Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0000932

Physical Location & Seq

Genomic Coordinates Forward (+)

21130320 .. 21133709

Gene Structure 3390 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G52040.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1071 bp

ATGAAGCCTGTCTTTTGCGGAAACTTTGAGTATGATGCTCGTGAGAGTGATCTTGAGCGGCTTTTCAGAAAGTACGGCAAGGTTGAGAGGGTTGATATGAAAGCTGGGTTTGCTTTTGTCTATATGGAAGATGAAAGGGATGCTGAAGATGCAATTCGAGCGCTTGATCGCTTTGAATATGGTCGCACAGGACGCAGACTCCGTGTTGAGTGGACAAAGAATGACCGTGGAGGTGCTGGAAGATCAGGTGGTTCGAGGAGATCATCTTCTGGCTTGAGACCTTCCAAGACTCTGTTTGTGATCAACTTCGATGCACAAAACACTAGGACTCGGGACTTGGAGAGGCACTTTGAGCCGTATGGTAAAATTGTTAATGTTAGAATCAGAAGGAATTTTGCATTCATCCAATATGAGGCACAAGAAGATGCTACCAGAGCACTGGATGCTACAAATTCCAGTAAGCTGATGGATAAGGTGATCTCAGTGGAGTATGCAGTGAAAGATGATGATTCAAGAGGAAATGGATACAGTCCTGAAAGACGGCGTGATAGGTCACCTGATAGGAGAAGGCGATCACCAAGTCCTTACAGAAGAGAAAGGGGAAGTCCTGACTATGGCCGAGGTGCTAGTCCAGTAGCTCACAAAAGGGAAAGGACTAGTCCTGATTATGGTCGTGGAAGACGCAGCCCCAGCCCTTACAAGAGAGCCAGGCTTAGCCCAGATTACAAGAGGGATGACCGTAGGAGGGAGAGAGTGGCTAGCCCAGAGAATGGAGCTGTAAGGAACCGAAGCCCAAGAAAAGGACGTGGTGAAAGCAGGAGTCCTCCTCCATATGAGAAGAGGAGGGAAAGCAGGAGTCCTCCGCCATATGAGAAGAGAAGGGAAAGCAGGAGTCCTCCTCCATATGAGAAGAGGAGGGAGAGGTCAAGGTCAAGGTCGAAGTCAAGCCCTGAGAATGGTCAAGTTGAGAGCCCTGGGCAAATAATGGAAGTAGAAGCTGGAAGAGGATACGATGGAGCAGACAGCCCGATACGCGAGAGCCCCTCTCGTTCGCCGCCAGCAGAGGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009892 GO:0009987 GO:0010033 GO:0010445 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016071 GO:0016441 GO:0016458 GO:0016604 GO:0016607 GO:0019222 GO:0031047 GO:0031050 GO:0031053 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043331 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901698 GO:1901699 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 ko05168 map03040 map05168

Pfam Domains

Protein Families

RRM_1

Protein Analysis

356

Amino Acids

41.28

Weight (kDa)

10.32

Isoelectric Point (pI)

