Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0003805

Physical Location & Seq

Genomic Coordinates Forward (+)

20901243 .. 20902800

Gene Structure 1558 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G55890.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1197 bp

ATGTCGTCTCTATCTCGCGTTCTCCGTGGCACCTTCAACACTTGCCCGATCCGCCGTTTTTCCTCCGCCGCCACCGTAGTCTCCGAACCCACCGCAGTCACTGCCGCAATCTCGCCTCCTCAAAAGTCACTAACCAGTCTCGTGAATGGCGAACGAAACCCCAAACGGATCGTGGAGAAATTCAAGAAGGCATGTGAGTCGGAGCGGTTCCGGACCAACATAGCCGTGTACGATAGAACCGTGCGCCGTCTCGTAGCCGCAAAGAGATTACACTATGTCGAAGAGATTTTGGAGGAGCAGAAGAAGTACCGCGACATGTCAAAAGAGGGATTCGCGGCGAGGATCATTTCTCTGTATGGAAAAGCCGGCATGTTTGAAAATGCACAGAAGGTGTTCGAAGAAATGCCAAACAGAGACTGCAAGAGGTCAGTGTTGTCCTTCAATGCCTTGCTTAGTGCATATAGACTTTCCAAGAAATTCGATGTGGTTGAAGAACTTTTCAATGAGTTACCTGGAAAGTTATCAATCAAACCAGATATTGTATCTTACAATACTTTGATTAAGGCATTGTGTGAGAAGGATTCTTTACCTGAAGCTGTTGCATTGCTTGATGAGATTGAGAACAAGGGACTAAAACCTGATATAGTTACATTCAACACACTTTTACTGTCTTCGTATCTAAAGGGACAGTTTGAGCTAGGGGAAGAGATATGGGCTAAAATGGTGGAGAAGAATGTAGCAATAGACATCAGGACTTACAATGCTAGGCTGCTTGGATTAGCCAATGAGGCGAAATCGAAAGAGCTAGTAAATCTCTTTGGAGAACTTAAGGCTAGTGGGCTCAAACCTGATGTTTTCAGTTTCAATGCTATGATTAGAGGATCTATCAACGAAGGAAAAATGGACGAAGCTGAAGCGTGGTACAAAGAAATTGTGAAGCATGGTTATCGTCCTGATAAAGCTACCTTTGCTTTATTGCTTCCTGCTATGTGTAAAGCAGGTGACTTTGAGTCTGCGATTGAGCTCTTCAAGGAGACATTCAGTAAGCGGTATCTTGTCGGTCAAACAACGTTGCAGCAGTTAGTTGATGAATTGGTGAAAGGGTCTAAGAGAGAAGAAGCTGAGGAGATTGTGAAGATTGCAAAGACCAATGATTTCTTAAAGTTGAAGCTAAATTTGCCGTCCCAGGAAGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016020 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

398

Amino Acids

44.99

Weight (kDa)

8.9

Isoelectric Point (pI)

40.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	115 - 154	2.9e-06	PPR repeat family
PPR_3	PF13812	130 - 190	3.1e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	176 - 206	3.2e-08	PPR repeat
PPR_2	PF13041	178 - 222	1.5e-13	PPR repeat family
PPR_3	PF13812	202 - 255	8.4e-08	Pentatricopeptide repeat domain
PPR_3	PF13812	237 - 292	4.3e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	249 - 294	4.8e-07	PPR repeat family
PPR_2	PF13041	283 - 332	1.5e-11	PPR repeat family

