Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0007111

Physical Location & Seq

Genomic Coordinates Forward (+)

17596717 .. 17599604

Gene Structure 2888 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT2G42240.3

Sequence Viewer

CDS Protein Promoter (2k)

Length: 879 bp

ATGGATGATTTGGAAGCTTACTATTCTCACTATAATTTACCGGCGATGGTTCCTCCTCCGCCGCCGGGAGTTTCTCCGATTCCAATTACTTCAGCTCATTCCGTCTATTTGCCTACCCATGTCTCAATTGGAGCTCGCGATGAGGTTAGGACGCTTTTCGTCGCCGGACTTCCTGAAGATGTCAAGCCTCGGGAGATCTACAATCTCTTTCGTGAGTTCCCAGGATATGAGACTTCGCATCTCCGGAGCTCAGATGGAGCTAAGCCCTTCGCATTTGCTGTGTTCTCGGATCTGCAATCAGCTGTAGCGGTGATGCATGCTCTCAATGGAATGGTGTTTGATCTTGAAAAGCATTCTACTCTTCACATTGACCTTGCCAAATCAAATCCCAAATCTAAGCGTTCAAGAACAGATGATGGTTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGGTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAATTGGTTATTCACCTGCACAAAGTCAAGGAATTGCTAATGTTGCTGGGAGGGCACCGACTTCTAGAAAACCTAGTAAGGCGGCAGATCCTTGTCCAACACTTTTCATAGCGAATATGGGACCAAATTGCACCGAAGCTGAGCTAATTCAAGTTTTCTCGAGATGCCGTGGATTCTTGAAGCTGAAGATTCAGGGTACATATGGGACTCCTGTTGCATTTGTTGATTTCCAGGACGTCAGTTGCTCAAGTGAAGCACTACATACTCTTCAAGGCACAGTGCTTTACTCATCCCTCACTGGGGAAGTTTTGAGGCTGCAATATGCTAGATCACGGATGGGAATGCGTAAGAAGATTAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006355 GO:0006357 GO:0007275 GO:0008150 GO:0008284 GO:0009653 GO:0009790 GO:0009887 GO:0009889 GO:0009966 GO:0009968 GO:0010468 GO:0010556 GO:0010646 GO:0010648 GO:0019219 GO:0019222 GO:0023051 GO:0023057 GO:0030510 GO:0030514 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0035239 GO:0035295 GO:0042127 GO:0042802 GO:0042803 GO:0044424 GO:0044464 GO:0045595 GO:0045596 GO:0046983 GO:0048513 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048546 GO:0048557 GO:0048562 GO:0048565 GO:0048566 GO:0048568 GO:0048583 GO:0048585 GO:0048598 GO:0048660 GO:0048661 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051093 GO:0051147 GO:0051148 GO:0051150 GO:0051151 GO:0051171 GO:0051252 GO:0055123 GO:0060255 GO:0065007 GO:0080090 GO:0090092 GO:0090101 GO:0090287 GO:0090288 GO:0097159 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

292

Amino Acids

31.97

Weight (kDa)

8.79

Isoelectric Point (pI)

