Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0001105

Physical Location & Seq

Genomic Coordinates Forward (+)

19521654 .. 19525009

Gene Structure 3356 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G52660.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1416 bp

ATGTCAAGGACGAGGACTGCTGCTTCTGAGGCTCATGACTCCATGGAATCTGAGGAAAGGGTAGACCTTGATGGTGACAATGATCCTGAGGAGATTCTGGAGGAGGAAGTTGAATACGAAGAAGTTGAAGAGGAGGAGATTGAAGAGATAGAAGAGGAGATAGAGGAGGAGGTTGAAGTGGAAGAAGAGGAGGAGGAGGAGGATGCTGTTGCAACGGAAGAGGAAGAAGAAAAGAAAAGGCATGTTGAACTTCTTGCACTTCCTCCACATGGTTCAGAGGTTTATCTTGGAGGGATTCCTACTGATGCTACTGAAGGGGACTTAAAGGGCTTCTGTGGATCTATAGGAGAAGTTACTGAGGTTAGGATAATGAGGGAAAAGGATTCTGGTGATGGAAAGGGGTATGCATTTGTAACATTCAGAAGTAAGGACTTAGCTGCTGAAGCAATTGATACTCTAAATAACACTGACTTCAGAGGTAAAAGGATAAAATGTTCGACTACCCAAGCAAAGCATCGTCTCTTTCTTGGTAATGTCCCTAGAAATTGGATGGAGTCAGACATTAAGAAAGCAGCAAATAGAATTGGTCCAGGCGTTCAAATTGTCGAACTCCCAAAGGAACCACAAAATATGGGCCGGAATCGTGGATTTGCTTTCATCGAGTATTACAACCATGCATGTGCTGAATACTCGAAACAAAAAATGTCAAATCCGAGTTTTAAGCTTGATGATAATGCCCCAACTGTAAGCTGGGCTGAATCAAGGAGTGGAGGAGGAGGAGATTCTTCGGCTTCCCAGGTCAAGGCATTGTACATCAAGAACTTACCTAGAGATATAACACAAGAGCGTCTAAAGGCATTATTTGAACATCACGGGAAAATACTGAAAGTGGTGATCCCACCAGCAAAACCAGGAAAGGAAGACAGTAGATACGGATTTGTGCATTATGCAGAGAGGACAAGTGTCATGCGAGCTTTGAAAAACACTGAAAGATATGAGATTGATGGTCATATGTTGGATTGTACTCTGGCAAAGCCTCAAGCTGATCAAAAGACGAATACAAATACAGTTCAGAATGTGCAGAAATCACAATTGCAACCAAACTATCCTCCTCTTCTTAGTTATGGCATGGCTCCTAGTCCCTTTGGTGCTCTCGGTGGATTTGGAGCTTCTGCCTACTCACAACCATTAATGCATGCCGGAGGTCACGCAGCCGGTGGAATGTCGATGATGCCAATCATGTTACCCGATGGGAGAATCGGATACGTCTTGCAACAGCCTGGACTAGCAGCTATGCCGCAACCACCACCAAGGCATTCTCCACCGTATAGGGGAGGCAGCGGTTCGAGCAGCAGCAGCGGCAGCAAACGAAGTAGTGACAACGGTAGAGGACGAAGCCGTTACAATCCTTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016553 GO:0016554 GO:0030895 GO:0031647 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0050821 GO:0065007 GO:0065008 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1 bZIP_2

Protein Analysis

471

Amino Acids

52.08

Weight (kDa)

5.02

Isoelectric Point (pI)

66.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	94 - 164	9.5e-18	RNA recognition motif
RRM_1	PF00076	174 - 237	1.2e-07	RNA recognition motif
RRM_1	PF00076	270 - 338	1.6e-13	RNA recognition motif