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: OG0003805)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55890 AT3G13160
fragaria_vesca	FvH4_3g03043 FvH4_3g03070 FvH4_3g03080 FvH4_3g03160
malus_domestica	MD05G1334700.v1.1
prunus_persica	Prupe.4G030500_v2.0.a1
pyrus_communis	pycom05g30630 pycom10g26130
rosa_chinensis	RchiOBHm_Chr5g0004741 RchiOBHm_Chr5g0004781
rosa_laevigata	RLG00000030227 RLG00000030229 RLG00000031256 RLG00000031258 RLG00000031259 RLG00000031261
rosa_multiflora	Rmu_co8370515.1_g000001 Rmu_sc0002210.1_g000010 Rmu_sc0002210.1_g000016 Rmu_sc0008308.1_g000003 Rmu_sc0008308.1_g000014 Rmu_sc0010871.1_g000008 Rmu_sc0010871.1_g000027
rosa_roxburghii	Rroxscaffold_1G00070810 Rroxscaffold_1G00070830
rosa_samantha	Rh5BG041400 Rh5CG044900 Rh5CG045300 Rh5DG041300 Rh5DG041500 Rh5DG041800
rosa_wichuraiana	Rw5G004020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	989
Acc36I	ACCTGC	1 cut(s)	989
AccB1I	GGYRCC	1 cut(s)	29
AccBSI	CCGCTC	1 cut(s)	205
AccII	CGCG	3 cut(s)	18, 312, 335
AccIII	TCCGGA	1 cut(s)	210
AclI	AACGTT	1 cut(s)	1070
AclWI	GGATC	4 cut(s)	43, 176, 350, 889
AcsI	RAATTY	3 cut(s)	179, 476, 1174
AcuI	CTGAAG	2 cut(s)	612, 933
AfaI	GTAC	3 cut(s)	230, 308, 923
AflII	CTTAAG	1 cut(s)	827
AflIII	ACRYGT	1 cut(s)	315
AhdI	GACNNNNNGTC	1 cut(s)	1009
AjnI	CCWGG	2 cut(s)	511, 1185
AluBI	AGCT	8 cut(s)	596, 697, 805, 911, 962, 1024, 1121, 1171
AluI	AGCT	8 cut(s)	596, 697, 805, 911, 962, 1024, 1121, 1171
Alw21I	GWGCWC	1 cut(s)	1026
Alw26I	GTCTC	6 cut(s)	12, 85, 143, 254, 408, 1028
AlwI	GGATC	4 cut(s)	43, 176, 350, 889
AlwNI	CAGNNNCTG	2 cut(s)	101, 417
Aor13HI	TCCGGA	1 cut(s)	210
ApeKI	GCWGC	2 cut(s)	769, 1075
ApoI	RAATTY	3 cut(s)	179, 476, 1174
Asp700I	GAANNNNTTC	1 cut(s)	392
AspLEI	GCGC	1 cut(s)	246
AspS9I	GGNCC	1 cut(s)	213
AsuHPI	GGTGA	2 cut(s)	1013, 1108
AsuII	TTCGAA	1 cut(s)	396
AvaII	GGWCC	1 cut(s)	213
BanI	GGYRCC	1 cut(s)	29
BanII	GRGCYC	2 cut(s)	843, 1026
BauI	CACGAG	1 cut(s)	140
BbsI	GAAGAC	1 cut(s)	663
Bbv12I	GWGCWC	1 cut(s)	1026
BbvCI	CCTCAGC	1 cut(s)	1122
BbvI	GCAGC	2 cut(s)	756, 1087
BceAI	ACGGC	4 cut(s)	39, 209, 231, 1165
BcgI	CGANNNNNNTGC	4 cut(s)	180, 214, 929, 963
BciT130I	CCWGG	2 cut(s)	513, 1187
BcoDI	GTCTC	6 cut(s)	12, 85, 143, 254, 408, 1028
BfaI	CTAG	4 cut(s)	698, 765, 806, 834
BfrI	CTTAAG	1 cut(s)	827
BfuAI	ACCTGC	1 cut(s)	989
BglI	GCCNNNNNGGC	1 cut(s)	788
BisI	GCNGC	6 cut(s)	69, 105, 258, 336, 770, 1076
BlsI	GCNGC	6 cut(s)	70, 106, 259, 337, 771, 1077
Bme1390I	CCNGG	2 cut(s)	513, 1187
Bme18I	GGWCC	1 cut(s)	213