94.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	4 - 61	3.5e-15	RNA recognition motif
RRM_1	PF00076	98 - 160	2.4e-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: OG0000932)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT4G25500 AT5G52040 AT5G52040 AT5G52040 AT5G52040 AT5G52040 AT5G52040 AT5G52040
fragaria_vesca	FvH4_7g13160 FvH4_7g13160 FvH4_7g13160 FvH4_7g13160 FvH4_7g13160 FvH4_7g13160 FvH4_7g28991 FvH4_7g28991 FvH4_7g28991 FvH4_7g28991 FvH4_7g28991
malus_domestica	MD01G1051400.v1.1 MD01G1196700.v1.1 MD07G1128300.v1.1 MD07G1264000.v1.1
prunus_persica	Prupe.2G154900_v2.0.a1 Prupe.2G154900_v2.0.a1 Prupe.2G154900_v2.0.a1 Prupe.2G290100_v2.0.a1 Prupe.2G290100_v2.0.a1 Prupe.2G290100_v2.0.a1 Prupe.2G290100_v2.0.a1
pyrus_communis	pycom01g07610 pycom07g12390 pycom07g24260
rosa_chinensis	RchiOBHm_Chr1g0352321 RchiOBHm_Chr1g0376701
rosa_laevigata	RLG00000026578 RLG00000028343
rosa_multiflora	Rmu_co8401165.1_g000001 Rmu_sc0009691.1_g000002
rosa_roxburghii	Rroxscaffold_4G00281870 Rroxscaffold_4G00303030
rosa_rugosa	Rorug01G0226500 Rorug01G0226600 Rorug01G0226700 Rorug01G0226700 Rorug01G0397600
rosa_samantha	Rh1AG241000 Rh1AG414700 Rh1BG211800 Rh1BG374100 Rh1CG224800 Rh1CG388000 Rh1DG238200 Rh1DG404900
rosa_wichuraiana	Rw1G020870 Rw1G020950 Rw1G036370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	770
AccBSI	CCGCTC	1 cut(s)	58
AccII	CGCG	1 cut(s)	1035
AciI	CCGC	4 cut(s)	18, 58, 863, 1055
AcoI	YGGCCR	1 cut(s)	616
AcsI	RAATTY	2 cut(s)	391, 451
AcuI	CTGAAG	1 cut(s)	165
AfaI	GTAC	1 cut(s)	74
AfeI	AGCGCT	1 cut(s)	162
AfiI	CCNNNNNNNGG	7 cut(s)	412, 614, 668, 745, 770, 800, 956
AgsI	TTSAA	2 cut(s)	176, 513
AhlI	ACTAGT	1 cut(s)	656
AjiI	CACGTC	1 cut(s)	806
AjnI	CCWGG	2 cut(s)	707, 973
AluBI	AGCT	5 cut(s)	104, 463, 638, 776, 998
AluI	AGCT	5 cut(s)	104, 463, 638, 776, 998
Alw21I	GWGCWC	1 cut(s)	439
Alw26I	GTCTC	1 cut(s)	271
Ama87I	CYCGRG	1 cut(s)	330
Aor51HI	AGCGCT	1 cut(s)	162
AoxI	GGCC	1 cut(s)	616
ApeKI	GCWGC	1 cut(s)	684
ApoI	RAATTY	2 cut(s)	391, 451
AspLEI	GCGC	1 cut(s)	163
AsuHPI	GGTGA	4 cut(s)	487, 546, 567, 821
AsuNHI	GCTAGC	1 cut(s)	758
AvaI	CYCGRG	1 cut(s)	330
BanII	GRGCYC	2 cut(s)	974, 1043
BauI	CACGAG	1 cut(s)	39
BbsI	GAAGAC	1 cut(s)	685
Bbv12I	GWGCWC	1 cut(s)	439
BbvI	GCAGC	1 cut(s)	696
BccI	CCATC	2 cut(s)	460, 1007
BceAI	ACGGC	3 cut(s)	91, 340, 557
BciT130I	CCWGG	2 cut(s)	709, 975
BciVI	GTATCC	2 cut(s)	518, 1001
BclI	TGATCA	1 cut(s)	300
BcoDI	GTCTC	1 cut(s)	271