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: OG0001105)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52660 AT3G52660 AT3G52660 AT5G28390
fragaria_vesca	FvH4_3g24960 FvH4_3g24960 FvH4_3g24960 FvH4_3g24960 FvH4_3g24960 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900 FvH4_6g18900
malus_domestica	MD11G1164700.v1.1 MD12G1025200.v1.1 MD14G1023900.v1.1
prunus_persica	Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.6G130600_v2.0.a1 Prupe.7G108900_v2.0.a1 Prupe.7G108900_v2.0.a1 Prupe.7G108900_v2.0.a1
pyrus_communis	pycom11g13700 pycom14g02300
rosa_chinensis	RchiOBHm_Chr3g0473891 RchiOBHm_Chr5g0044751
rosa_laevigata	RLG00000023975 RLG00000034296
rosa_multiflora	Rmu_sc0000228.1_g000015 Rmu_sc0002414.1_g000043
rosa_roxburghii	Rroxscaffold_1G00036280 Rroxscaffold_6G00407690
rosa_rugosa	Rorug03G0136400 Rorug03G0136500 Rorug03G0136600 Rorug05G0217300 Rorug05G0217400 Rorug05G0217500 Rorug05G0217600 Rorug05G0217700
rosa_samantha	Rh3AG186900 Rh3BG215500 Rh3CG212200 Rh3DG211400 Rh5AG300700 Rh5BG307400 Rh5CG334500 Rh5DG317500
rosa_wichuraiana	Rw3G017090 Rw5G027820 Rw5G027860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	63
AciI	CCGC	3 cut(s)	1298, 1341, 1359
AclWI	GGATC	3 cut(s)	77, 346, 889
AcuI	CTGAAG	3 cut(s)	333, 457, 462
AfaI	GTAC	2 cut(s)	812, 1024
AfiI	CCNNNNNNNGG	3 cut(s)	269, 802, 1331
AgsI	TTSAA	8 cut(s)	113, 128, 143, 176, 248, 599, 866, 979
AjnI	CCWGG	4 cut(s)	589, 795, 910, 1279
AloI	GAACNNNNNNTCC	2 cut(s)	478, 510
AluBI	AGCT	7 cut(s)	437, 724, 750, 974, 1043, 1169, 1292
AluI	AGCT	7 cut(s)	437, 724, 750, 974, 1043, 1169, 1292
Alw21I	GWGCWC	1 cut(s)	1153
Alw26I	GTCTC	1 cut(s)	524
AlwI	GGATC	3 cut(s)	77, 346, 889
AoxI	GGCC	1 cut(s)	634
AseI	ATTAAT	1 cut(s)	1190
AspS9I	GGNCC	2 cut(s)	587, 634
AsuHPI	GGTGA	3 cut(s)	86, 401, 904
AvaII	GGWCC	1 cut(s)	587
AxyI	CCTNAGG	1 cut(s)	87
BbsI	GAAGAC	1 cut(s)	927
Bbv12I	GWGCWC	1 cut(s)	1153
BccI	CCATC	5 cut(s)	65, 386, 544, 998, 1244
BceAI	ACGGC	1 cut(s)	1383
BciT130I	CCWGG	4 cut(s)	591, 797, 912, 1281
BciVI	GTATCC	1 cut(s)	1256
BclI	TGATCA	1 cut(s)	1045
BcoDI	GTCTC	1 cut(s)	524
BfaI	CTAG	4 cut(s)	540, 828, 1137, 1286
BfmI	CTRYAG	1 cut(s)	342
BfuI	GTATCC	1 cut(s)	1256
Bme1390I	CCNGG	4 cut(s)	591, 797, 912, 1281
Bme18I	GGWCC	1 cut(s)	587
BmgT120I	GGNCC	2 cut(s)	587, 634
BmiI	GGNNCC	2 cut(s)	621, 1134