BmeRI	GACNNNNNGTC	1 cut(s)	1009
BmgT120I	GGNCC	1 cut(s)	213
BmiI	GGNNCC	2 cut(s)	31, 209
BmrFI	CCNGG	2 cut(s)	513, 1187
BpiI	GAAGAC	1 cut(s)	663
Bpu10I	CCTNAGC	1 cut(s)	1122
Bpu14I	TTCGAA	1 cut(s)	396
BsaJI	CCNNGG	2 cut(s)	25, 1185
BsaWI	WCCGGW	1 cut(s)	210
Bse118I	RCCGGY	1 cut(s)	365
Bse1I	ACTGG	1 cut(s)	135
Bse3DI	GCAATG	1 cut(s)	602
BseAI	TCCGGA	1 cut(s)	210
BseBI	CCWGG	2 cut(s)	513, 1187
BseDI	CCNNGG	2 cut(s)	25, 1185
BseMI	GCAATG	1 cut(s)	602
BseMII	CTCAG	1 cut(s)	1113
BseNI	ACTGG	1 cut(s)	135
BseRI	GAGGAG	3 cut(s)	108, 308, 1139
BseXI	GCAGC	2 cut(s)	756, 1087
Bsh1236I	CGCG	3 cut(s)	18, 312, 335
BshNI	GGYRCC	1 cut(s)	29
BsiHKAI	GWGCWC	1 cut(s)	1026
BsiSI	CCGG	2 cut(s)	211, 366
BslFI	GGGAC	3 cut(s)	642, 699, 1168
BsmAI	GTCTC	6 cut(s)	12, 85, 143, 254, 408, 1028
BsmBI	CGTCTC	2 cut(s)	12, 254
BsmFI	GGGAC	3 cut(s)	642, 699, 1168
Bsp119I	TTCGAA	1 cut(s)	396
Bsp1286I	GDGCHC	2 cut(s)	843, 1026
Bsp13I	TCCGGA	1 cut(s)	210
Bsp143I	GATC	4 cut(s)	48, 168, 342, 881
BspCNI	CTCAG	1 cut(s)	1114
BspEI	TCCGGA	1 cut(s)	210
BspFNI	CGCG	3 cut(s)	18, 312, 335
BspLI	GGNNCC	2 cut(s)	31, 209
BspMI	ACCTGC	1 cut(s)	989
BspPI	GGATC	4 cut(s)	43, 176, 350, 889
BspQI	GCTCTTC	1 cut(s)	1031
BspT104I	TTCGAA	1 cut(s)	396
BspT107I	GGYRCC	1 cut(s)	29
BspTI	CTTAAG	1 cut(s)	827
BsrBI	CCGCTC	1 cut(s)	205
BsrDI	GCAATG	1 cut(s)	602
BsrFI	RCCGGY	1 cut(s)	365
BsrI	ACTGG	1 cut(s)	135
BssAI	RCCGGY	1 cut(s)	365
BssECI	CCNNGG	2 cut(s)	25, 1185
BssMI	GATC	4 cut(s)	48, 168, 342, 881
BssSI	CACGAG	1 cut(s)	140
Bst2BI	CACGAG	1 cut(s)	140
Bst2UI	CCWGG	2 cut(s)	513, 1187
Bst4CI	ACNGT	4 cut(s)	76, 241, 669, 690
Bst6I	CTCTTC	4 cut(s)	276, 699, 1031, 1185
BstAFI	CTTAAG	1 cut(s)	827
BstAPI	GCANNNNNTGC	1 cut(s)	101
BstBI	TTCGAA	1 cut(s)	396
BstC8I	GCNNGC	1 cut(s)	367
BstDEI	CTNAG	3 cut(s)	452, 1107, 1122
BstDSI	CCRYGG	1 cut(s)	25
BstFNI	CGCG	3 cut(s)	18, 312, 335
BstHHI	GCGC	1 cut(s)	246
BstKTI	GATC	4 cut(s)	51, 171, 345, 884
BstMAI	GTCTC	6 cut(s)	12, 85, 143, 254, 408, 1028
BstMBI	GATC	4 cut(s)	48, 168, 342, 881
BstMWI	GCNNNNNNNGC	5 cut(s)	51, 101, 788, 968, 1177
BstNI	CCWGG	2 cut(s)	513, 1187
BstNSI	RCATGY	3 cut(s)	195, 319, 373
BstSCI	CCNGG	2 cut(s)	511, 1185
BstUI	CGCG	3 cut(s)	18, 312, 335
BstV1I	GCAGC	2 cut(s)	756, 1087
BstV2I	GAAGAC	1 cut(s)	663
BstX2I	RGATCY	1 cut(s)	881
BstYI	RGATCY	1 cut(s)	881
BtgI	CCRYGG	1 cut(s)	25
BtsI	GCAGTG	1 cut(s)	99
BtsIMutI	CAGTG	2 cut(s)	99, 435
BveI	ACCTGC	1 cut(s)	989
Cac8I	GCNNGC	1 cut(s)	367
CaiI	CAGNNNCTG	2 cut(s)	101, 417
CfoI	GCGC	1 cut(s)	246
Cfr10I	RCCGGY	1 cut(s)	365