BcuI	ACTAGT	1 cut(s)	656
BfaI	CTAG	4 cut(s)	324, 627, 657, 759
BfoI	RGCGCY	1 cut(s)	164
BfuI	GTATCC	2 cut(s)	518, 1001
BisI	GCNGC	3 cut(s)	59, 685, 1055
BlpI	GCTNAGC	1 cut(s)	713
BlsI	GCNGC	3 cut(s)	60, 686, 1056
Bme1390I	CCNGG	2 cut(s)	709, 975
BmeT110I	CYCGRG	1 cut(s)	330
BmgBI	CACGTC	1 cut(s)	806
BmiI	GGNNCC	1 cut(s)	785
BmrFI	CCNGG	2 cut(s)	709, 975
BmsI	GCATC	6 cut(s)	25, 130, 139, 301, 415, 433
BmtI	GCTAGC	1 cut(s)	762
BpiI	GAAGAC	1 cut(s)	685
BplI	GAGNNNNNCTC	8 cut(s)	811, 843, 883, 915, 1028, 1060, 1030, 1062
Bpu1102I	GCTNAGC	1 cut(s)	713
BpuEI	CTTGAG	2 cut(s)	74, 295
BsaI	GGTCTC	1 cut(s)	271
BsaJI	CCNNGG	4 cut(s)	226, 619, 973, 974
BsaXI	ACNNNNNCTCC	2 cut(s)	183, 213
Bsc4I	CCNNNNNNNGG	7 cut(s)	412, 614, 668, 745, 770, 800, 956
Bse1I	ACTGG	3 cut(s)	444, 456, 632
BseBI	CCWGG	2 cut(s)	709, 975
BseDI	CCNNGG	4 cut(s)	226, 619, 973, 974
BseGI	GGATG	4 cut(s)	145, 402, 448, 739
BseLI	CCNNNNNNNGG	7 cut(s)	412, 614, 668, 745, 770, 800, 956
BseMII	CTCAG	2 cut(s)	495, 942
BseNI	ACTGG	3 cut(s)	444, 456, 632
BseRI	GAGGAG	5 cut(s)	271, 816, 856, 888, 928
BseXI	GCAGC	1 cut(s)	696
BseYI	CCCAGC	2 cut(s)	104, 689
Bsh1236I	CGCG	1 cut(s)	1035
BshFI	GGCC	1 cut(s)	618
BsiHKAI	GWGCWC	1 cut(s)	439
BsiHKCI	CYCGRG	1 cut(s)	330
BslFI	GGGAC	1 cut(s)	347
BslI	CCNNNNNNNGG	7 cut(s)	412, 614, 668, 745, 770, 800, 956
BsmAI	GTCTC	1 cut(s)	271
BsmFI	GGGAC	1 cut(s)	347
BsmI	GAATGC	1 cut(s)	398
BsnI	GGCC	1 cut(s)	618
Bso31I	GGTCTC	1 cut(s)	271
BsoBI	CYCGRG	1 cut(s)	330
Bsp1286I	GDGCHC	3 cut(s)	439, 974, 1043
Bsp143I	GATC	7 cut(s)	49, 166, 242, 260, 300, 477, 572
Bsp1720I	GCTNAGC	1 cut(s)	713
BspACI	CCGC	4 cut(s)	18, 58, 863, 1055
BspANI	GGCC	1 cut(s)	618
BspCNI	CTCAG	2 cut(s)	494, 943
BspFNI	CGCG	1 cut(s)	1035
BspLI	GGNNCC	1 cut(s)	785
BspOI	GCTAGC	1 cut(s)	762
BspTNI	GGTCTC	1 cut(s)	271
BsrBI	CCGCTC	1 cut(s)	58
BsrI	ACTGG	3 cut(s)	444, 456, 632
BssECI	CCNNGG	4 cut(s)	226, 619, 973, 974
BssMI	GATC	7 cut(s)	49, 166, 242, 260, 300, 477, 572
BssSI	CACGAG	1 cut(s)	39
Bst2BI	CACGAG	1 cut(s)	39
Bst2UI	CCWGG	2 cut(s)	709, 975
Bst4CI	ACNGT	3 cut(s)	227, 530, 740
Bst6I	CTCTTC	5 cut(s)	586, 833, 869, 905, 997
BstAPI	GCANNNNNTGC	1 cut(s)	443
BstC8I	GCNNGC	2 cut(s)	760, 1059
BstDEI	CTNAG	3 cut(s)	481, 713, 951
BstDSI	CCRYGG	1 cut(s)	226
BstEII	GGTNACC	1 cut(s)	552
BstF5I	GGATG	4 cut(s)	145, 402, 448, 739
BstFNI	CGCG	1 cut(s)	1035
BstH2I	RGCGCY	1 cut(s)	164
BstHHI	GCGC	1 cut(s)	163
BstKTI	GATC	7 cut(s)	52, 169, 245, 263, 303, 480, 575