BmrFI	CCNGG	4 cut(s)	591, 797, 912, 1281
BmsI	GCATC	4 cut(s)	193, 295, 523, 1221
BoxI	GACNNNNGTC	1 cut(s)	962
BpiI	GAAGAC	1 cut(s)	927
BpmI	CTGGAG	1 cut(s)	119
BpuEI	CTTGAG	1 cut(s)	1023
BsaBI	GATNNNNATC	1 cut(s)	1235
BsaJI	CCNNGG	3 cut(s)	42, 795, 1310
Bsc4I	CCNNNNNNNGG	3 cut(s)	269, 802, 1331
Bse118I	RCCGGY	1 cut(s)	1214
Bse21I	CCTNAGG	1 cut(s)	87
Bse8I	GATNNNNATC	1 cut(s)	1235
BseBI	CCWGG	4 cut(s)	591, 797, 912, 1281
BseDI	CCNNGG	3 cut(s)	42, 795, 1310
BseGI	GGATG	2 cut(s)	208, 555
BseJI	GATNNNNATC	1 cut(s)	1235
BseLI	CCNNNNNNNGG	3 cut(s)	269, 802, 1331
BseMII	CTCAG	4 cut(s)	18, 42, 78, 348
BseYI	CCCAGC	1 cut(s)	750
BsgI	GTGCAG	1 cut(s)	1100
BshFI	GGCC	1 cut(s)	636
BsiHKAI	GWGCWC	1 cut(s)	1153
BsiSI	CCGG	3 cut(s)	637, 1200, 1215
BslFI	GGGAC	3 cut(s)	332, 521, 1125
BslI	CCNNNNNNNGG	3 cut(s)	269, 802, 1331
BsmAI	GTCTC	1 cut(s)	524
BsmBI	CGTCTC	1 cut(s)	524
BsmFI	GGGAC	3 cut(s)	332, 521, 1125
BsmI	GAATGC	1 cut(s)	1315
BsnI	GGCC	1 cut(s)	636
Bsp1286I	GDGCHC	1 cut(s)	1153
Bsp1407I	TGTACA	1 cut(s)	810
Bsp143I	GATC	4 cut(s)	82, 338, 894, 1045
Bsp19I	CCATGG	1 cut(s)	42
BspACI	CCGC	3 cut(s)	1298, 1341, 1359
BspANI	GGCC	1 cut(s)	636
BspCNI	CTCAG	4 cut(s)	19, 43, 79, 349
BspHI	TCATGA	1 cut(s)	34
BspLI	GGNNCC	2 cut(s)	621, 1134
BspPI	GGATC	3 cut(s)	77, 346, 889
BsrFI	RCCGGY	1 cut(s)	1214
BsrGI	TGTACA	1 cut(s)	810
BssAI	RCCGGY	1 cut(s)	1214
BssECI	CCNNGG	3 cut(s)	42, 795, 1310
BssMI	GATC	4 cut(s)	82, 338, 894, 1045
BssT1I	CCWWGG	2 cut(s)	42, 1310
Bst2UI	CCWGG	4 cut(s)	591, 797, 912, 1281
Bst4CI	ACNGT	5 cut(s)	745, 926, 1069, 1326, 1385
Bst6I	CTCTTC	6 cut(s)	123, 138, 147, 180, 213, 1119
BstAUI	TGTACA	1 cut(s)	810
BstC8I	GCNNGC	2 cut(s)	972, 1197
BstDEI	CTNAG	6 cut(s)	27, 51, 87, 357, 433, 1118
BstDSI	CCRYGG	1 cut(s)	42
BstF5I	GGATG	2 cut(s)	208, 555
BstKTI	GATC	4 cut(s)	85, 341, 897, 1048
BstMAI	GTCTC	1 cut(s)	524
BstMBI	GATC	4 cut(s)	82, 338, 894, 1045
BstMWI	GCNNNNNNNGC	6 cut(s)	29, 443, 1347, 1356, 1359, 1362
BstNI	CCWGG	4 cut(s)	591, 797, 912, 1281
BstNSI	RCATGY	3 cut(s)	245, 681, 1199
BstPAI	GACNNNNGTC	1 cut(s)	962
BstSCI	CCNGG	4 cut(s)	589, 795, 910, 1279
BstSFI	CTRYAG	1 cut(s)	342
BstV2I	GAAGAC	1 cut(s)	927
BstX2I	RGATCY	1 cut(s)	338
BstYI	RGATCY	1 cut(s)	338
Bsu36I	CCTNAGG	1 cut(s)	87
BsuI	GTATCC	1 cut(s)	1256
BsuRI	GGCC	1 cut(s)	636
BtgI	CCRYGG	1 cut(s)	42
BtsCI	GGATG	2 cut(s)	208, 555
