Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0003597

Physical Location & Seq

Genomic Coordinates Forward (+)

1192259 .. 1195759

Gene Structure 3501 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G04280.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 933 bp

ATGGCTGCAAAAGAAGGTAGTAGGATTTTTGTCGGTGGTTTATCGCCGGAAGTGACAGATAGAGACCTTGAAAGAGCTTTTAGCCGCTTCGGAGACATTCTCGATTGTCAGATCATGCTGGAAAGAGATACTGGTCGTTCACGTGGATTCGGGTTTATCACTTTTGCTGATCGCCGCGCTATGGATGAGTCCATCAGAGAGATGCATGGAAGGGACTTTGGTGATCGGGTCATCTCAGTGAACAGAGCTGAACCAAAACTGGGGCGAGATGATGGAGAAAGTCATGGCTCTAGAGGTGGCAGAGACAGTGGCTACTCGATTGCTGGAAAAGGAAGCTTTGGTGGAGGTGGAGGTGGAGGTGGGCGTGTTGGTGAAGATGAATGCTTCAAGTGTGGACGGGTTGGGCACTGGGCCCGTGATTGTCCTTCTGCTGGTGGTGGTCGTGGAGGACCTGTTGGTGGTTTTTCTTCACGTGCTAGTGCGTATGGAGGATCTGATGGACGTGTTGACCGCTATGCTGACCGTGACCGCTATGTGGACCGCGAACGATACATAGATGATCGATACGACGGTGCTGCACGCTATGGTGCTAGAGACAGGTTTGACAGCAGAGAAGCCTACATACCCCGTGATCGATACGCCAGTGACAGGTATGCAGCCCCGGCTGATCGGTTTGCAGGTGGTGATAGATACAGCCGTGGATCAGACCGTTATCCTCCAGGGAGCTATGACAAAGCTCGGTCCTTTGAGAGAGACATAGCCCCGAGTGCAGGCAGTGACAGGTACGGTGGTGGTAGAGCTGGTGGTCCCATCCGTGGAGGAGGAGAGGAGGGAAGAGGGTTTAGAAGCAGAGCCGGTGCTCCTTATGAGAGACCGAGCAGAAGTGGTGGTGGTGGAGCTTATCCGTCGTCGTCCACTTTTGACCGTTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0006355 GO:0006950 GO:0008150 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009628 GO:0009889 GO:0009890 GO:0009892 GO:0009893 GO:0010035 GO:0010468 GO:0010556 GO:0010558 GO:0010604 GO:0010605 GO:0010628 GO:0010629 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031490 GO:0031974 GO:0031981 GO:0033120 GO:0042221 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043484 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045892 GO:0045934 GO:0045935 GO:0048024 GO:0048026 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050684 GO:0050685 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051173 GO:0051252 GO:0051253 GO:0051254 GO:0060255 GO:0065007 GO:0070013 GO:0080090 GO:0097159 GO:1901363 GO:1901700 GO:1902679 GO:1903311 GO:1903313 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

310

Amino Acids

33.49

Weight (kDa)

9.13

Isoelectric Point (pI)

39.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	4 - 40	8.1e-08	RNA recognition motif
zf-CCHC	PF00098	89 - 105	2.8e-08	Zinc knuckle