49.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	52 - 114	1.2e-08	RNA recognition motif
RRM_1	PF00076	207 - 269	4.1e-06	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0007111)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42240 AT2G42240 AT2G42240
fragaria_vesca	FvH4_1g16380 FvH4_1g16380
malus_domestica	MD02G1176300.v1.1 MD15G1286700.v1.1
prunus_persica	Prupe.6G231400_v2.0.a1 Prupe.6G231400_v2.0.a1 Prupe.6G231400_v2.0.a1 Prupe.6G231400_v2.0.a1 Prupe.6G231400_v2.0.a1
pyrus_communis	pycom02g14250 pycom15g25000
rosa_chinensis	RchiOBHm_Chr2g0106251
rosa_laevigata	RLG00000017483
rosa_multiflora	Rmu_sc0008603.1_g000013
rosa_roxburghii	Rroxscaffold_2G00137330
rosa_rugosa	Rorug02G0133700 Rorug02G0133800
rosa_samantha	Rh2AG184900 Rh2BG195200 Rh2CG190000 Rh2DG191100
rosa_wichuraiana	Rw2G014440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	541
AatII	GACGTC	1 cut(s)	756
Acc36I	ACCTGC	1 cut(s)	541
AccB1I	GGYRCC	1 cut(s)	571
AccII	CGCG	1 cut(s)	138
AccIII	TCCGGA	1 cut(s)	243
AciI	CCGC	4 cut(s)	59, 62, 308, 599
AclWI	GGATC	2 cut(s)	297, 599
AcuI	CTGAAG	3 cut(s)	75, 195, 722
AcyI	GRCGYC	1 cut(s)	753
AfaI	GTAC	1 cut(s)	715
AfiI	CCNNNNNNNGG	3 cut(s)	65, 816, 817
AgsI	TTSAA	7 cut(s)	347, 405, 433, 485, 668, 697, 788
AjnI	CCWGG	3 cut(s)	220, 490, 747
AjuI	GAANNNNNNNTTGG	2 cut(s)	456, 488
Alw21I	GWGCWC	2 cut(s)	136, 251
Alw26I	GTCTC	2 cut(s)	127, 224
AlwI	GGATC	2 cut(s)	297, 599
Ama87I	CYCGRG	2 cut(s)	189, 676
Aor13HI	TCCGGA	1 cut(s)	243
ApeKI	GCWGC	2 cut(s)	477, 832
AseI	ATTAAT	1 cut(s)	873
AspS9I	GGNCC	1 cut(s)	638
AsuC2I	CCSGG	1 cut(s)	66
AsuHPI	GGTGA	2 cut(s)	322, 522
AvaI	CYCGRG	2 cut(s)	189, 676
AvaII	GGWCC	1 cut(s)	638
BaeGI	GKGCMC	1 cut(s)	574
BanI	GGYRCC	1 cut(s)	571
BanII	GRGCYC	2 cut(s)	136, 251
Bbv12I	GWGCWC	2 cut(s)	136, 251
BbvI	GCAGC	2 cut(s)	489, 819
BccI	CCATC	4 cut(s)	40, 248, 410, 847
BceAI	ACGGC	1 cut(s)	669
BciT130I	CCWGG	3 cut(s)	222, 492, 749
BcnI	CCSGG	1 cut(s)	66
BcoDI	GTCTC	2 cut(s)	127, 224
BfaI	CTAG	3 cut(s)	582, 591, 843
BfmI	CTRYAG	1 cut(s)	303
BfuAI	ACCTGC	1 cut(s)	541
BglII	AGATCT	1 cut(s)	195
BisI	GCNGC	4 cut(s)	62, 478, 600, 833
BlpI	GCTNAGC	2 cut(s)	261, 657
BlsI	GCNGC	4 cut(s)	63, 479, 601, 834
Bme1390I	CCNGG	4 cut(s)	66, 222, 492, 749
Bme18I	GGWCC	1 cut(s)	638
BmeT110I	CYCGRG	2 cut(s)	189, 676
BmgT120I	GGNCC	1 cut(s)	638
BmiI	GGNNCC	3 cut(s)	51, 573, 639
BmrFI	CCNGG	4 cut(s)	66, 222, 492, 749
BmrI	ACTGGG	1 cut(s)	825