BstMAI	GTCTC	1 cut(s)	271
BstMBI	GATC	7 cut(s)	49, 166, 242, 260, 300, 477, 572
BstMWI	GCNNNNNNNGC	9 cut(s)	110, 149, 158, 192, 352, 434, 443, 690, 1032
BstNI	CCWGG	2 cut(s)	709, 975
BstPI	GGTNACC	1 cut(s)	552
BstSCI	CCNGG	2 cut(s)	707, 973
BstUI	CGCG	1 cut(s)	1035
BstV1I	GCAGC	1 cut(s)	696
BstV2I	GAAGAC	1 cut(s)	685
BstXI	CCANNNNNNTGG	1 cut(s)	439
BsuI	GTATCC	2 cut(s)	518, 1001
BsuRI	GGCC	1 cut(s)	618
BtgI	CCRYGG	1 cut(s)	226
BtrI	CACGTC	1 cut(s)	806
BtsCI	GGATG	4 cut(s)	145, 402, 448, 739
BtsI	GCAGTG	1 cut(s)	501
BtsIMutI	CAGTG	3 cut(s)	437, 489, 501
Cac8I	GCNNGC	2 cut(s)	760, 1059
CfoI	GCGC	1 cut(s)	163
CseI	GACGC	2 cut(s)	201, 690
Csp6I	GTAC	1 cut(s)	73
CviQI	GTAC	1 cut(s)	73
DdeI	CTNAG	3 cut(s)	481, 713, 951
DpnI	GATC	7 cut(s)	51, 168, 244, 262, 302, 479, 574
DpnII	GATC	7 cut(s)	49, 166, 242, 260, 300, 477, 572
EaeI	YGGCCR	1 cut(s)	616
Eam1104I	CTCTTC	5 cut(s)	586, 833, 869, 905, 997
EarI	CTCTTC	5 cut(s)	586, 833, 869, 905, 997
EciI	GGCGGA	1 cut(s)	852
Eco24I	GRGCYC	2 cut(s)	974, 1043
Eco31I	GGTCTC	1 cut(s)	271
Eco47III	AGCGCT	1 cut(s)	162
Eco57I	CTGAAG	1 cut(s)	165
Eco88I	CYCGRG	1 cut(s)	330
Eco91I	GGTNACC	1 cut(s)	552
EcoO65I	GGTNACC	1 cut(s)	552
EcoRII	CCWGG	2 cut(s)	707, 973
EcoT38I	GRGCYC	2 cut(s)	974, 1043
FalI	AAGNNNNNCTT	1 cut(s)	28
FaqI	GGGAC	1 cut(s)	347
FauNDI	CATATG	3 cut(s)	832, 868, 904
FbaI	TGATCA	1 cut(s)	300
Fnu4HI	GCNGC	3 cut(s)	59, 685, 1055
FokI	GGATG	4 cut(s)	152, 389, 455, 746
FriOI	GRGCYC	2 cut(s)	974, 1043
Fsp4HI	GCNGC	3 cut(s)	59, 685, 1055
FspBI	CTAG	4 cut(s)	324, 627, 657, 759
GlaI	GCGC	1 cut(s)	162
GluI	GCNGC	3 cut(s)	59, 685, 1055
GsaI	CCCAGC	2 cut(s)	108, 693
HaeII	RGCGCY	1 cut(s)	164
HaeIII	GGCC	1 cut(s)	618
HgaI	GACGC	2 cut(s)	201, 690
HhaI	GCGC	1 cut(s)	163
Hin6I	GCGC	1 cut(s)	161
HinP1I	GCGC	1 cut(s)	161
HinfI	GANTC	8 cut(s)	198, 289, 328, 381, 509, 820, 856, 892
HphI	GGTGA	4 cut(s)	487, 546, 567, 821
Hpy166II	GTNNAC	1 cut(s)	213
Hpy188I	TCNGA	2 cut(s)	68, 386
Hpy188III	TCNNGA	7 cut(s)	41, 53, 332, 513, 533, 608, 662
Hpy8I	GTNNAC	1 cut(s)	213
HpyAV	CCTTC	4 cut(s)	291, 381, 561, 873
HpyCH4III	ACNGT	3 cut(s)	227, 530, 740
HpyCH4IV	ACGT	1 cut(s)	805
HpyCH4V	TGCA	4 cut(s)	152, 314, 398, 494
HpyF10VI	GCNNNNNNNGC	9 cut(s)	110, 149, 158, 192, 352, 434, 443, 690, 1032
HpyF3I	CTNAG	3 cut(s)	481, 713, 951
HpySE526I	ACGT	1 cut(s)	805
HspAI	GCGC	1 cut(s)	161
Ksp22I	TGATCA	1 cut(s)	300
Kzo9I	GATC	7 cut(s)	49, 166, 242, 260, 300, 477, 572
LmnI	GCTCC	2 cut(s)	773, 1016
