Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0003797

Physical Location & Seq

Genomic Coordinates Forward (+)

18578306 .. 18580686

Gene Structure 2381 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G50100.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1230 bp

ATGGAGCTTAAACTAGCCACCGCCGAGAAACAAGTGCTTGACGAGTTGGTGAAGCTATTGCAGAGTCGAGATTTGCGTGGCGAAAATGGAAACTGGAAGGAATTTTTACATGTTTACGACAAAAATGCTGATTCACCAAGTGATCCTTCGAGGCGTTCTCATGAAGATTTGGTTCAGTTTCTGACAACTTTTAAGAAGAAAGAAGATTTGCAACTTCTGAAATGTCACGCCAATCATCTTCTGATTGAAAATTTGAAGCAAGAATCCCAAGATGAAGACACTCCTGAGCAGATGCTAGTTAGATTGACAGTTGAGCATCCGAGTTACTCGTTAGACTATTCTTTCAAGCCATACTCAGAGGACTGGTTTGTATCCGATGTTGGAATGAAGATGAAAAAGGTGATGGAATCAACTAACATGGTAGCTGTTGATTGTGAGATGGTTCTTTGTGAAGATGGGACTGAGGGTTTAGTTAGAGTTGGTGTTGTAGACCGTGATTTAAAGGTGATTCTTGACGAGTTTGTGAAACCGAACAAACCTGTTGTTGACTATAGGACAGACATTACAGGGATTACTGCTGAAGATATCGAAAATGCTAGTCTCTCTGTGGTAGATATACAGGAAACTTTGCAGCCCTTTCTTTCTACGGGTACGATTTTGGTTGGTCACAGTTTAAACAGAGATTTGGAAGTGTTAAAGATAGATCATCCTAAAGTAATCGATACCGCACTTGTATTCAAGTATCCGAATACACGAAAGCTCAGAAGACCTTCACTTAACAACCTTTGCAAGTCTATTTTGGGTTACGAAGTCCGAAAGACCGGTGTTCCTCATGATTGTGTACATGACGCATCAGCTGCGATGAAACTTGCACTTGCTGTTGTAGAGAAAAGAGTTGACACAACAATCAAACCATCTAAAGAGATGTTGGAGGTTGAGAAAGCAAAACTCTTTCTACATAAAATCCCTAACAATGTGCCATCTGAAGAGCTTGAGCAAGTTCTTTCTGGAAAGTTTACACTTGATGTGAAGCAAGCAAAAACACAGGGACGTTACTATTGTGCATTTGCTCTTTTCCATAGTTCAGAAGACGCAGATCAAGCATTTGAACACATTGATGGAATCGAAATGACGGATTCATTGGGTTTGCCACAAAAAGTGGTCATCATTAAGCTGAGTTCAGGATCAAGAGCTAGTATATATGTCCGTAAAATGGTTCAAGATGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006401 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008408 GO:0009056 GO:0009057 GO:0009987 GO:0010586 GO:0010587 GO:0016070 GO:0016592 GO:0016787 GO:0016788 GO:0019439 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0046700 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:1901360 GO:1901361 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

RNase_T RRM_1

Protein Analysis

409

Amino Acids

46.36

Weight (kDa)

5.43

Isoelectric Point (pI)

36.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_T	PF00929	44 - 193	4e-10	Exonuclease

