Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0011389

Physical Location & Seq

Genomic Coordinates Reverse (-)

575756 .. 577303

Gene Structure 1548 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT4G01400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1401 bp

ATGATTCGCCGGCCGATCTACGACTTCGCCGCCGTTTTTCGCCACTTAACTTCTCCGTTATCGACATCCTCGCGTTTTCTGTTCTATTCTTCATCTGAACATGAAGCTCGAAAACCGATTGTCTCGAACCCTAAATCCCCAATCGGGTCTCCGACTCGGGTTCAAAAGCTCATAGCTTCGCAATCGGATCCTCTCCTCGCCAAGGAGATTTTCGATTATGCTTCTCAACAGCCCAATTTCCGCCATTCTCGATCTTCTCATCTAATCCTCATTCTCAAACTCGGCCGTGGTAGATATTTCAATCTTATCGACGACGTTCTCGCCAAACACAGATCAAGTGGTTATCCATTAACCGGAGAAATTTTCACTTATCTGATCAAAGTCTACGCAGAAGCAAAGTTACCGGAGAAAGTCTTAAGTACGTTTTACAAAATGCTGGAGTTCAATTTCACGCCGCAGCCAAAACATCTGAATCGGATTCTAGATGTTCTCGTAAGCCATAGAGGTTATCTCCAGAAAGCTTTTGAGCTTTTCAAGAGTTCACGGCTTCATGGAGTAATGCCTAACACGAGAAGTTACAATTTATTGATGCAAGCTTTTTGTTTGAATGATGATTTGAGTATTGCATACCAACTGTTTGGTAAAATGCTTGAGAGAGATGTTGTCCCTGATGTGGATTCTTATAAGATTCTGATACAAGGGTTTTGTAGGAAAGGTCAAGTGAATGGTGCTATGGAATTACTTGATGATATGTTGAATAAAGGATTCGTGCCTGATAGGTTAAGTTACACGACATTGTTGAACAGTTTGTGTAGGAAGACACAGCTTAGAGAGGCTTATAAGCTTCTATGTAGGATGAAGTTAAAAGGTTGTAATCCTGATCTTGTTCATTACAACACGATGATTCTCGGGTTTTGTAGAGAAGATCGTGCGATGGATGCTAGGAAAGTTCTTGATGATATGTTGTCTAACGGTTGCTCGCCTAATTCGGTCTCGTATAGGACTTTGATTGGAGGATTGTGTGATCAAGGAATGTTTGATGAAGGGAAGAAGTATCTAGAAGAGATGATATCCAAAGGGTTTTCTCCTCATTTCTCGGTTTCAAATTGTTTGGTAAAAGGGTTTTGTAGCTTCGGGAAAGTCGAAGAAGCTTGTGATGTTGTAGAGGTTGTGATGAAGAACGGAGAAACATTGCATTCAGACACTTGGGAGATGGTAATTCCATTAATCTGTAATGAAGATGAGTCGGAGAAGATCAAACTGTTTCTTGAAGATGCTGTAAAGGAAGAAATAACCGGTGATACCAGAATCGTTGATGTCGGTATCGGTTTAGGATCTTACCTTTCTAGTAAGCTACAGATGAAACGTAAAAATGCTAGAGAGAGGAGGAGACATTTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000301 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0006139 GO:0006725 GO:0006807 GO:0006810 GO:0006890 GO:0006891 GO:0006996 GO:0007030 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010256 GO:0012505 GO:0016043 GO:0016070 GO:0016192 GO:0016787 GO:0016788 GO:0017119 GO:0022607 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048193 GO:0048213 GO:0051179 GO:0051234 GO:0065003 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0099023 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

COG4 PPR PPR_2 RINT1_TIP1

Protein Analysis

466

Amino Acids

53.25

Weight (kDa)

8.96

Isoelectric Point (pI)