Cfr13I	GGNCC	1 cut(s)	213
Csp6I	GTAC	3 cut(s)	229, 307, 922
CviAII	CATG	4 cut(s)	192, 316, 370, 941
CviQI	GTAC	3 cut(s)	229, 307, 922
DdeI	CTNAG	3 cut(s)	452, 1107, 1122
DpnI	GATC	4 cut(s)	50, 170, 344, 883
DpnII	GATC	4 cut(s)	48, 168, 342, 881
DriI	GACNNNNNGTC	1 cut(s)	1009
Eam1104I	CTCTTC	4 cut(s)	276, 699, 1031, 1185
Eam1105I	GACNNNNNGTC	1 cut(s)	1009
EarI	CTCTTC	4 cut(s)	276, 699, 1031, 1185
EciI	GGCGGA	2 cut(s)	41, 55
Ecl136II	GAGCTC	1 cut(s)	1024
Eco24I	GRGCYC	2 cut(s)	843, 1026
Eco47I	GGWCC	1 cut(s)	213
Eco53kI	GAGCTC	1 cut(s)	1024
Eco57I	CTGAAG	2 cut(s)	612, 933
EcoICRI	GAGCTC	1 cut(s)	1024
EcoRII	CCWGG	2 cut(s)	511, 1185
EcoT38I	GRGCYC	2 cut(s)	843, 1026
Esp3I	CGTCTC	2 cut(s)	12, 254
FaeI	CATG	4 cut(s)	195, 319, 373, 944
FaqI	GGGAC	3 cut(s)	642, 699, 1168
FatI	CATG	4 cut(s)	191, 315, 369, 940
Fnu4HI	GCNGC	6 cut(s)	69, 105, 258, 336, 770, 1076
FriOI	GRGCYC	2 cut(s)	843, 1026
Fsp4HI	GCNGC	6 cut(s)	69, 105, 258, 336, 770, 1076
FspBI	CTAG	4 cut(s)	698, 765, 806, 834
GlaI	GCGC	1 cut(s)	245
GluI	GCNGC	6 cut(s)	69, 105, 258, 336, 770, 1076
HapII	CCGG	2 cut(s)	211, 366
HhaI	GCGC	1 cut(s)	246
Hin1II	CATG	4 cut(s)	195, 319, 373, 944
Hin6I	GCGC	1 cut(s)	244
HinP1I	GCGC	1 cut(s)	244
HinfI	GANTC	4 cut(s)	197, 330, 581, 1010
HpaII	CCGG	2 cut(s)	211, 366
HphI	GGTGA	2 cut(s)	1013, 1108
Hpy166II	GTNNAC	1 cut(s)	229
Hpy188I	TCNGA	2 cut(s)	85, 202
Hpy188III	TCNNGA	5 cut(s)	142, 184, 211, 751, 953
Hpy8I	GTNNAC	1 cut(s)	229
HpyAV	CCTTC	6 cut(s)	43, 181, 382, 448, 571, 887
HpyCH4III	ACNGT	4 cut(s)	76, 241, 669, 690
HpyCH4IV	ACGT	1 cut(s)	1070
HpyCH4V	TGCA	6 cut(s)	383, 420, 458, 602, 1075, 1142
HpyF10VI	GCNNNNNNNGC	5 cut(s)	51, 101, 788, 968, 1177
HpyF3I	CTNAG	3 cut(s)	452, 1107, 1122
HpySE526I	ACGT	1 cut(s)	1070
Hsp92II	CATG	4 cut(s)	195, 319, 373, 944
HspAI	GCGC	1 cut(s)	244
Kpn2I	TCCGGA	1 cut(s)	210
KroI	GCCGGC	1 cut(s)	365
KroNI	GCCGGC	1 cut(s)	367
Kzo9I	GATC	4 cut(s)	48, 168, 342, 881
LguI	GCTCTTC	1 cut(s)	1031
LmnI	GCTCC	2 cut(s)	202, 295
Lsp1109I	GCAGC	2 cut(s)	756, 1087
MaeI	CTAG	4 cut(s)	698, 765, 806, 834
MaeII	ACGT	1 cut(s)	1070
MaeIII	GTNAC	5 cut(s)	97, 126, 507, 646, 1001
MalI	GATC	4 cut(s)	50, 170, 344, 883
MbiI	CCGCTC	1 cut(s)	205
MboI	GATC	4 cut(s)	48, 168, 342, 881
MflI	RGATCY	1 cut(s)	881
MhlI	GDGCHC	2 cut(s)	843, 1026
MluCI	AATT	5 cut(s)	179, 476, 930, 1091, 1174
MlyI	GAGTC	2 cut(s)	206, 1019
MmeI	TCCRAC	1 cut(s)	180
MroI	TCCGGA	1 cut(s)	210
MroNI	GCCGGC	1 cut(s)	365
MroXI	GAANNNNTTC	1 cut(s)	392
MseI	TTAA	3 cut(s)	561, 828, 1160
MslI	CAYNNNNRTG	1 cut(s)	224