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: OG0003797)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G50090 AT3G50100 AT3G50100 AT5G67240 AT5G67240 AT5G67240 AT5G67240
fragaria_vesca	FvH4_1g16590 FvH4_1g16590 FvH4_4g28290
malus_domestica	MD02G1178000.v1.1 MD15G1287900.v1.1
prunus_persica	Prupe.6G230000_v2.0.a1
pyrus_communis	pycom02g14410 pycom15g25140
rosa_chinensis	RchiOBHm_Chr2g0106501
rosa_laevigata	RLG00000017507
rosa_roxburghii	Rroxscaffold_2G00137120 Rroxscaffold_3G00227560
rosa_rugosa	Rorug02G0135700 Rorug02G0135800 Rorug02G0135900 Rorug02G0136000 Rorug05G0123100 Rorug05G0252900 Rorug05G0347700
rosa_samantha	Rh2AG187300 Rh2BG198100 Rh2BG614000 Rh2CG192300 Rh2DG193400 Rh5BG226200
rosa_wichuraiana	Rw2G014600 Rw2G014620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	489
AciI	CCGC	2 cut(s)	21, 726
AclWI	GGATC	2 cut(s)	137, 1192
AcsI	RAATTY	2 cut(s)	101, 250
AcuI	CTGAAG	2 cut(s)	600, 1005
AdeI	CACNNNGTG	1 cut(s)	140
AfaI	GTAC	2 cut(s)	652, 843
AfiI	CCNNNNNNNGG	1 cut(s)	1213
AflIII	ACRYGT	1 cut(s)	109
AgeI	ACCGGT	1 cut(s)	821
AgsI	TTSAA	6 cut(s)	248, 256, 346, 739, 1109, 1220
AjuI	GAANNNNNNNTTGG	2 cut(s)	130, 162
AluBI	AGCT	8 cut(s)	7, 55, 425, 760, 857, 991, 1174, 1193
AluI	AGCT	8 cut(s)	7, 55, 425, 760, 857, 991, 1174, 1193
Alw26I	GTCTC	1 cut(s)	605
AlwI	GGATC	2 cut(s)	137, 1192
AlwNI	CAGNNNCTG	1 cut(s)	181
ApeKI	GCWGC	2 cut(s)	631, 857
ApoI	RAATTY	2 cut(s)	101, 250
AsiGI	ACCGGT	1 cut(s)	821
Asp700I	GAANNNNTTC	1 cut(s)	769
AsuHPI	GGTGA	4 cut(s)	61, 126, 412, 517
BbsI	GAAGAC	3 cut(s)	282, 772, 1095
BbvI	GCAGC	2 cut(s)	643, 844
BccI	CCATC	6 cut(s)	397, 433, 449, 922, 988, 1112
BcgI	CGANNNNNNTGC	2 cut(s)	107, 141
BciVI	GTATCC	2 cut(s)	382, 753
BcoDI	GTCTC	1 cut(s)	605
BfaI	CTAG	4 cut(s)	14, 296, 597, 1194
BfmI	CTRYAG	1 cut(s)	550
BfuI	GTATCC	2 cut(s)	382, 753
BisI	GCNGC	2 cut(s)	632, 858
BlsI	GCNGC	2 cut(s)	633, 859
BmsI	GCATC	3 cut(s)	282, 325, 860
BpiI	GAAGAC	3 cut(s)	282, 772, 1095
BplI	GAGNNNNNCTC	2 cut(s)	142, 174
Bpu10I	CCTNAGC	1 cut(s)	285
BpuEI	CTTGAG	1 cut(s)	1013
Bsa29I	ATCGAT	1 cut(s)	720
BsaWI	WCCGGW	1 cut(s)	821
Bsc4I	CCNNNNNNNGG	1 cut(s)	1213
Bse118I	RCCGGY	1 cut(s)	821
Bse1I	ACTGG	2 cut(s)	98, 368
BseCI	ATCGAT	1 cut(s)	720
BseGI	GGATG	2 cut(s)	316, 706
BseLI	CCNNNNNNNGG	1 cut(s)	1213
BseMII	CTCAG	5 cut(s)	276, 369, 453, 775, 1166
BseNI	ACTGG	2 cut(s)	98, 368
BseXI	GCAGC	2 cut(s)	643, 844
BshTI	ACCGGT	1 cut(s)	821
BshVI	ATCGAT	1 cut(s)	720
BsiSI	CCGG	1 cut(s)	822
BslFI	GGGAC	2 cut(s)	472, 1062
BslI	CCNNNNNNNGG	1 cut(s)	1213
BsmAI	GTCTC	1 cut(s)	605
BsmFI	GGGAC	2 cut(s)	472, 1062
Bsp1407I	TGTACA	1 cut(s)	841