39.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	114 - 243	5e-06	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	185 - 216	3.9e-06	PPR repeat
PPR_2	PF13041	188 - 237	4.7e-13	PPR repeat family
PPR_1	PF12854	220 - 251	9.3e-11	PPR repeat
PPR_2	PF13041	227 - 272	3.5e-14	PPR repeat family
PPR	PF01535	227 - 256	8.1e-07	PPR repeat
PPR_long	PF17177	243 - 364	1e-05	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	247 - 306	5.5e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	254 - 287	6.7e-09	PPR repeat
PPR	PF01535	262 - 291	8.9e-06	PPR repeat
PPR_2	PF13041	262 - 295	3.9e-08	PPR repeat family
PPR_1	PF12854	289 - 321	1.5e-10	PPR repeat
PPR_2	PF13041	293 - 342	5.6e-16	PPR repeat family
PPR	PF01535	296 - 326	3.5e-06	PPR repeat
PPR_1	PF12854	324 - 356	1.5e-08	PPR repeat
PPR_2	PF13041	328 - 363	3.8e-06	PPR repeat family
PPR	PF01535	331 - 361	2e-06	PPR repeat

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: OG0011389)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01400
fragaria_vesca	FvH4_7g17740 FvH4_7g17740 FvH4_7g17740
malus_domestica	MD01G1088700.v1.1
prunus_persica	Prupe.2G196300_v2.0.a1
pyrus_communis	pycom01g11310
rosa_chinensis	RchiOBHm_Chr1g0361141
rosa_laevigata	RLG00000027746
rosa_multiflora	Rmu_sc0002863.1_g000035 Rmu_sc0020096.1_g000003
rosa_roxburghii	Rroxscaffold_4G00295390
rosa_rugosa	Rorug01G0286000 Rorug02G0035000
rosa_samantha	Rh1AG297500 Rh1BG261600 Rh1CG278900 Rh1DG291400
rosa_wichuraiana	Rw1G026270 Rw1G026900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	684, 840
AccI	GTMKAC	1 cut(s)	384
AccII	CGCG	1 cut(s)	73
AciI	CCGC	3 cut(s)	30, 241, 455
AclWI	GGATC	3 cut(s)	182, 195, 1342
AcoI	YGGCCR	2 cut(s)	11, 283
AcsI	RAATTY	1 cut(s)	360
AfaI	GTAC	1 cut(s)	421
AfiI	CCNNNNNNNGG	4 cut(s)	144, 202, 353, 673
AflII	CTTAAG	1 cut(s)	415
AgeI	ACCGGT	1 cut(s)	1295
AgsI	TTSAA	9 cut(s)	164, 301, 445, 535, 607, 757, 802, 1104, 1271
AjuI	GAANNNNNNNTTGG	2 cut(s)	194, 226
AloI	GAACNNNNNNTCC	2 cut(s)	119, 151
Alw26I	GTCTC	4 cut(s)	127, 153, 997, 1384
AlwI	GGATC	3 cut(s)	182, 195, 1342
Ama87I	CYCGRG	2 cut(s)	156, 908
AoxI	GGCC	2 cut(s)	11, 283
ApeKI	GCWGC	1 cut(s)	457
ApoI	RAATTY	1 cut(s)	360
AseI	ATTAAT	1 cut(s)	1226
AsiGI	ACCGGT	1 cut(s)	1295
AsuHPI	GGTGA	1 cut(s)	1310