MspCI	CTTAAG	1 cut(s)	827
MspI	CCGG	2 cut(s)	211, 366
MspR9I	CCNGG	2 cut(s)	513, 1187
MvaI	CCWGG	2 cut(s)	513, 1187
MvnI	CGCG	3 cut(s)	18, 312, 335
MwoI	GCNNNNNNNGC	5 cut(s)	51, 101, 788, 968, 1177
NaeI	GCCGGC	1 cut(s)	367
NdeII	GATC	4 cut(s)	48, 168, 342, 881
NgoMIV	GCCGGC	1 cut(s)	365
NlaIII	CATG	4 cut(s)	195, 319, 373, 944
NlaIV	GGNNCC	2 cut(s)	31, 209
NmuCI	GTSAC	3 cut(s)	97, 126, 1001
NspI	RCATGY	3 cut(s)	195, 319, 373
NspV	TTCGAA	1 cut(s)	396
PaqCI	CACCTGC	1 cut(s)	989
PciI	ACATGT	1 cut(s)	315
PciSI	GCTCTTC	1 cut(s)	1031
PcsI	WCGNNNNNNNCGW	3 cut(s)	22, 147, 237
PdiI	GCCGGC	1 cut(s)	367
PdmI	GAANNNNTTC	1 cut(s)	392
PfeI	GAWTC	2 cut(s)	330, 581
PkrI	GCNGC	6 cut(s)	70, 106, 259, 337, 771, 1077
PleI	GAGTC	2 cut(s)	205, 1018
PpsI	GAGTC	2 cut(s)	205, 1018
PscI	ACATGT	1 cut(s)	315
Psp124BI	GAGCTC	1 cut(s)	1026
Psp1406I	AACGTT	1 cut(s)	1070
Psp6I	CCWGG	2 cut(s)	511, 1185
PspGI	CCWGG	2 cut(s)	511, 1185
PspN4I	GGNNCC	2 cut(s)	31, 209
PspPI	GGNCC	1 cut(s)	213
PstNI	CAGNNNCTG	2 cut(s)	101, 417
PsuI	RGATCY	1 cut(s)	881
RsaI	GTAC	3 cut(s)	230, 308, 923
RsaNI	GTAC	3 cut(s)	229, 307, 922
RseI	CAYNNNNRTG	1 cut(s)	224
SacI	GAGCTC	1 cut(s)	1026
SapI	GCTCTTC	1 cut(s)	1031
SaqAI	TTAA	3 cut(s)	561, 828, 1160
SatI	GCNGC	6 cut(s)	69, 105, 258, 336, 770, 1076
Sau3AI	GATC	4 cut(s)	48, 168, 342, 881
Sau96I	GGNCC	1 cut(s)	213
SchI	GAGTC	2 cut(s)	206, 1019
ScrFI	CCNGG	2 cut(s)	513, 1187
SduI	GDGCHC	2 cut(s)	843, 1026
SfuI	TTCGAA	1 cut(s)	396
SinI	GGWCC	1 cut(s)	213
SmiMI	CAYNNNNRTG	1 cut(s)	224
SmlI	CTYRAG	1 cut(s)	827
SmoI	CTYRAG	1 cut(s)	827
Sse9I	AATT	5 cut(s)	179, 476, 930, 1091, 1174
SspMI	CTAG	4 cut(s)	698, 765, 806, 834
SstI	GAGCTC	1 cut(s)	1026
StyD4I	CCNGG	2 cut(s)	511, 1185
TaaI	ACNGT	4 cut(s)	76, 241, 669, 690
TaiI	ACGT	1 cut(s)	1073
TaqI	TCGA	4 cut(s)	279, 396, 480, 797
TaqII	GACCGA	1 cut(s)	1049
TasI	AATT	5 cut(s)	179, 476, 930, 1091, 1174
TauI	GCSGC	4 cut(s)	71, 107, 260, 338
TfiI	GAWTC	2 cut(s)	330, 581
Tru1I	TTAA	3 cut(s)	561, 828, 1160
Tru9I	TTAA	3 cut(s)	561, 828, 1160
TscAI	CASTG	2 cut(s)	106, 435
TseFI	GTSAC	3 cut(s)	97, 126, 1001
TseI	GCWGC	2 cut(s)	769, 1075
Tsp45I	GTSAC	3 cut(s)	97, 126, 1001
TspDTI	ATGAA	1 cut(s)	1104
TspGWI	ACGGA	2 cut(s)	14, 181
TspRI	CASTG	2 cut(s)	106, 435
Vha464I	CTTAAG	1 cut(s)	827
VpaK11BI	GGWCC	1 cut(s)	213
XapI	RAATTY	3 cut(s)	179, 476, 1174
XceI	RCATGY	3 cut(s)	195, 319, 373
XcmI	CCANNNNNNNNNTGG	1 cut(s)	169
XmnI	GAANNNNTTC	1 cut(s)	392
XspI	CTAG	4 cut(s)	698, 765, 806, 834

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