Bsp143I	GATC	4 cut(s)	142, 703, 1096, 1184
BspACI	CCGC	2 cut(s)	21, 726
BspCNI	CTCAG	5 cut(s)	277, 368, 454, 774, 1167
BspDI	ATCGAT	1 cut(s)	720
BspHI	TCATGA	2 cut(s)	160, 832
BspPI	GGATC	2 cut(s)	137, 1192
BspQI	GCTCTTC	1 cut(s)	981
BsrFI	RCCGGY	1 cut(s)	821
BsrGI	TGTACA	1 cut(s)	841
BsrI	ACTGG	2 cut(s)	98, 368
BssAI	RCCGGY	1 cut(s)	821
BssMI	GATC	4 cut(s)	142, 703, 1096, 1184
Bst4CI	ACNGT	3 cut(s)	310, 494, 671
Bst6I	CTCTTC	1 cut(s)	981
BstAPI	GCANNNNNTGC	1 cut(s)	857
BstAUI	TGTACA	1 cut(s)	841
BstC8I	GCNNGC	1 cut(s)	1035
BstDEI	CTNAG	5 cut(s)	285, 355, 462, 761, 1175
BstF5I	GGATG	2 cut(s)	316, 706
BstKTI	GATC	4 cut(s)	145, 706, 1099, 1187
BstMAI	GTCTC	1 cut(s)	605
BstMBI	GATC	4 cut(s)	142, 703, 1096, 1184
BstMWI	GCNNNNNNNGC	2 cut(s)	857, 1100
BstNSI	RCATGY	1 cut(s)	113
BstSFI	CTRYAG	1 cut(s)	550
BstV1I	GCAGC	2 cut(s)	643, 844
BstV2I	GAAGAC	3 cut(s)	282, 772, 1095
Bsu15I	ATCGAT	1 cut(s)	720
BsuI	GTATCC	2 cut(s)	382, 753
BsuTUI	ATCGAT	1 cut(s)	720
BtgZI	GCGATG	1 cut(s)	875
BtsCI	GGATG	2 cut(s)	316, 706
Cac8I	GCNNGC	1 cut(s)	1035
CaiI	CAGNNNCTG	1 cut(s)	181
CciI	TCATGA	2 cut(s)	160, 832
Cfr10I	RCCGGY	1 cut(s)	821
ClaI	ATCGAT	1 cut(s)	720
CseI	GACGC	2 cut(s)	857, 1100
Csp6I	GTAC	2 cut(s)	651, 842
CspAI	ACCGGT	1 cut(s)	821
CviAII	CATG	5 cut(s)	110, 161, 418, 833, 845
CviQI	GTAC	2 cut(s)	651, 842
DdeI	CTNAG	5 cut(s)	285, 355, 462, 761, 1175
DpnI	GATC	4 cut(s)	144, 705, 1098, 1186
DpnII	GATC	4 cut(s)	142, 703, 1096, 1184
DraI	TTTAAA	2 cut(s)	501, 675
DraIII	CACNNNGTG	1 cut(s)	140
Eam1104I	CTCTTC	1 cut(s)	981
EarI	CTCTTC	1 cut(s)	981
Eco32I	GATATC	1 cut(s)	586
Eco57I	CTGAAG	2 cut(s)	600, 1005
EcoRV	GATATC	1 cut(s)	586
FaeI	CATG	5 cut(s)	113, 164, 421, 836, 848
FalI	AAGNNNNNCTT	2 cut(s)	130, 162
FaqI	GGGAC	2 cut(s)	472, 1062
FatI	CATG	5 cut(s)	109, 160, 417, 832, 844
FblI	GTMKAC	1 cut(s)	489
Fnu4HI	GCNGC	2 cut(s)	632, 858
FokI	GGATG	2 cut(s)	303, 693
Fsp4HI	GCNGC	2 cut(s)	632, 858
FspBI	CTAG	4 cut(s)	14, 296, 597, 1194
GluI	GCNGC	2 cut(s)	632, 858
HapII	CCGG	1 cut(s)	822
HgaI	GACGC	2 cut(s)	857, 1100
Hin1II	CATG	5 cut(s)	113, 164, 421, 836, 848
HincII	GTYRAC	2 cut(s)	547, 898
HindII	GTYRAC	2 cut(s)	547, 898
HinfI	GANTC	7 cut(s)	64, 131, 263, 407, 508, 1122, 1136
HpaII	CCGG	1 cut(s)	822
HphI	GGTGA	4 cut(s)	61, 126, 412, 517
Hpy166II	GTNNAC	6 cut(s)	115, 490, 547, 842, 898, 1017
Hpy188III	TCNNGA	9 cut(s)	68, 161, 284, 512, 833, 1008, 1182, 1188, 1220
Hpy8I	GTNNAC	6 cut(s)	115, 490, 547, 842, 898, 1017
HpyAV	CCTTC	3 cut(s)	91, 156, 780
HpyCH4III	ACNGT	3 cut(s)	310, 494, 671
HpyCH4IV	ACGT	1 cut(s)	1051
HpyCH4V	TGCA	6 cut(s)	61, 211, 631, 789, 872, 1064
HpyF10VI	GCNNNNNNNGC	2 cut(s)	857, 1100