AvaI	CYCGRG	2 cut(s)	156, 908
BaeI	ACNNNNGTAYC	2 cut(s)	686, 719
BamHI	GGATCC	1 cut(s)	187
BarI	GAAGNNNNNNTAC	2 cut(s)	384, 416
BauI	CACGAG	1 cut(s)	568
BbsI	GAAGAC	1 cut(s)	824
BbvI	GCAGC	1 cut(s)	469
BccI	CCATC	2 cut(s)	928, 1207
BceAI	ACGGC	3 cut(s)	17, 270, 560
BclI	TGATCA	2 cut(s)	375, 1024
BcoDI	GTCTC	4 cut(s)	127, 153, 997, 1384
BfaI	CTAG	5 cut(s)	482, 942, 1058, 1347, 1377
BfmI	CTRYAG	1 cut(s)	1355
BfrI	CTTAAG	1 cut(s)	415
BisI	GCNGC	3 cut(s)	30, 455, 458
BlsI	GCNGC	3 cut(s)	31, 456, 459
BmeT110I	CYCGRG	2 cut(s)	156, 908
BmiI	GGNNCC	1 cut(s)	189
BmsI	GCATC	3 cut(s)	579, 928, 1264
BpiI	GAAGAC	1 cut(s)	824
BplI	GAGNNNNNCTC	2 cut(s)	495, 527
BpmI	CTGGAG	2 cut(s)	458, 497
BpuEI	CTTGAG	1 cut(s)	671
BsaI	GGTCTC	2 cut(s)	153, 997
BsaJI	CCNNGG	2 cut(s)	201, 286
BsaWI	WCCGGW	3 cut(s)	353, 403, 1295
Bsc4I	CCNNNNNNNGG	4 cut(s)	144, 202, 353, 673
Bse118I	RCCGGY	2 cut(s)	9, 1295
Bse3DI	GCAATG	1 cut(s)	1190
BseDI	CCNNGG	2 cut(s)	201, 286
BseGI	GGATG	3 cut(s)	65, 861, 943
BseLI	CCNNNNNNNGG	4 cut(s)	144, 202, 353, 673
BseMI	GCAATG	1 cut(s)	1190
BseRI	GAGGAG	3 cut(s)	185, 1077, 1399
BseX3I	CGGCCG	2 cut(s)	11, 283
BseXI	GCAGC	1 cut(s)	469
Bsh1236I	CGCG	1 cut(s)	73
Bsh1285I	CGRYCG	2 cut(s)	14, 286
BshFI	GGCC	2 cut(s)	13, 285
BshTI	ACCGGT	1 cut(s)	1295
BsiEI	CGRYCG	2 cut(s)	14, 286
BsiHKCI	CYCGRG	2 cut(s)	156, 908
BsiSI	CCGG	4 cut(s)	10, 354, 404, 1296
BslFI	GGGAC	1 cut(s)	650
BslI	CCNNNNNNNGG	4 cut(s)	144, 202, 353, 673
BsmAI	GTCTC	4 cut(s)	127, 153, 997, 1384
BsmFI	GGGAC	1 cut(s)	650
BsmI	GAATGC	1 cut(s)	1195
BsnI	GGCC	2 cut(s)	13, 285
Bso31I	GGTCTC	2 cut(s)	153, 997
BsoBI	CYCGRG	2 cut(s)	156, 908
BspACI	CCGC	3 cut(s)	30, 241, 455
BspANI	GGCC	2 cut(s)	13, 285
BspFNI	CGCG	1 cut(s)	73
BspLI	GGNNCC	1 cut(s)	189
BspPI	GGATC	3 cut(s)	182, 195, 1342
BspTI	CTTAAG	1 cut(s)	415
BspTNI	GGTCTC	2 cut(s)	153, 997
BsrDI	GCAATG	1 cut(s)	1190
BsrFI	RCCGGY	2 cut(s)	9, 1295
BssAI	RCCGGY	2 cut(s)	9, 1295
BssECI	CCNNGG	2 cut(s)	201, 286
BssSI	CACGAG	1 cut(s)	568
BssT1I	CCWWGG	1 cut(s)	201
Bst2BI	CACGAG	1 cut(s)	568
Bst4CI	ACNGT	4 cut(s)	636, 806, 974, 1263
Bst6I	CTCTTC	1 cut(s)	1056
BstAFI	CTTAAG	1 cut(s)	415
BstC8I	GCNNGC	3 cut(s)	11, 594, 980
BstDEI	CTNAG	1 cut(s)	827
BstDSI	CCRYGG	1 cut(s)	286
BstENI	CCTNNNNNAGG	1 cut(s)	200