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: OG0003597)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G60650 AT1G60650 AT1G60650 AT1G60650 AT5G04280 AT5G04280 AT5G04280 AT5G04280 AT5G04280
fragaria_vesca	FvH4_7g18520 FvH4_7g18520 FvH4_7g18520
malus_domestica	MD01G1101500.v1.1 MD07G1168200.v1.1
prunus_persica	Prupe.2G206800_v2.0.a1 Prupe.2G206800_v2.0.a1 Prupe.2G206800_v2.0.a1 Prupe.2G206800_v2.0.a1
pyrus_communis	pycom01g12820 pycom07g16260
rosa_chinensis	RchiOBHm_Chr1g0362301
rosa_laevigata	RLG00000027653
rosa_multiflora	Rmu_co8090682.1_g000002 Rmu_ssc0000174.1_g000024
rosa_roxburghii	Rroxscaffold_4G00294270
rosa_rugosa	Rorug01G0297200 Rorug01G0297200 Rorug01G0297200 Rorug01G0297200
rosa_samantha	Rh1AG306100 Rh1BG269600 Rh1CG287100 Rh1DG299800 Rh4DG247600
rosa_wichuraiana	Rw1G027170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	668
Acc36I	ACCTGC	1 cut(s)	668
AccII	CGCG	2 cut(s)	177, 543
AciI	CCGC	5 cut(s)	85, 175, 511, 529, 541
AclWI	GGATC	2 cut(s)	499, 709
AcvI	CACGTG	2 cut(s)	143, 473
AfaI	GTAC	1 cut(s)	785
AfiI	CCNNNNNNNGG	8 cut(s)	181, 260, 431, 458, 535, 648, 770, 815
AflIII	ACRYGT	1 cut(s)	502
AgsI	TTSAA	2 cut(s)	71, 388
AjiI	CACGTC	1 cut(s)	503
AjnI	CCWGG	1 cut(s)	718
AluBI	AGCT	7 cut(s)	77, 248, 336, 726, 737, 800, 899
AluI	AGCT	7 cut(s)	77, 248, 336, 726, 737, 800, 899
Alw21I	GWGCWC	1 cut(s)	862
Alw26I	GTCTC	6 cut(s)	57, 87, 297, 588, 747, 865
AlwI	GGATC	2 cut(s)	499, 709
Ama87I	CYCGRG	1 cut(s)	763
AoxI	GGCC	1 cut(s)	411
ApaI	GGGCCC	1 cut(s)	415
ApeKI	GCWGC	3 cut(s)	5, 575, 656
AspLEI	GCGC	1 cut(s)	179
AspS9I	GGNCC	6 cut(s)	411, 412, 449, 538, 741, 806
AsuC2I	CCSGG	1 cut(s)	662
AsuHPI	GGTGA	3 cut(s)	233, 383, 695
AvaI	CYCGRG	1 cut(s)	763
AvaII	GGWCC	4 cut(s)	449, 538, 741, 806
BaeGI	GKGCMC	2 cut(s)	408, 415
BaeI	ACNNNNGTAYC	8 cut(s)	556, 589, 628, 661, 682, 715, 775, 808
BanII	GRGCYC	1 cut(s)	415
BarI	GAAGNNNNNNTAC	2 cut(s)	606, 638
BbrPI	CACGTG	2 cut(s)	143, 473
Bbv12I	GWGCWC	1 cut(s)	862
BbvI	GCAGC	2 cut(s)	562, 668
BccI	CCATC	4 cut(s)	200, 266, 491, 818
BceAI	ACGGC	1 cut(s)	681
BcgI	CGANNNNNNTGC	2 cut(s)	557, 591
BciT130I	CCWGG	1 cut(s)	720
BcnI	CCSGG	1 cut(s)	662
BcoDI	GTCTC	6 cut(s)	57, 87, 297, 588, 747, 865
BfaI	CTAG	3 cut(s)	291, 477, 591
BfuAI	ACCTGC	1 cut(s)	668
BisI	GCNGC	5 cut(s)	6, 85, 175, 576, 657
BlsI	GCNGC	5 cut(s)	7, 86, 176, 577, 658
Bme1390I	CCNGG	2 cut(s)	662, 720
Bme18I	GGWCC	4 cut(s)	449, 538, 741, 806
BmeT110I	CYCGRG	1 cut(s)	763
BmgBI	CACGTC	1 cut(s)	503
BmgT120I	GGNCC	6 cut(s)	411, 412, 449, 538, 741, 806
BmiI	GGNNCC	2 cut(s)	413, 808