HpyF3I	CTNAG	5 cut(s)	285, 355, 462, 761, 1175
HpySE526I	ACGT	1 cut(s)	1051
Hsp92II	CATG	5 cut(s)	113, 164, 421, 836, 848
Kzo9I	GATC	4 cut(s)	142, 703, 1096, 1184
LguI	GCTCTTC	1 cut(s)	981
LmnI	GCTCC	1 cut(s)	4
Lsp1109I	GCAGC	2 cut(s)	643, 844
LweI	GCATC	3 cut(s)	282, 325, 860
MaeI	CTAG	4 cut(s)	14, 296, 597, 1194
MaeII	ACGT	1 cut(s)	1051
MaeIII	GTNAC	5 cut(s)	224, 323, 665, 803, 1052
MalI	GATC	4 cut(s)	144, 705, 1098, 1186
MboI	GATC	4 cut(s)	142, 703, 1096, 1184
MluCI	AATT	2 cut(s)	101, 250
MlyI	GAGTC	1 cut(s)	73
MmeI	TCCRAC	2 cut(s)	361, 909
MnlI	CCTC	5 cut(s)	144, 352, 457, 840, 925
MroXI	GAANNNNTTC	1 cut(s)	769
MseI	TTAA	7 cut(s)	9, 192, 500, 674, 695, 777, 1170
MslI	CAYNNNNRTG	2 cut(s)	837, 1116
MspA1I	CMGCKG	1 cut(s)	857
MspI	CCGG	1 cut(s)	822
MssI	GTTTAAAC	1 cut(s)	675
MwoI	GCNNNNNNNGC	2 cut(s)	857, 1100
NdeII	GATC	4 cut(s)	142, 703, 1096, 1184
NlaIII	CATG	5 cut(s)	113, 164, 421, 836, 848
NmeAIII	GCCGAG	1 cut(s)	49
NmuCI	GTSAC	2 cut(s)	224, 665
NspI	RCATGY	1 cut(s)	113
PagI	TCATGA	2 cut(s)	160, 832
PciI	ACATGT	1 cut(s)	109
PciSI	GCTCTTC	1 cut(s)	981
PcsI	WCGNNNNNNNCGW	1 cut(s)	73
PdmI	GAANNNNTTC	1 cut(s)	769
PfeI	GAWTC	6 cut(s)	131, 263, 407, 508, 1122, 1136
PinAI	ACCGGT	1 cut(s)	821
PkrI	GCNGC	2 cut(s)	633, 859
PleI	GAGTC	1 cut(s)	72
PmeI	GTTTAAAC	1 cut(s)	675
PpsI	GAGTC	1 cut(s)	72
PscI	ACATGT	1 cut(s)	109
PstNI	CAGNNNCTG	1 cut(s)	181
PvuII	CAGCTG	1 cut(s)	857
RsaI	GTAC	2 cut(s)	652, 843
RsaNI	GTAC	2 cut(s)	651, 842
RseI	CAYNNNNRTG	2 cut(s)	837, 1116
SapI	GCTCTTC	1 cut(s)	981
SaqAI	TTAA	7 cut(s)	9, 192, 500, 674, 695, 777, 1170
SatI	GCNGC	2 cut(s)	632, 858
Sau3AI	GATC	4 cut(s)	142, 703, 1096, 1184
SchI	GAGTC	1 cut(s)	73
SfaNI	GCATC	3 cut(s)	282, 325, 860
SfcI	CTRYAG	1 cut(s)	550
SmiMI	CAYNNNNRTG	2 cut(s)	837, 1116
SmlI	CTYRAG	1 cut(s)	992
SmoI	CTYRAG	1 cut(s)	992
Sse9I	AATT	2 cut(s)	101, 250
SsiI	CCGC	2 cut(s)	21, 726
SspMI	CTAG	4 cut(s)	14, 296, 597, 1194
TaaI	ACNGT	3 cut(s)	310, 494, 671
TaiI	ACGT	1 cut(s)	1054
TaqI	TCGA	5 cut(s)	67, 149, 588, 720, 1125
TasI	AATT	2 cut(s)	101, 250
TatI	WGTACW	1 cut(s)	841
TfiI	GAWTC	6 cut(s)	131, 263, 407, 508, 1122, 1136
Tru1I	TTAA	7 cut(s)	9, 192, 500, 674, 695, 777, 1170
Tru9I	TTAA	7 cut(s)	9, 192, 500, 674, 695, 777, 1170
TseFI	GTSAC	2 cut(s)	224, 665
TseI	GCWGC	2 cut(s)	631, 857
Tsp45I	GTSAC	2 cut(s)	224, 665
TspDTI	ATGAA	6 cut(s)	177, 288, 401, 407, 878, 1128
TspGWI	ACGGA	2 cut(s)	1148, 1196
XapI	RAATTY	2 cut(s)	101, 250
XceI	RCATGY	1 cut(s)	113
XmiI	GTMKAC	1 cut(s)	489
XmnI	GAANNNNTTC	1 cut(s)	769
XspI	CTAG	4 cut(s)	14, 296, 597, 1194

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