BtsIMutI	CAGTG	2 cut(s)	465, 984
Cac8I	GCNNGC	2 cut(s)	972, 1197
CciI	TCATGA	1 cut(s)	34
Cfr10I	RCCGGY	1 cut(s)	1214
Cfr13I	GGNCC	2 cut(s)	587, 634
CseI	GACGC	1 cut(s)	836
Csp6I	GTAC	2 cut(s)	811, 1023
CviQI	GTAC	2 cut(s)	811, 1023
DdeI	CTNAG	6 cut(s)	27, 51, 87, 357, 433, 1118
DpnI	GATC	4 cut(s)	84, 340, 896, 1047
DpnII	GATC	4 cut(s)	82, 338, 894, 1045
Eam1104I	CTCTTC	6 cut(s)	123, 138, 147, 180, 213, 1119
EarI	CTCTTC	6 cut(s)	123, 138, 147, 180, 213, 1119
Eco130I	CCWWGG	2 cut(s)	42, 1310
Eco47I	GGWCC	1 cut(s)	587
Eco57I	CTGAAG	3 cut(s)	333, 457, 462
Eco81I	CCTNAGG	1 cut(s)	87
EcoRII	CCWGG	4 cut(s)	589, 795, 910, 1279
EcoT14I	CCWWGG	2 cut(s)	42, 1310
EcoT22I	ATGCAT	3 cut(s)	409, 679, 1197
ErhI	CCWWGG	2 cut(s)	42, 1310
Esp3I	CGTCTC	1 cut(s)	524
FaqI	GGGAC	3 cut(s)	332, 521, 1125
FauNDI	CATATG	1 cut(s)	1011
FbaI	TGATCA	1 cut(s)	1045
FblI	GTMKAC	1 cut(s)	63
FokI	GGATG	2 cut(s)	215, 562
FspBI	CTAG	4 cut(s)	540, 828, 1137, 1286
GsaI	CCCAGC	1 cut(s)	754
GsuI	CTGGAG	1 cut(s)	119
HaeIII	GGCC	1 cut(s)	636
HapII	CCGG	3 cut(s)	637, 1200, 1215
HgaI	GACGC	1 cut(s)	836
HindIII	AAGCTT	1 cut(s)	722
HpaII	CCGG	3 cut(s)	637, 1200, 1215
HphI	GGTGA	3 cut(s)	86, 401, 904
Hpy166II	GTNNAC	1 cut(s)	64
Hpy188I	TCNGA	9 cut(s)	28, 52, 277, 422, 476, 559, 714, 1074, 1262
Hpy188III	TCNNGA	4 cut(s)	35, 86, 98, 817
Hpy8I	GTNNAC	1 cut(s)	64
HpyAV	CCTTC	1 cut(s)	308
HpyCH4III	ACNGT	5 cut(s)	745, 926, 1069, 1326, 1385
HpyCH4IV	ACGT	1 cut(s)	1266
HpyF10VI	GCNNNNNNNGC	6 cut(s)	29, 443, 1347, 1356, 1359, 1362
HpyF3I	CTNAG	6 cut(s)	27, 51, 87, 357, 433, 1118
HpySE526I	ACGT	1 cut(s)	1266
Ksp22I	TGATCA	1 cut(s)	1045
Kzo9I	GATC	4 cut(s)	82, 338, 894, 1045
LmnI	GCTCC	2 cut(s)	1138, 1166
LweI	GCATC	4 cut(s)	193, 295, 523, 1221
MaeI	CTAG	4 cut(s)	540, 828, 1137, 1286
MaeII	ACGT	1 cut(s)	1266
MaeIII	GTNAC	7 cut(s)	74, 352, 412, 1205, 1242, 1376, 1400
MalI	GATC	4 cut(s)	84, 340, 896, 1047
MboI	GATC	4 cut(s)	82, 338, 894, 1045
MfeI	CAATTG	2 cut(s)	447, 1091
MflI	RGATCY	1 cut(s)	338
MhlI	GDGCHC	1 cut(s)	1153
MluCI	AATT	5 cut(s)	447, 544, 582, 600, 1091
MlyI	GAGTC	2 cut(s)	32, 563
MmeI	TCCRAC	1 cut(s)	996
Mph1103I	ATGCAT	3 cut(s)	409, 679, 1197
MseI	TTAA	4 cut(s)	323, 564, 720, 1190
MslI	CAYNNNNRTG	1 cut(s)	678
MspA1I	CMGCKG	2 cut(s)	1341, 1359
MspI	CCGG	3 cut(s)	637, 1200, 1215
MspR9I	CCNGG	4 cut(s)	591, 797, 912, 1281
MunI	CAATTG	2 cut(s)	447, 1091