BmrFI	CCNGG	2 cut(s)	662, 720
BmrI	ACTGGG	2 cut(s)	269, 418
BmsI	GCATC	1 cut(s)	192
BmuI	ACTGGG	2 cut(s)	269, 418
BplI	GAGNNNNNCTC	2 cut(s)	84, 116
BpmI	CTGGAG	1 cut(s)	702
BpuMI	CCSGG	1 cut(s)	662
Bsa29I	ATCGAT	2 cut(s)	562, 634
BsaAI	YACGTR	2 cut(s)	143, 473
BsaI	GGTCTC	2 cut(s)	57, 865
BsaJI	CCNNGG	4 cut(s)	660, 697, 719, 814
BsaXI	ACNNNNNCTCC	2 cut(s)	438, 468
Bsc4I	CCNNNNNNNGG	8 cut(s)	181, 260, 431, 458, 535, 648, 770, 815
Bse118I	RCCGGY	1 cut(s)	854
Bse1I	ACTGG	4 cut(s)	136, 264, 413, 642
BseBI	CCWGG	1 cut(s)	720
BseCI	ATCGAT	2 cut(s)	562, 634
BseDI	CCNNGG	4 cut(s)	660, 697, 719, 814
BseGI	GGATG	2 cut(s)	190, 810
BseLI	CCNNNNNNNGG	8 cut(s)	181, 260, 431, 458, 535, 648, 770, 815
BseMII	CTCAG	1 cut(s)	249
BseNI	ACTGG	4 cut(s)	136, 264, 413, 642
BseRI	GAGGAG	3 cut(s)	834, 837, 842
BseSI	GKGCMC	2 cut(s)	408, 415
BseXI	GCAGC	2 cut(s)	562, 668
BsgI	GTGCAG	2 cut(s)	561, 789
Bsh1236I	CGCG	2 cut(s)	177, 543
BshFI	GGCC	1 cut(s)	413
BshVI	ATCGAT	2 cut(s)	562, 634
BsiHKAI	GWGCWC	1 cut(s)	862
BsiHKCI	CYCGRG	1 cut(s)	763
BsiSI	CCGG	3 cut(s)	47, 662, 855
BslFI	GGGAC	2 cut(s)	227, 792
BslI	CCNNNNNNNGG	8 cut(s)	181, 260, 431, 458, 535, 648, 770, 815
BsmAI	GTCTC	6 cut(s)	57, 87, 297, 588, 747, 865
BsmFI	GGGAC	2 cut(s)	227, 792
BsmI	GAATGC	1 cut(s)	386
BsnI	GGCC	1 cut(s)	413
Bso31I	GGTCTC	2 cut(s)	57, 865
BsoBI	CYCGRG	1 cut(s)	763
Bsp120I	GGGCCC	1 cut(s)	411
Bsp1286I	GDGCHC	3 cut(s)	408, 415, 862
Bsp143I	GATC	8 cut(s)	111, 169, 223, 491, 559, 631, 667, 701
BspACI	CCGC	5 cut(s)	85, 175, 511, 529, 541
BspANI	GGCC	1 cut(s)	413
BspCNI	CTCAG	1 cut(s)	248
BspDI	ATCGAT	2 cut(s)	562, 634
BspFNI	CGCG	2 cut(s)	177, 543
BspLI	GGNNCC	2 cut(s)	413, 808
BspMI	ACCTGC	1 cut(s)	668
BspPI	GGATC	2 cut(s)	499, 709
BspTNI	GGTCTC	2 cut(s)	57, 865
BsrFI	RCCGGY	1 cut(s)	854
BsrI	ACTGG	4 cut(s)	136, 264, 413, 642
BssAI	RCCGGY	1 cut(s)	854
BssECI	CCNNGG	4 cut(s)	660, 697, 719, 814
BssMI	GATC	8 cut(s)	111, 169, 223, 491, 559, 631, 667, 701
Bst2UI	CCWGG	1 cut(s)	720
Bst4CI	ACNGT	6 cut(s)	308, 524, 572, 710, 788, 926
Bst6I	CTCTTC	1 cut(s)	829
BstBAI	YACGTR	2 cut(s)	143, 473
BstC8I	GCNNGC	2 cut(s)	580, 772
BstDEI	CTNAG	1 cut(s)	235
BstDSI	CCRYGG	2 cut(s)	697, 814
BstF5I	GGATG	2 cut(s)	190, 810
BstFNI	CGCG	2 cut(s)	177, 543
BstHHI	GCGC	1 cut(s)	179
BstKTI	GATC	8 cut(s)	114, 172, 226, 494, 562, 634, 670, 704
BstMAI	GTCTC	6 cut(s)	57, 87, 297, 588, 747, 865
BstMBI	GATC	8 cut(s)	111, 169, 223, 491, 559, 631, 667, 701
BstMWI	GCNNNNNNNGC	2 cut(s)	662, 767
BstNI	CCWGG	1 cut(s)	720
BstSCI	CCNGG	2 cut(s)	660, 718
BstSLI	GKGCMC	2 cut(s)	408, 415
BstUI	CGCG	2 cut(s)	177, 543
