Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0008472

Physical Location & Seq

Genomic Coordinates Reverse (-)

19818975 .. 19821519

Gene Structure 2545 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G53460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGTCTGCCTCTGCTTCTTCCCTCTCTGCTTTCAATCCTAAATCCCTTCCTCTCTGCGTCTCCAGACCCGCTTCCGTCTCCGTCTTACCTCCTTCCCTCTCCTTCAAACTTCACTCCGACCACCTCGTCTCTATCTTCGCTTCCTCCGCCCTCAAATGCTCATCCCCCGCCGAGTACCCGTCGCGTTTCGTTAGAAACGTTGCTGTATCTTCGGATTTTGAGGTGGAGGAAGATGATATGTTCGCTGACGGTGACGATTCAGCGCCTGTGGAGCGTAACTCCTTCTCTCCTGACCTTAAGCTCTTTGTTGGTAACCTTTCTTTTAACGTTGATAGCGCTCAGCTTGCTCAGCTCTTTGAGAGCGCTGGAAATGTTGAGATGGTTGAGGTTATCTATGACAAAGTGACTGGCCGGAGCAGGGGTTTCGGATTTGTGACAATGTCAACCGCAGCGGAAGTTGAAGCAGCAGCTCAACAGTTCAATGGCTATGAATTTGAAGGCAGACCTTTGAGAGTCAATGCTGGCCCTCCTCCACCTAAAAGAGAGGAATCCTTCTCCAGAGGACCAAGAAGTGGAGGTTACGGTTCTGAGCGTGGTGGAGGTTACGGTTCCGAGCGTGGTGGTGGTTATGGTTCCGAGCGTGGTGGTGGTTATGGTTCCGAGCGTGGTGGTGGATACGGTTCTCAACGTAGTGGTGGTGGTTACGGAGGGTCTCAACGTTCCAGTTATGGTTCGGGGTCAGGGTCCGGTTCGGGCTCAGGTTCAGGAAACCGTCTCTACGTGGGCAACCTTTCTTGGGGTGTTGATGACATGGCACTTGAGAACTTGTTTAACGAGCAAGGAAAGGTAGTTGAAGCTAGGGTTATCTACGACAGGGACAGCGGTAGATCCAAGGGTTTTGGATTTGTGACACTTAGCTCTTCCCAAGAGGTTCAGAAGGCGATCAATTCCTTGAATGGAGCAGATTTGGATGGAAGACAAATAAGAGTCTCAGAGGCTGAGGCTAGGCCACCAAGAGGCCAATTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0002376 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0006952 GO:0006955 GO:0008150 GO:0008187 GO:0008266 GO:0009266 GO:0009409 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009628 GO:0009631 GO:0009719 GO:0009725 GO:0009737 GO:0009892 GO:0009894 GO:0009895 GO:0009941 GO:0010033 GO:0010319 GO:0010468 GO:0010605 GO:0010608 GO:0016020 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031329 GO:0031330 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0033993 GO:0034357 GO:0042221 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043487 GO:0043489 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0045087 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0055035 GO:0060255 GO:0065007 GO:0065008 GO:0080090 GO:0097159 GO:0097305 GO:1901363 GO:1901700 GO:1902369

KEGG Pathways

Metabolic & Signaling

ko05130 map05130

Pfam Domains

Protein Families

RRM_1

Protein Analysis

342

Amino Acids

36.01

Weight (kDa)

5.24

Isoelectric Point (pI)

42.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	101 - 171	1.2e-18	RNA recognition motif
RRM_1	PF00076	259 - 329	3e-19	RNA recognition motif