BmsI	GCATC	3 cut(s)	247, 303, 671
BmuI	ACTGGG	1 cut(s)	825
Bpu1102I	GCTNAGC	2 cut(s)	261, 657
BpuEI	CTTGAG	2 cut(s)	425, 748
BpuMI	CCSGG	1 cut(s)	66
BsaHI	GRCGYC	1 cut(s)	753
BsaJI	CCNNGG	3 cut(s)	188, 220, 685
BsaWI	WCCGGW	1 cut(s)	243
Bsc4I	CCNNNNNNNGG	3 cut(s)	65, 816, 817
Bse118I	RCCGGY	1 cut(s)	40
Bse1I	ACTGG	1 cut(s)	820
BseAI	TCCGGA	1 cut(s)	243
BseBI	CCWGG	3 cut(s)	222, 492, 749
BseDI	CCNNGG	3 cut(s)	188, 220, 685
BseGI	GGATG	3 cut(s)	10, 806, 858
BseLI	CCNNNNNNNGG	3 cut(s)	65, 816, 817
BseMII	CTCAG	2 cut(s)	264, 648
BseNI	ACTGG	1 cut(s)	820
BseRI	GAGGAG	1 cut(s)	45
BseSI	GKGCMC	1 cut(s)	574
BseXI	GCAGC	2 cut(s)	489, 819
BseYI	CCCAGC	1 cut(s)	563
BsgI	GTGCAG	1 cut(s)	519
Bsh1236I	CGCG	1 cut(s)	138
BshNI	GGYRCC	1 cut(s)	571
BsiHKAI	GWGCWC	2 cut(s)	136, 251
BsiHKCI	CYCGRG	2 cut(s)	189, 676
BsiSI	CCGG	4 cut(s)	41, 65, 165, 244
BslFI	GGGAC	2 cut(s)	651, 736
BslI	CCNNNNNNNGG	3 cut(s)	65, 816, 817
BsmAI	GTCTC	2 cut(s)	127, 224
BsmFI	GGGAC	2 cut(s)	651, 736
BsmI	GAATGC	2 cut(s)	352, 864
BsoBI	CYCGRG	2 cut(s)	189, 676
Bsp1286I	GDGCHC	3 cut(s)	136, 251, 574
Bsp13I	TCCGGA	1 cut(s)	243
Bsp143I	GATC	5 cut(s)	195, 289, 340, 604, 845
Bsp1720I	GCTNAGC	2 cut(s)	261, 657
Bsp68I	TCGCGA	1 cut(s)	138
BspACI	CCGC	4 cut(s)	59, 62, 308, 599
BspCNI	CTCAG	2 cut(s)	263, 649
BspEI	TCCGGA	1 cut(s)	243
BspFNI	CGCG	1 cut(s)	138
BspLI	GGNNCC	3 cut(s)	51, 573, 639
BspMI	ACCTGC	1 cut(s)	541
BspPI	GGATC	2 cut(s)	297, 599
BspT107I	GGYRCC	1 cut(s)	571
BsrFI	RCCGGY	1 cut(s)	40
BsrI	ACTGG	1 cut(s)	820
BssAI	RCCGGY	1 cut(s)	40
BssECI	CCNNGG	3 cut(s)	188, 220, 685
BssMI	GATC	5 cut(s)	195, 289, 340, 604, 845
BssNI	GRCGYC	1 cut(s)	753
Bst2UI	CCWGG	3 cut(s)	222, 492, 749
Bst4CI	ACNGT	1 cut(s)	796
Bst6I	CTCTTC	2 cut(s)	366, 789
BstACI	GRCGYC	1 cut(s)	753
BstC8I	GCNNGC	2 cut(s)	136, 318
BstDEI	CTNAG	4 cut(s)	250, 261, 396, 657
BstDSI	CCRYGG	1 cut(s)	685
BstF5I	GGATG	3 cut(s)	10, 806, 858
BstFNI	CGCG	1 cut(s)	138
BstKTI	GATC	5 cut(s)	198, 292, 343, 607, 848
BstMAI	GTCTC	2 cut(s)	127, 224
BstMBI	GATC	5 cut(s)	195, 289, 340, 604, 845
BstMWI	GCNNNNNNNGC	2 cut(s)	560, 569
BstNI	CCWGG	3 cut(s)	222, 492, 749
BstNSI	RCATGY	1 cut(s)	320
BstSCI	CCNGG	4 cut(s)	64, 220, 490, 747
BstSFI	CTRYAG	1 cut(s)	303
BstSLI	GKGCMC	1 cut(s)	574
BstUI	CGCG	1 cut(s)	138
BstV1I	GCAGC	2 cut(s)	489, 819
BstX2I	RGATCY	3 cut(s)	195, 289, 604
BstYI	RGATCY	3 cut(s)	195, 289, 604
BtgI	CCRYGG	1 cut(s)	685
BtgZI	GCGATG	2 cut(s)	59, 153