Lsp1109I	GCAGC	1 cut(s)	696
LweI	GCATC	6 cut(s)	25, 130, 139, 301, 415, 433
MaeI	CTAG	4 cut(s)	324, 627, 657, 759
MaeII	ACGT	1 cut(s)	805
MaeIII	GTNAC	1 cut(s)	552
MalI	GATC	7 cut(s)	51, 168, 244, 262, 302, 479, 574
MbiI	CCGCTC	1 cut(s)	58
MboI	GATC	7 cut(s)	49, 166, 242, 260, 300, 477, 572
MhlI	GDGCHC	3 cut(s)	439, 974, 1043
MluCI	AATT	4 cut(s)	153, 366, 391, 451
MlyI	GAGTC	6 cut(s)	192, 283, 322, 829, 865, 901
MseI	TTAA	1 cut(s)	372
MspR9I	CCNGG	2 cut(s)	709, 975
Mva1269I	GAATGC	1 cut(s)	398
MvaI	CCWGG	2 cut(s)	709, 975
MvnI	CGCG	1 cut(s)	1035
MwoI	GCNNNNNNNGC	9 cut(s)	110, 149, 158, 192, 352, 434, 443, 690, 1032
NdeI	CATATG	3 cut(s)	832, 868, 904
NdeII	GATC	7 cut(s)	49, 166, 242, 260, 300, 477, 572
NheI	GCTAGC	1 cut(s)	758
NlaIV	GGNNCC	1 cut(s)	785
NmeAIII	GCCGAG	1 cut(s)	644
NmuCI	GTSAC	1 cut(s)	552
PasI	CCCWGGG	1 cut(s)	974
PcsI	WCGNNNNNNNCGW	1 cut(s)	199
PctI	GAATGC	1 cut(s)	398
PfeI	GAWTC	2 cut(s)	381, 509
PflMI	CCANNNNNTGG	1 cut(s)	770
PkrI	GCNGC	3 cut(s)	60, 686, 1056
PleI	GAGTC	6 cut(s)	192, 283, 322, 828, 864, 900
PpsI	GAGTC	6 cut(s)	192, 283, 322, 828, 864, 900
Psp6I	CCWGG	2 cut(s)	707, 973
PspEI	GGTNACC	1 cut(s)	552
PspFI	CCCAGC	2 cut(s)	104, 689
PspGI	CCWGG	2 cut(s)	707, 973
PspN4I	GGNNCC	1 cut(s)	785
RsaI	GTAC	1 cut(s)	74
RsaNI	GTAC	1 cut(s)	73
SaqAI	TTAA	1 cut(s)	372
SatI	GCNGC	3 cut(s)	59, 685, 1055
Sau3AI	GATC	7 cut(s)	49, 166, 242, 260, 300, 477, 572
SchI	GAGTC	6 cut(s)	192, 283, 322, 829, 865, 901
ScrFI	CCNGG	2 cut(s)	709, 975
SduI	GDGCHC	3 cut(s)	439, 974, 1043
SfaNI	GCATC	6 cut(s)	25, 130, 139, 301, 415, 433
SmlI	CTYRAG	2 cut(s)	53, 274
SmoI	CTYRAG	2 cut(s)	53, 274
SpeI	ACTAGT	1 cut(s)	656
Sse9I	AATT	4 cut(s)	153, 366, 391, 451
SsiI	CCGC	4 cut(s)	18, 58, 863, 1055
SspMI	CTAG	4 cut(s)	324, 627, 657, 759
StyD4I	CCNGG	2 cut(s)	707, 973
TaaI	ACNGT	3 cut(s)	227, 530, 740
TaiI	ACGT	1 cut(s)	808
TaqI	TCGA	4 cut(s)	157, 254, 309, 938
TasI	AATT	4 cut(s)	153, 366, 391, 451
TauI	GCSGC	2 cut(s)	61, 1057
TfiI	GAWTC	2 cut(s)	381, 509
Tru1I	TTAA	1 cut(s)	372
Tru9I	TTAA	1 cut(s)	372
TscAI	CASTG	3 cut(s)	444, 489, 501
TseFI	GTSAC	1 cut(s)	552
TseI	GCWGC	1 cut(s)	684
Tsp45I	GTSAC	1 cut(s)	552
TspDTI	ATGAA	4 cut(s)	17, 113, 147, 391
TspGWI	ACGGA	1 cut(s)	191
TspRI	CASTG	3 cut(s)	444, 489, 501
Van91I	CCANNNNNTGG	1 cut(s)	770
XapI	RAATTY	2 cut(s)	391, 451
XcmI	CCANNNNNNNNNTGG	1 cut(s)	463
XspI	CTAG	4 cut(s)	324, 627, 657, 759

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