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: OG0008472)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37220 AT3G53460 AT3G53460 AT3G53460 AT3G53460
fragaria_vesca	FvH4_6g16030
malus_domestica	MD04G1096600.v1.1 MD12G1117600.v1.1
prunus_persica	Prupe.6G235900_v2.0.a1
pyrus_communis	pycom12g11630
rosa_chinensis	RchiOBHm_Chr3g0469771
rosa_laevigata	RLG00000004588 RLG00000024322
rosa_multiflora	Rmu_sc0004112.1_g000018 Rmu_sc0010644.1_g000006
rosa_roxburghii	Rroxscaffold_5G00378910 Rroxscaffold_6G00411500
rosa_rugosa	Rorug03G0104300
rosa_samantha	Rh3AG153400 Rh3BG177500 Rh3CG168300 Rh3DG198100
rosa_wichuraiana	Rw3G014460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	125
AccB7I	CCANNNNNTGG	1 cut(s)	572
AccII	CGCG	1 cut(s)	184
AciI	CCGC	6 cut(s)	69, 147, 168, 447, 452, 882
AclI	AACGTT	3 cut(s)	198, 327, 718
AclWI	GGATC	1 cut(s)	882
AcoI	YGGCCR	1 cut(s)	409
AcsI	RAATTY	1 cut(s)	491
AfaI	GTAC	1 cut(s)	176
AfeI	AGCGCT	2 cut(s)	337, 364
AfiI	CCNNNNNNNGG	4 cut(s)	418, 572, 796, 1016
AflII	CTTAAG	1 cut(s)	296
AgsI	TTSAA	7 cut(s)	34, 106, 461, 481, 497, 854, 955
AluBI	AGCT	6 cut(s)	301, 343, 352, 470, 857, 918
AluI	AGCT	6 cut(s)	301, 343, 352, 470, 857, 918
Alw26I	GTCTC	6 cut(s)	64, 82, 133, 717, 779, 994
AlwI	GGATC	1 cut(s)	882
AlwNI	CAGNNNCTG	2 cut(s)	266, 998
Aor51HI	AGCGCT	2 cut(s)	337, 364
AoxI	GGCC	4 cut(s)	409, 523, 1007, 1018
ApeKI	GCWGC	3 cut(s)	449, 464, 467
ApoI	RAATTY	1 cut(s)	491
AspLEI	GCGC	3 cut(s)	265, 338, 365
AspS9I	GGNCC	3 cut(s)	524, 563, 744
AsuHPI	GGTGA	1 cut(s)	263
AvaII	GGWCC	2 cut(s)	563, 744
BanII	GRGCYC	1 cut(s)	758
BbsI	GAAGAC	1 cut(s)	982
BbvCI	CCTCAGC	1 cut(s)	999
BbvI	GCAGC	3 cut(s)	461, 476, 479
BccI	CCATC	2 cut(s)	373, 965
BcgI	CGANNNNNNTGC	2 cut(s)	406, 440
BciVI	GTATCC	1 cut(s)	668
BcoDI	GTCTC	6 cut(s)	64, 82, 133, 717, 779, 994
BfaI	CTAG	2 cut(s)	858, 1005
BfoI	RGCGCY	3 cut(s)	266, 339, 366
BfrI	CTTAAG	1 cut(s)	296
BfuI	GTATCC	1 cut(s)	668
BisI	GCNGC	3 cut(s)	450, 465, 468
BlpI	GCTNAGC	2 cut(s)	339, 348
BlsI	GCNGC	3 cut(s)	451, 466, 469
Bme18I	GGWCC	2 cut(s)	563, 744
BmgT120I	GGNCC	3 cut(s)	524, 563, 744
BmiI	GGNNCC	4 cut(s)	610, 634, 658, 745
BpiI	GAAGAC	1 cut(s)	982
BplI	GAGNNNNNCTC	2 cut(s)	263, 295
BpmI	CTGGAG	2 cut(s)	46, 541
Bpu10I	CCTNAGC	2 cut(s)	757, 999
Bpu1102I	GCTNAGC	2 cut(s)	339, 348