BstV1I	GCAGC	2 cut(s)	562, 668
BstX2I	RGATCY	1 cut(s)	491
BstYI	RGATCY	1 cut(s)	491
Bsu15I	ATCGAT	2 cut(s)	562, 634
BsuRI	GGCC	1 cut(s)	413
BsuTUI	ATCGAT	2 cut(s)	562, 634
BtgI	CCRYGG	2 cut(s)	697, 814
BtrI	CACGTC	1 cut(s)	503
BtsCI	GGATG	2 cut(s)	190, 810
BtsI	GCAGTG	1 cut(s)	781
BtsIMutI	CAGTG	5 cut(s)	243, 313, 406, 649, 781
BveI	ACCTGC	1 cut(s)	668
Cac8I	GCNNGC	2 cut(s)	580, 772
CfoI	GCGC	1 cut(s)	179
Cfr10I	RCCGGY	1 cut(s)	854
Cfr13I	GGNCC	6 cut(s)	411, 412, 449, 538, 741, 806
ClaI	ATCGAT	2 cut(s)	562, 634
Csp6I	GTAC	1 cut(s)	784
CviAII	CATG	3 cut(s)	115, 206, 284
CviQI	GTAC	1 cut(s)	784
DdeI	CTNAG	1 cut(s)	235
DpnI	GATC	8 cut(s)	113, 171, 225, 493, 561, 633, 669, 703
DpnII	GATC	8 cut(s)	111, 169, 223, 491, 559, 631, 667, 701
Eam1104I	CTCTTC	1 cut(s)	829
EarI	CTCTTC	1 cut(s)	829
Eco24I	GRGCYC	1 cut(s)	415
Eco31I	GGTCTC	2 cut(s)	57, 865
Eco47I	GGWCC	4 cut(s)	449, 538, 741, 806
Eco72I	CACGTG	2 cut(s)	143, 473
Eco88I	CYCGRG	1 cut(s)	763
EcoO109I	RGGNCCY	1 cut(s)	449
EcoRII	CCWGG	1 cut(s)	718
EcoT22I	ATGCAT	1 cut(s)	207
EcoT38I	GRGCYC	1 cut(s)	415
FaeI	CATG	3 cut(s)	118, 209, 287
FaqI	GGGAC	2 cut(s)	227, 792
FatI	CATG	3 cut(s)	114, 205, 283
Fnu4HI	GCNGC	5 cut(s)	6, 85, 175, 576, 657
FokI	GGATG	2 cut(s)	197, 797
FriOI	GRGCYC	1 cut(s)	415
Fsp4HI	GCNGC	5 cut(s)	6, 85, 175, 576, 657
FspBI	CTAG	3 cut(s)	291, 477, 591
GlaI	GCGC	1 cut(s)	178
GluI	GCNGC	5 cut(s)	6, 85, 175, 576, 657
GsuI	CTGGAG	1 cut(s)	702
HaeIII	GGCC	1 cut(s)	413
HapII	CCGG	3 cut(s)	47, 662, 855
HhaI	GCGC	1 cut(s)	179
Hin1II	CATG	3 cut(s)	118, 209, 287
Hin6I	GCGC	1 cut(s)	177
HinP1I	GCGC	1 cut(s)	177
HincII	GTYRAC	1 cut(s)	508
HindII	GTYRAC	1 cut(s)	508
HindIII	AAGCTT	1 cut(s)	334
HinfI	GANTC	2 cut(s)	147, 188
HpaII	CCGG	3 cut(s)	47, 662, 855
HphI	GGTGA	3 cut(s)	233, 383, 695
Hpy166II	GTNNAC	6 cut(s)	140, 241, 395, 508, 538, 915
Hpy188I	TCNGA	5 cut(s)	92, 111, 197, 496, 706
Hpy188III	TCNNGA	2 cut(s)	101, 291
Hpy8I	GTNNAC	6 cut(s)	140, 241, 395, 508, 538, 915
Hpy99I	CGWCG	3 cut(s)	572, 910, 913
HpyAV	CCTTC	3 cut(s)	8, 204, 435
HpyCH4III	ACNGT	6 cut(s)	308, 524, 572, 710, 788, 926
HpyCH4IV	ACGT	3 cut(s)	142, 472, 502
HpyCH4V	TGCA	6 cut(s)	8, 205, 578, 656, 677, 770
HpyF10VI	GCNNNNNNNGC	2 cut(s)	662, 767
HpyF3I	CTNAG	1 cut(s)	235
HpySE526I	ACGT	3 cut(s)	142, 472, 502
Hsp92II	CATG	3 cut(s)	118, 209, 287
HspAI	GCGC	1 cut(s)	177
Kzo9I	GATC	8 cut(s)	111, 169, 223, 491, 559, 631, 667, 701
LmnI	GCTCC	3 cut(s)	723, 865, 896
Lsp1109I	GCAGC	2 cut(s)	562, 668
LweI	GCATC	1 cut(s)	192
MaeI	CTAG	3 cut(s)	291, 477, 591
MaeII	ACGT	3 cut(s)	142, 472, 502