BtsCI	GGATG	3 cut(s)	10, 806, 858
BtsIMutI	CAGTG	2 cut(s)	801, 813
BtuMI	TCGCGA	1 cut(s)	138
BveI	ACCTGC	1 cut(s)	541
Cac8I	GCNNGC	2 cut(s)	136, 318
Cfr10I	RCCGGY	1 cut(s)	40
Cfr13I	GGNCC	1 cut(s)	638
CseI	GACGC	1 cut(s)	160
Csp6I	GTAC	1 cut(s)	714
CviAII	CATG	2 cut(s)	119, 317
CviQI	GTAC	1 cut(s)	714
DdeI	CTNAG	4 cut(s)	250, 261, 396, 657
DpnI	GATC	5 cut(s)	197, 291, 342, 606, 847
DpnII	GATC	5 cut(s)	195, 289, 340, 604, 845
Eam1104I	CTCTTC	2 cut(s)	366, 789
EarI	CTCTTC	2 cut(s)	366, 789
EciI	GGCGGA	1 cut(s)	48
Ecl136II	GAGCTC	2 cut(s)	134, 249
Eco24I	GRGCYC	2 cut(s)	136, 251
Eco47I	GGWCC	1 cut(s)	638
Eco53kI	GAGCTC	2 cut(s)	134, 249
Eco57I	CTGAAG	3 cut(s)	75, 195, 722
Eco88I	CYCGRG	2 cut(s)	189, 676
EcoICRI	GAGCTC	2 cut(s)	134, 249
EcoRII	CCWGG	3 cut(s)	220, 490, 747
EcoT22I	ATGCAT	1 cut(s)	318
EcoT38I	GRGCYC	2 cut(s)	136, 251
FaeI	CATG	2 cut(s)	122, 320
FaqI	GGGAC	2 cut(s)	651, 736
FatI	CATG	2 cut(s)	118, 316
FauNDI	CATATG	1 cut(s)	718
Fnu4HI	GCNGC	4 cut(s)	62, 478, 600, 833
FokI	GGATG	3 cut(s)	17, 793, 865
FriOI	GRGCYC	2 cut(s)	136, 251
Fsp4HI	GCNGC	4 cut(s)	62, 478, 600, 833
FspBI	CTAG	3 cut(s)	582, 591, 843
GluI	GCNGC	4 cut(s)	62, 478, 600, 833
GsaI	CCCAGC	1 cut(s)	567
HapII	CCGG	4 cut(s)	41, 65, 165, 244
HgaI	GACGC	1 cut(s)	160
Hin1I	GRCGYC	1 cut(s)	753
Hin1II	CATG	2 cut(s)	122, 320
HindIII	AAGCTT	2 cut(s)	15, 427
HinfI	GANTC	5 cut(s)	79, 464, 690, 706, 724
HpaII	CCGG	4 cut(s)	41, 65, 165, 244
HphI	GGTGA	2 cut(s)	322, 522
Hpy188I	TCNGA	3 cut(s)	78, 253, 289
Hpy99I	CGWCG	1 cut(s)	164
HpyAV	CCTTC	1 cut(s)	277
HpyCH4III	ACNGT	1 cut(s)	796
HpyCH4IV	ACGT	1 cut(s)	753
HpyCH4V	TGCA	6 cut(s)	295, 316, 536, 648, 734, 835
HpyF10VI	GCNNNNNNNGC	2 cut(s)	560, 569
HpyF3I	CTNAG	4 cut(s)	250, 261, 396, 657
HpySE526I	ACGT	1 cut(s)	753
Hsp92I	GRCGYC	1 cut(s)	753
Hsp92II	CATG	2 cut(s)	122, 320
Kpn2I	TCCGGA	1 cut(s)	243
Kzo9I	GATC	5 cut(s)	195, 289, 340, 604, 845
LmnI	GCTCC	3 cut(s)	131, 246, 257
Lsp1109I	GCAGC	2 cut(s)	489, 819
LweI	GCATC	3 cut(s)	247, 303, 671
MaeI	CTAG	3 cut(s)	582, 591, 843
MaeII	ACGT	1 cut(s)	753
MalI	GATC	5 cut(s)	197, 291, 342, 606, 847
MboI	GATC	5 cut(s)	195, 289, 340, 604, 845
MboII	GAAGA	4 cut(s)	188, 353, 715, 776
MfeI	CAATTG	2 cut(s)	126, 519
MflI	RGATCY	3 cut(s)	195, 289, 604
MhlI	GDGCHC	3 cut(s)	136, 251, 574
MluCI	AATT	8 cut(s)	34, 84, 126, 519, 549, 643, 663, 874
MlyI	GAGTC	1 cut(s)	718
MmeI	TCCRAC	1 cut(s)	638
MnlI	CCTC	7 cut(s)	63, 66, 136, 198, 561, 821, 822