BpuEI	CTTGAG	1 cut(s)	839
BsaAI	YACGTR	1 cut(s)	781
BsaI	GGTCTC	1 cut(s)	717
BsaJI	CCNNGG	1 cut(s)	891
BsaWI	WCCGGW	1 cut(s)	746
BsaXI	ACNNNNNCTCC	2 cut(s)	406, 436
Bsc4I	CCNNNNNNNGG	4 cut(s)	418, 572, 796, 1016
Bse1I	ACTGG	2 cut(s)	412, 723
BseDI	CCNNGG	1 cut(s)	891
BseGI	GGATG	2 cut(s)	161, 976
BseLI	CCNNNNNNNGG	4 cut(s)	418, 572, 796, 1016
BseMII	CTCAG	6 cut(s)	353, 362, 579, 771, 990, 1005
BseNI	ACTGG	2 cut(s)	412, 723
BseRI	GAGGAG	1 cut(s)	519
BseXI	GCAGC	3 cut(s)	461, 476, 479
Bsh1236I	CGCG	1 cut(s)	184
BshFI	GGCC	4 cut(s)	411, 525, 1009, 1020
BsiSI	CCGG	2 cut(s)	412, 747
BslFI	GGGAC	1 cut(s)	890
BslI	CCNNNNNNNGG	4 cut(s)	418, 572, 796, 1016
BsmAI	GTCTC	6 cut(s)	64, 82, 133, 717, 779, 994
BsmBI	CGTCTC	4 cut(s)	64, 82, 133, 779
BsmFI	GGGAC	1 cut(s)	890
BsnI	GGCC	4 cut(s)	411, 525, 1009, 1020
Bso31I	GGTCTC	1 cut(s)	717
Bsp1286I	GDGCHC	1 cut(s)	758
Bsp143I	GATC	2 cut(s)	887, 942
Bsp1720I	GCTNAGC	2 cut(s)	339, 348
BspACI	CCGC	6 cut(s)	69, 147, 168, 447, 452, 882
BspANI	GGCC	4 cut(s)	411, 525, 1009, 1020
BspCNI	CTCAG	6 cut(s)	352, 361, 580, 770, 991, 1004
BspFNI	CGCG	1 cut(s)	184
BspLI	GGNNCC	4 cut(s)	610, 634, 658, 745
BspPI	GGATC	1 cut(s)	882
BspQI	GCTCTTC	1 cut(s)	925
BspTI	CTTAAG	1 cut(s)	296
BspTNI	GGTCTC	1 cut(s)	717
BsrI	ACTGG	2 cut(s)	412, 723
BssECI	CCNNGG	1 cut(s)	891
BssMI	GATC	2 cut(s)	887, 942
BssT1I	CCWWGG	1 cut(s)	891
Bst4CI	ACNGT	6 cut(s)	251, 477, 584, 608, 680, 773
Bst6I	CTCTTC	1 cut(s)	925
BstAFI	CTTAAG	1 cut(s)	296
BstBAI	YACGTR	1 cut(s)	781
BstC8I	GCNNGC	2 cut(s)	345, 523
BstDEI	CTNAG	7 cut(s)	339, 348, 588, 757, 914, 991, 999
BstEII	GGTNACC	1 cut(s)	311
BstF5I	GGATG	2 cut(s)	161, 976
BstFNI	CGCG	1 cut(s)	184
BstH2I	RGCGCY	3 cut(s)	266, 339, 366
BstHHI	GCGC	3 cut(s)	265, 338, 365
BstKTI	GATC	2 cut(s)	890, 945
BstMAI	GTCTC	6 cut(s)	64, 82, 133, 717, 779, 994
BstMBI	GATC	2 cut(s)	887, 942
BstMWI	GCNNNNNNNGC	4 cut(s)	146, 271, 344, 349
BstPI	GGTNACC	1 cut(s)	311
BstUI	CGCG	1 cut(s)	184
BstV1I	GCAGC	3 cut(s)	461, 476, 479
BstV2I	GAAGAC	1 cut(s)	982
BstX2I	RGATCY	1 cut(s)	887
BstYI	RGATCY	1 cut(s)	887
BsuI	GTATCC	1 cut(s)	668
BsuRI	GGCC	4 cut(s)	411, 525, 1009, 1020
BtsCI	GGATG	2 cut(s)	161, 976
Cac8I	GCNNGC	2 cut(s)	345, 523
CaiI	CAGNNNCTG	2 cut(s)	266, 998
CfoI	GCGC	3 cut(s)	265, 338, 365
Cfr13I	GGNCC	3 cut(s)	524, 563, 744