Mva1269I	GAATGC	1 cut(s)	1315
MvaI	CCWGG	4 cut(s)	591, 797, 912, 1281
MwoI	GCNNNNNNNGC	6 cut(s)	29, 443, 1347, 1356, 1359, 1362
NcoI	CCATGG	1 cut(s)	42
NdeI	CATATG	1 cut(s)	1011
NdeII	GATC	4 cut(s)	82, 338, 894, 1045
NlaIV	GGNNCC	2 cut(s)	621, 1134
NmuCI	GTSAC	3 cut(s)	74, 1205, 1376
NsiI	ATGCAT	3 cut(s)	409, 679, 1197
NspI	RCATGY	3 cut(s)	245, 681, 1199
PaeI	GCATGC	1 cut(s)	1199
PagI	TCATGA	1 cut(s)	34
PctI	GAATGC	1 cut(s)	1315
PfeI	GAWTC	8 cut(s)	47, 94, 295, 383, 640, 758, 782, 1257
PleI	GAGTC	2 cut(s)	32, 562
PpsI	GAGTC	2 cut(s)	32, 562
PshAI	GACNNNNGTC	1 cut(s)	962
PshBI	ATTAAT	1 cut(s)	1190
Psp6I	CCWGG	4 cut(s)	589, 795, 910, 1279
PspFI	CCCAGC	1 cut(s)	750
PspGI	CCWGG	4 cut(s)	589, 795, 910, 1279
PspN4I	GGNNCC	2 cut(s)	621, 1134
PspPI	GGNCC	2 cut(s)	587, 634
PsuI	RGATCY	1 cut(s)	338
RsaI	GTAC	2 cut(s)	812, 1024
RsaNI	GTAC	2 cut(s)	811, 1023
RseI	CAYNNNNRTG	1 cut(s)	678
SaqAI	TTAA	4 cut(s)	323, 564, 720, 1190
Sau3AI	GATC	4 cut(s)	82, 338, 894, 1045
Sau96I	GGNCC	2 cut(s)	587, 634
SchI	GAGTC	2 cut(s)	32, 563
ScrFI	CCNGG	4 cut(s)	591, 797, 912, 1281
SduI	GDGCHC	1 cut(s)	1153
SfaNI	GCATC	4 cut(s)	193, 295, 523, 1221
SfcI	CTRYAG	1 cut(s)	342
SinI	GGWCC	1 cut(s)	587
SmiMI	CAYNNNNRTG	1 cut(s)	678
SmlI	CTYRAG	1 cut(s)	1038
SmoI	CTYRAG	1 cut(s)	1038
SphI	GCATGC	1 cut(s)	1199
Sse9I	AATT	5 cut(s)	447, 544, 582, 600, 1091
SsiI	CCGC	3 cut(s)	1298, 1341, 1359
SspMI	CTAG	4 cut(s)	540, 828, 1137, 1286
StyD4I	CCNGG	4 cut(s)	589, 795, 910, 1279
StyI	CCWWGG	2 cut(s)	42, 1310
TaaI	ACNGT	5 cut(s)	745, 926, 1069, 1326, 1385
TaiI	ACGT	1 cut(s)	1269
TaqI	TCGA	6 cut(s)	497, 606, 660, 692, 1226, 1346
TasI	AATT	5 cut(s)	447, 544, 582, 600, 1091
TatI	WGTACW	2 cut(s)	810, 1022
TauI	GCSGC	2 cut(s)	1300, 1362
TfiI	GAWTC	8 cut(s)	47, 94, 295, 383, 640, 758, 782, 1257
Tru1I	TTAA	4 cut(s)	323, 564, 720, 1190
Tru9I	TTAA	4 cut(s)	323, 564, 720, 1190
TscAI	CASTG	2 cut(s)	472, 991
TseFI	GTSAC	3 cut(s)	74, 1205, 1376
Tsp45I	GTSAC	3 cut(s)	74, 1205, 1376
TspDTI	ATGAA	1 cut(s)	646
TspGWI	ACGGA	2 cut(s)	230, 948
TspRI	CASTG	2 cut(s)	472, 991
VpaK11BI	GGWCC	1 cut(s)	587
VspI	ATTAAT	1 cut(s)	1190
XceI	RCATGY	3 cut(s)	245, 681, 1199
XcmI	CCANNNNNNNNNTGG	1 cut(s)	747
XmiI	GTMKAC	1 cut(s)	63
XspI	CTAG	4 cut(s)	540, 828, 1137, 1286
Zsp2I	ATGCAT	3 cut(s)	409, 679, 1197

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