(s)	24
NciI	CCSGG	2 cut(s)	1080, 1298
NcoI	CCATGG	1 cut(s)	1191
NdeI	CATATG	1 cut(s)	443
NdeII	GATC	9 cut(s)	53, 142, 287, 580, 675, 1060, 1155, 1227, 1329
NheI	GCTAGC	1 cut(s)	658
NlaIII	CATG	8 cut(s)	60, 135, 185, 389, 494, 1030, 1195, 1268
NlaIV	GGNNCC	1 cut(s)	1069
NmuCI	GTSAC	1 cut(s)	423
NspI	RCATGY	2 cut(s)	185, 494
PagI	TCATGA	1 cut(s)	1026
PciI	ACATGT	1 cut(s)	490
PfeI	GAWTC	8 cut(s)	72, 127, 169, 413, 771, 806, 1106, 1212
PflMI	CCANNNNNTGG	1 cut(s)	112
PkrI	GCNGC	1 cut(s)	501
PscI	ACATGT	1 cut(s)	490
PshBI	ATTAAT	1 cut(s)	252
Psp6I	CCWGG	1 cut(s)	996
PspFI	CCCAGC	3 cut(s)	257, 632, 1044
PspGI	CCWGG	1 cut(s)	996
PspN4I	GGNNCC	1 cut(s)	1069
PspPI	GGNCC	1 cut(s)	854
PstNI	CAGNNNCTG	1 cut(s)	33
PsuI	RGATCY	1 cut(s)	287
RsaI	GTAC	1 cut(s)	915
RsaNI	GTAC	1 cut(s)	914
RseI	CAYNNNNRTG	2 cut(s)	560, 849
SatI	GCNGC	1 cut(s)	500
Sau3AI	GATC	9 cut(s)	53, 142, 287, 580, 675, 1060, 1155, 1227, 1329
Sau96I	GGNCC	1 cut(s)	854
ScaI	AGTACT	1 cut(s)	915
ScrFI	CCNGG	3 cut(s)	998, 1080, 1298
SfaNI	GCATC	5 cut(s)	14, 645, 1135, 1225, 1314
SfcI	CTRYAG	2 cut(s)	213, 331
SinI	GGWCC	1 cut(s)	854
SmiMI	CAYNNNNRTG	2 cut(s)	560, 849
SmlI	CTYRAG	2 cut(s)	716, 874
SmoI	CTYRAG	2 cut(s)	716, 874
Sse9I	AATT	6 cut(s)	218, 372, 470, 510, 623, 1273
SsiI	CCGC	3 cut(s)	390, 614, 800
SspMI	CTAG	4 cut(s)	659, 692, 1041, 1283
StyD4I	CCNGG	3 cut(s)	996, 1078, 1296
StyI	CCWWGG	2 cut(s)	1008, 1191
TaaI	ACNGT	3 cut(s)	214, 818, 1067
TaqI	TCGA	7 cut(s)	22, 70, 75, 174, 408, 774, 1233
TasI	AATT	6 cut(s)	218, 372, 470, 510, 623, 1273
TatI	WGTACW	1 cut(s)	913
TfiI	GAWTC	8 cut(s)	72, 127, 169, 413, 771, 806, 1106, 1212
TseFI	GTSAC	1 cut(s)	423
TseI	GCWGC	1 cut(s)	499
Tsp45I	GTSAC	1 cut(s)	423
TspDTI	ATGAA	5 cut(s)	329, 344, 374, 1199, 1262
Van91I	CCANNNNNTGG	1 cut(s)	112
Vha464I	CTTAAG	2 cut(s)	716, 874
VpaK11BI	GGWCC	1 cut(s)	854
VspI	ATTAAT	1 cut(s)	252
XapI	RAATTY	2 cut(s)	623, 1273
XceI	RCATGY	2 cut(s)	185, 494
XspI	CTAG	4 cut(s)	659, 692, 1041, 1283
ZrmI	AGTACT	1 cut(s)	915

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