CseI	GACGC	1 cut(s)	46
Csp6I	GTAC	1 cut(s)	175
CviAII	CATG	1 cut(s)	811
CviQI	GTAC	1 cut(s)	175
DdeI	CTNAG	7 cut(s)	339, 348, 588, 757, 914, 991, 999
DpnI	GATC	2 cut(s)	889, 944
DpnII	GATC	2 cut(s)	887, 942
DrdI	GACNNNNNNGTC	1 cut(s)	125
DseDI	GACNNNNNNGTC	1 cut(s)	125
EaeI	YGGCCR	1 cut(s)	409
Eam1104I	CTCTTC	1 cut(s)	925
EarI	CTCTTC	1 cut(s)	925
EciI	GGCGGA	1 cut(s)	136
Eco130I	CCWWGG	1 cut(s)	891
Eco24I	GRGCYC	1 cut(s)	758
Eco31I	GGTCTC	1 cut(s)	717
Eco47I	GGWCC	2 cut(s)	563, 744
Eco47III	AGCGCT	2 cut(s)	337, 364
Eco91I	GGTNACC	1 cut(s)	311
EcoO65I	GGTNACC	1 cut(s)	311
EcoT14I	CCWWGG	1 cut(s)	891
EcoT38I	GRGCYC	1 cut(s)	758
ErhI	CCWWGG	1 cut(s)	891
Esp3I	CGTCTC	4 cut(s)	64, 82, 133, 779
FaeI	CATG	1 cut(s)	814
FaiI	YATR	7 cut(s)	239, 396, 489, 630, 654, 729, 812
FaqI	GGGAC	1 cut(s)	890
FatI	CATG	1 cut(s)	810
FauI	CCCGC	2 cut(s)	76, 175
Fnu4HI	GCNGC	3 cut(s)	450, 465, 468
FokI	GGATG	2 cut(s)	148, 983
FriOI	GRGCYC	1 cut(s)	758
Fsp4HI	GCNGC	3 cut(s)	450, 465, 468
FspBI	CTAG	2 cut(s)	858, 1005
GlaI	GCGC	3 cut(s)	264, 337, 364
GluI	GCNGC	3 cut(s)	450, 465, 468
GsuI	CTGGAG	2 cut(s)	46, 541
HaeII	RGCGCY	3 cut(s)	266, 339, 366
HaeIII	GGCC	4 cut(s)	411, 525, 1009, 1020
HapII	CCGG	2 cut(s)	412, 747
HgaI	GACGC	1 cut(s)	46
HhaI	GCGC	3 cut(s)	265, 338, 365
Hin1II	CATG	1 cut(s)	814
Hin6I	GCGC	3 cut(s)	263, 336, 363
HinP1I	GCGC	3 cut(s)	263, 336, 363
HincII	GTYRAC	1 cut(s)	444
HindII	GTYRAC	1 cut(s)	444
HinfI	GANTC	4 cut(s)	257, 513, 548, 987
HpaII	CCGG	2 cut(s)	412, 747
HphI	GGTGA	1 cut(s)	263
Hpy166II	GTNNAC	1 cut(s)	444
Hpy188I	TCNGA	9 cut(s)	118, 214, 428, 589, 613, 637, 661, 936, 994
Hpy188III	TCNNGA	4 cut(s)	63, 290, 558, 765
Hpy8I	GTNNAC	1 cut(s)	444
Hpy99I	CGWCG	1 cut(s)	184
HpyAV	CCTTC	7 cut(s)	56, 102, 112, 292, 491, 562, 931
HpyCH4III	ACNGT	6 cut(s)	251, 477, 584, 608, 680, 773
HpyCH4IV	ACGT	5 cut(s)	198, 327, 688, 718, 780
HpyF10VI	GCNNNNNNNGC	4 cut(s)	146, 271, 344, 349
HpyF3I	CTNAG	7 cut(s)	339, 348, 588, 757, 914, 991, 999
HpySE526I	ACGT	5 cut(s)	198, 327, 688, 718, 780
Hsp92II	CATG	1 cut(s)	814
HspAI	GCGC	3 cut(s)	263, 336, 363
Kzo9I	GATC	2 cut(s)	887, 942
LguI	GCTCTTC	1 cut(s)	925
LmnI	GCTCC	3 cut(s)	271, 414, 959
Lsp1109I	GCAGC	3 cut(s)	461, 476, 479
MaeI	CTAG	2 cut(s)	858, 1005
MaeII	ACGT	5 cut(s)	198, 327, 688, 718, 780