BstF5I	GGATG	3 cut(s)	65, 861, 943
BstFNI	CGCG	1 cut(s)	73
BstMAI	GTCTC	4 cut(s)	127, 153, 997, 1384
BstMCI	CGRYCG	2 cut(s)	14, 286
BstMWI	GCNNNNNNNGC	1 cut(s)	938
BstSFI	CTRYAG	1 cut(s)	1355
BstUI	CGCG	1 cut(s)	73
BstV1I	GCAGC	1 cut(s)	469
BstV2I	GAAGAC	1 cut(s)	824
BstX2I	RGATCY	2 cut(s)	187, 1334
BstXI	CCANNNNNNTGG	1 cut(s)	638
BstYI	RGATCY	2 cut(s)	187, 1334
BstZI	CGGCCG	2 cut(s)	11, 283
BsuRI	GGCC	2 cut(s)	13, 285
BtgI	CCRYGG	1 cut(s)	286
BtgZI	GCGATG	1 cut(s)	947
BtsCI	GGATG	3 cut(s)	65, 861, 943
Cac8I	GCNNGC	3 cut(s)	11, 594, 980
Cfr10I	RCCGGY	2 cut(s)	9, 1295
Csp6I	GTAC	1 cut(s)	420
CspAI	ACCGGT	1 cut(s)	1295
CviAII	CATG	2 cut(s)	101, 551
CviQI	GTAC	1 cut(s)	420
DdeI	CTNAG	1 cut(s)	827
EaeI	YGGCCR	2 cut(s)	11, 283
EagI	CGGCCG	2 cut(s)	11, 283
Eam1104I	CTCTTC	1 cut(s)	1056
EarI	CTCTTC	1 cut(s)	1056
EciI	GGCGGA	1 cut(s)	230
EclXI	CGGCCG	2 cut(s)	11, 283
Eco130I	CCWWGG	1 cut(s)	201
Eco31I	GGTCTC	2 cut(s)	153, 997
Eco32I	GATATC	1 cut(s)	1071
Eco52I	CGGCCG	2 cut(s)	11, 283
Eco88I	CYCGRG	2 cut(s)	156, 908
EcoNI	CCTNNNNNAGG	1 cut(s)	200
EcoRV	GATATC	1 cut(s)	1071
EcoT14I	CCWWGG	1 cut(s)	201
ErhI	CCWWGG	1 cut(s)	201
FaeI	CATG	2 cut(s)	104, 554
FaqI	GGGAC	1 cut(s)	650
FatI	CATG	2 cut(s)	100, 550
FbaI	TGATCA	2 cut(s)	375, 1024
FblI	GTMKAC	1 cut(s)	384
Fnu4HI	GCNGC	3 cut(s)	30, 455, 458
FokI	GGATG	3 cut(s)	52, 868, 950
Fsp4HI	GCNGC	3 cut(s)	30, 455, 458
FspBI	CTAG	5 cut(s)	482, 942, 1058, 1347, 1377
GluI	GCNGC	3 cut(s)	30, 455, 458
GsuI	CTGGAG	2 cut(s)	458, 497
HaeIII	GGCC	2 cut(s)	13, 285
HapII	CCGG	4 cut(s)	10, 354, 404, 1296
Hin1II	CATG	2 cut(s)	104, 554
HindIII	AAGCTT	4 cut(s)	519, 594, 842, 1149
HpaII	CCGG	4 cut(s)	10, 354, 404, 1296
HphI	GGTGA	1 cut(s)	1310
Hpy166II	GTNNAC	2 cut(s)	385, 542
Hpy188I	TCNGA	9 cut(s)	97, 153, 187, 375, 471, 477, 693, 1201, 1249
Hpy8I	GTNNAC	2 cut(s)	385, 542
Hpy99I	CGWCG	2 cut(s)	314, 317
HpyAV	CCTTC	1 cut(s)	1037
HpyCH4III	ACNGT	4 cut(s)	636, 806, 974, 1263
HpyCH4IV	ACGT	3 cut(s)	315, 422, 1366
HpyCH4V	TGCA	3 cut(s)	592, 626, 1195
HpyF10VI	GCNNNNNNNGC	1 cut(s)	938
HpyF3I	CTNAG	1 cut(s)	827
HpySE526I	ACGT	3 cut(s)	315, 422, 1366
Hsp92II	CATG	2 cut(s)	104, 554
KroI	GCCGGC	1 cut(s)	9
KroNI	GCCGGC	1 cut(s)	11
Ksp22I	TGATCA	2 cut(s)	375, 1024
Lsp1109I	GCAGC	1 cut(s)	469
LweI	GCATC	3 cut(s)	579, 928, 1264