MaeIII	GTNAC	4 cut(s)	52, 524, 644, 776
MalI	GATC	8 cut(s)	113, 171, 225, 493, 561, 633, 669, 703
MboI	GATC	8 cut(s)	111, 169, 223, 491, 559, 631, 667, 701
MboII	GAAGA	3 cut(s)	386, 459, 846
MflI	RGATCY	1 cut(s)	491
MhlI	GDGCHC	3 cut(s)	408, 415, 862
MlyI	GAGTC	1 cut(s)	197
Mph1103I	ATGCAT	1 cut(s)	207
MseI	TTAA	1 cut(s)	931
MslI	CAYNNNNRTG	1 cut(s)	236
MspI	CCGG	3 cut(s)	47, 662, 855
MspR9I	CCNGG	2 cut(s)	662, 720
Mva1269I	GAATGC	1 cut(s)	386
MvaI	CCWGG	1 cut(s)	720
MvnI	CGCG	2 cut(s)	177, 543
MwoI	GCNNNNNNNGC	2 cut(s)	662, 767
NciI	CCSGG	1 cut(s)	662
NdeII	GATC	8 cut(s)	111, 169, 223, 491, 559, 631, 667, 701
NlaIII	CATG	3 cut(s)	118, 209, 287
NlaIV	GGNNCC	2 cut(s)	413, 808
NmuCI	GTSAC	4 cut(s)	52, 524, 644, 776
NsiI	ATGCAT	1 cut(s)	207
PaqCI	CACCTGC	1 cut(s)	668
PctI	GAATGC	1 cut(s)	386
PfeI	GAWTC	1 cut(s)	147
PkrI	GCNGC	5 cut(s)	7, 86, 176, 577, 658
PleI	GAGTC	1 cut(s)	196
PmaCI	CACGTG	2 cut(s)	143, 473
PmlI	CACGTG	2 cut(s)	143, 473
PpsI	GAGTC	1 cut(s)	196
Ppu21I	YACGTR	2 cut(s)	143, 473
PpuMI	RGGWCCY	1 cut(s)	449
Psp5II	RGGWCCY	1 cut(s)	449
Psp6I	CCWGG	1 cut(s)	718
PspCI	CACGTG	2 cut(s)	143, 473
PspGI	CCWGG	1 cut(s)	718
PspN4I	GGNNCC	2 cut(s)	413, 808
PspOMI	GGGCCC	1 cut(s)	411
PspPI	GGNCC	6 cut(s)	411, 412, 449, 538, 741, 806
PspPPI	RGGWCCY	1 cut(s)	449
PsuI	RGATCY	1 cut(s)	491
RsaI	GTAC	1 cut(s)	785
RsaNI	GTAC	1 cut(s)	784
RseI	CAYNNNNRTG	1 cut(s)	236
SaqAI	TTAA	1 cut(s)	931
SatI	GCNGC	5 cut(s)	6, 85, 175, 576, 657
Sau3AI	GATC	8 cut(s)	111, 169, 223, 491, 559, 631, 667, 701
Sau96I	GGNCC	6 cut(s)	411, 412, 449, 538, 741, 806
SchI	GAGTC	1 cut(s)	197
ScrFI	CCNGG	2 cut(s)	662, 720
SduI	GDGCHC	3 cut(s)	408, 415, 862
SfaNI	GCATC	1 cut(s)	192
SinI	GGWCC	4 cut(s)	449, 538, 741, 806
SmiMI	CAYNNNNRTG	1 cut(s)	236
SsiI	CCGC	5 cut(s)	85, 175, 511, 529, 541
SspMI	CTAG	3 cut(s)	291, 477, 591
StyD4I	CCNGG	2 cut(s)	660, 718
TaaI	ACNGT	6 cut(s)	308, 524, 572, 710, 788, 926
TaiI	ACGT	3 cut(s)	145, 475, 505
TaqI	TCGA	4 cut(s)	102, 317, 562, 634
TaqII	GACCGA	2 cut(s)	729, 889
TauI	GCSGC	2 cut(s)	87, 177
TfiI	GAWTC	1 cut(s)	147
Tru1I	TTAA	1 cut(s)	931
Tru9I	TTAA	1 cut(s)	931
TscAI	CASTG	5 cut(s)	243, 313, 413, 649, 781
TseFI	GTSAC	4 cut(s)	52, 524, 644, 776
TseI	GCWGC	3 cut(s)	5, 575, 656
Tsp45I	GTSAC	4 cut(s)	52, 524, 644, 776
TspDTI	ATGAA	1 cut(s)	393
TspGWI	ACGGA	2 cut(s)	803, 894
TspRI	CASTG	5 cut(s)	243, 313, 413, 649, 781
VpaK11BI	GGWCC	4 cut(s)	449, 538, 741, 806
XbaI	TCTAGA	1 cut(s)	290
XspI	CTAG	3 cut(s)	291, 477, 591
Zsp2I	ATGCAT	1 cut(s)	207

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