MaeIII	GTNAC	9 cut(s)	251, 275, 311, 403, 433, 578, 602, 701, 907
MalI	GATC	2 cut(s)	889, 944
MboI	GATC	2 cut(s)	887, 942
MboII	GAAGA	6 cut(s)	9, 127, 201, 242, 912, 987
MflI	RGATCY	1 cut(s)	887
MhlI	GDGCHC	1 cut(s)	758
MluCI	AATT	3 cut(s)	491, 946, 1022
MlyI	GAGTC	2 cut(s)	522, 996
MmeI	TCCRAC	1 cut(s)	141
MseI	TTAA	3 cut(s)	297, 324, 831
MspA1I	CMGCKG	2 cut(s)	452, 882
MspCI	CTTAAG	1 cut(s)	296
MspI	CCGG	2 cut(s)	412, 747
MvnI	CGCG	1 cut(s)	184
MwoI	GCNNNNNNNGC	4 cut(s)	146, 271, 344, 349
NdeII	GATC	2 cut(s)	887, 942
NlaIII	CATG	1 cut(s)	814
NlaIV	GGNNCC	4 cut(s)	610, 634, 658, 745
NmeAIII	GCCGAG	1 cut(s)	196
NmuCI	GTSAC	4 cut(s)	251, 403, 433, 907
PciSI	GCTCTTC	1 cut(s)	925
PcsI	WCGNNNNNNNCGW	1 cut(s)	195
PfeI	GAWTC	2 cut(s)	257, 548
PflFI	GACNNNGTC	1 cut(s)	439
PflMI	CCANNNNNTGG	1 cut(s)	572
PkrI	GCNGC	3 cut(s)	451, 466, 469
PleI	GAGTC	2 cut(s)	521, 995
PpsI	GAGTC	2 cut(s)	521, 995
Ppu21I	YACGTR	1 cut(s)	781
Psp1406I	AACGTT	3 cut(s)	198, 327, 718
PspEI	GGTNACC	1 cut(s)	311
PspN4I	GGNNCC	4 cut(s)	610, 634, 658, 745
PspPI	GGNCC	3 cut(s)	524, 563, 744
PstNI	CAGNNNCTG	2 cut(s)	266, 998
PsuI	RGATCY	1 cut(s)	887
PsyI	GACNNNGTC	1 cut(s)	439
RsaI	GTAC	1 cut(s)	176
RsaNI	GTAC	1 cut(s)	175
SapI	GCTCTTC	1 cut(s)	925
SaqAI	TTAA	3 cut(s)	297, 324, 831
SatI	GCNGC	3 cut(s)	450, 465, 468
Sau3AI	GATC	2 cut(s)	887, 942
Sau96I	GGNCC	3 cut(s)	524, 563, 744
SchI	GAGTC	2 cut(s)	522, 996
SduI	GDGCHC	1 cut(s)	758
SinI	GGWCC	2 cut(s)	563, 744
SmlI	CTYRAG	2 cut(s)	296, 818
SmoI	CTYRAG	2 cut(s)	296, 818
Sse9I	AATT	3 cut(s)	491, 946, 1022
SsiI	CCGC	6 cut(s)	69, 147, 168, 447, 452, 882
SspMI	CTAG	2 cut(s)	858, 1005
StyI	CCWWGG	1 cut(s)	891
TaaI	ACNGT	6 cut(s)	251, 477, 584, 608, 680, 773
TaiI	ACGT	5 cut(s)	201, 330, 691, 721, 783
TasI	AATT	3 cut(s)	491, 946, 1022
TfiI	GAWTC	2 cut(s)	257, 548
Tru1I	TTAA	3 cut(s)	297, 324, 831
Tru9I	TTAA	3 cut(s)	297, 324, 831
TseFI	GTSAC	4 cut(s)	251, 403, 433, 907
TseI	GCWGC	3 cut(s)	449, 464, 467
Tsp45I	GTSAC	4 cut(s)	251, 403, 433, 907
TspDTI	ATGAA	1 cut(s)	504
TspGWI	ACGGA	3 cut(s)	64, 70, 720
Tth111I	GACNNNGTC	1 cut(s)	439
Van91I	CCANNNNNTGG	1 cut(s)	572
Vha464I	CTTAAG	1 cut(s)	296
VpaK11BI	GGWCC	2 cut(s)	563, 744
XapI	RAATTY	1 cut(s)	491
XspI	CTAG	2 cut(s)	858, 1005

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