MaeI	CTAG	5 cut(s)	482, 942, 1058, 1347, 1377
MaeII	ACGT	3 cut(s)	315, 422, 1366
MaeIII	GTNAC	3 cut(s)	399, 575, 785
MflI	RGATCY	2 cut(s)	187, 1334
MluCI	AATT	8 cut(s)	235, 360, 445, 580, 737, 985, 1105, 1218
MlyI	GAGTC	2 cut(s)	148, 1253
MmeI	TCCRAC	2 cut(s)	176, 1227
MroNI	GCCGGC	1 cut(s)	9
MseI	TTAA	6 cut(s)	47, 350, 416, 782, 863, 1226
MspCI	CTTAAG	1 cut(s)	415
MspI	CCGG	4 cut(s)	10, 354, 404, 1296
Mva1269I	GAATGC	1 cut(s)	1195
MvnI	CGCG	1 cut(s)	73
MwoI	GCNNNNNNNGC	1 cut(s)	938
NaeI	GCCGGC	1 cut(s)	11
NgoMIV	GCCGGC	1 cut(s)	9
NlaIII	CATG	2 cut(s)	104, 554
NlaIV	GGNNCC	1 cut(s)	189
NmeAIII	GCCGAG	1 cut(s)	261
PcsI	WCGNNNNNNNCGW	1 cut(s)	1140
PctI	GAATGC	1 cut(s)	1195
PdiI	GCCGGC	1 cut(s)	11
PfeI	GAWTC	8 cut(s)	4, 472, 478, 677, 688, 765, 904, 1308
PinAI	ACCGGT	1 cut(s)	1295
PkrI	GCNGC	3 cut(s)	31, 456, 459
PleI	GAGTC	2 cut(s)	148, 1252
PpsI	GAGTC	2 cut(s)	148, 1252
PshBI	ATTAAT	1 cut(s)	1226
PsiI	TTATAA	2 cut(s)	684, 840
PspN4I	GGNNCC	1 cut(s)	189
PsuI	RGATCY	2 cut(s)	187, 1334
RsaI	GTAC	1 cut(s)	421
RsaNI	GTAC	1 cut(s)	420
SaqAI	TTAA	6 cut(s)	47, 350, 416, 782, 863, 1226
SatI	GCNGC	3 cut(s)	30, 455, 458
SchI	GAGTC	2 cut(s)	148, 1253
SfaNI	GCATC	3 cut(s)	579, 928, 1264
SfcI	CTRYAG	1 cut(s)	1355
SmlI	CTYRAG	2 cut(s)	415, 650
SmoI	CTYRAG	2 cut(s)	415, 650
Sse9I	AATT	8 cut(s)	235, 360, 445, 580, 737, 985, 1105, 1218
SsiI	CCGC	3 cut(s)	30, 241, 455
SspMI	CTAG	5 cut(s)	482, 942, 1058, 1347, 1377
StyI	CCWWGG	1 cut(s)	201
TaaI	ACNGT	4 cut(s)	636, 806, 974, 1263
TaiI	ACGT	3 cut(s)	318, 425, 1369
TaqI	TCGA	7 cut(s)	62, 109, 125, 213, 250, 309, 1143
TaqII	GACCGA	1 cut(s)	979
TasI	AATT	8 cut(s)	235, 360, 445, 580, 737, 985, 1105, 1218
TauI	GCSGC	2 cut(s)	32, 457
TfiI	GAWTC	8 cut(s)	4, 472, 478, 677, 688, 765, 904, 1308
Tru1I	TTAA	6 cut(s)	47, 350, 416, 782, 863, 1226
Tru9I	TTAA	6 cut(s)	47, 350, 416, 782, 863, 1226
TseI	GCWGC	1 cut(s)	457
TspDTI	ATGAA	9 cut(s)	81, 117, 539, 872, 878, 1056, 1190, 1251, 1376
TspGWI	ACGGA	2 cut(s)	45, 1197
Vha464I	CTTAAG	1 cut(s)	415
VspI	ATTAAT	1 cut(s)	1226
XagI	CCTNNNNNAGG	1 cut(s)	200
XapI	RAATTY	1 cut(s)	360
XbaI	TCTAGA	2 cut(s)	481, 1057
XmiI	GTMKAC	1 cut(s)	384
XspI	CTAG	5 cut(s)	482, 942, 1058, 1347, 1377

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