Mph1103I	ATGCAT	1 cut(s)	318
MroI	TCCGGA	1 cut(s)	243
MseI	TTAA	1 cut(s)	873
MspA1I	CMGCKG	1 cut(s)	302
MspI	CCGG	4 cut(s)	41, 65, 165, 244
MspR9I	CCNGG	4 cut(s)	66, 222, 492, 749
MunI	CAATTG	2 cut(s)	126, 519
Mva1269I	GAATGC	2 cut(s)	352, 864
MvaI	CCWGG	3 cut(s)	222, 492, 749
MvnI	CGCG	1 cut(s)	138
MwoI	GCNNNNNNNGC	2 cut(s)	560, 569
NciI	CCSGG	1 cut(s)	66
NdeI	CATATG	1 cut(s)	718
NdeII	GATC	5 cut(s)	195, 289, 340, 604, 845
NlaIII	CATG	2 cut(s)	122, 320
NlaIV	GGNNCC	3 cut(s)	51, 573, 639
NruI	TCGCGA	1 cut(s)	138
NsiI	ATGCAT	1 cut(s)	318
NspI	RCATGY	1 cut(s)	320
PaeI	GCATGC	1 cut(s)	320
PaeR7I	CTCGAG	1 cut(s)	676
PaqCI	CACCTGC	1 cut(s)	541
PctI	GAATGC	2 cut(s)	352, 864
PfeI	GAWTC	4 cut(s)	79, 464, 690, 706
PfoI	TCCNGGA	2 cut(s)	490, 747
PkrI	GCNGC	4 cut(s)	63, 479, 601, 834
PleI	GAGTC	1 cut(s)	718
PpsI	GAGTC	1 cut(s)	718
PshBI	ATTAAT	1 cut(s)	873
Psp124BI	GAGCTC	2 cut(s)	136, 251
Psp6I	CCWGG	3 cut(s)	220, 490, 747
PspFI	CCCAGC	1 cut(s)	563
PspGI	CCWGG	3 cut(s)	220, 490, 747
PspN4I	GGNNCC	3 cut(s)	51, 573, 639
PspPI	GGNCC	1 cut(s)	638
PsuI	RGATCY	3 cut(s)	195, 289, 604
PvuII	CAGCTG	1 cut(s)	302
RruI	TCGCGA	1 cut(s)	138
RsaI	GTAC	1 cut(s)	715
RsaNI	GTAC	1 cut(s)	714
SacI	GAGCTC	2 cut(s)	136, 251
SaqAI	TTAA	1 cut(s)	873
SatI	GCNGC	4 cut(s)	62, 478, 600, 833
Sau3AI	GATC	5 cut(s)	195, 289, 340, 604, 845
Sau96I	GGNCC	1 cut(s)	638
SchI	GAGTC	1 cut(s)	718
ScrFI	CCNGG	4 cut(s)	66, 222, 492, 749
SduI	GDGCHC	3 cut(s)	136, 251, 574
SfaNI	GCATC	3 cut(s)	247, 303, 671
SfcI	CTRYAG	1 cut(s)	303
Sfr274I	CTCGAG	1 cut(s)	676
SinI	GGWCC	1 cut(s)	638
SlaI	CTCGAG	1 cut(s)	676
SmlI	CTYRAG	3 cut(s)	440, 676, 763
SmoI	CTYRAG	3 cut(s)	440, 676, 763
SphI	GCATGC	1 cut(s)	320
Sse9I	AATT	8 cut(s)	34, 84, 126, 519, 549, 643, 663, 874
SsiI	CCGC	4 cut(s)	59, 62, 308, 599
SspMI	CTAG	3 cut(s)	582, 591, 843
SstI	GAGCTC	2 cut(s)	136, 251
StyD4I	CCNGG	4 cut(s)	64, 220, 490, 747
TaaI	ACNGT	1 cut(s)	796
TaiI	ACGT	1 cut(s)	756
TaqI	TCGA	1 cut(s)	677
TasI	AATT	8 cut(s)	34, 84, 126, 519, 549, 643, 663, 874
TauI	GCSGC	2 cut(s)	64, 602
TfiI	GAWTC	4 cut(s)	79, 464, 690, 706
Tru1I	TTAA	1 cut(s)	873
Tru9I	TTAA	1 cut(s)	873
TscAI	CASTG	2 cut(s)	801, 820
TseI	GCWGC	2 cut(s)	477, 832
TspDTI	ATGAA	1 cut(s)	613
TspGWI	ACGGA	2 cut(s)	91, 865
TspRI	CASTG	2 cut(s)	801, 820
VpaK11BI	GGWCC	1 cut(s)	638
VspI	ATTAAT	1 cut(s)	873
XbaI	TCTAGA	1 cut(s)	581
XceI	RCATGY	1 cut(s)	320
XcmI	CCANNNNNNNNNTGG	1 cut(s)	125
XhoI	CTCGAG	1 cut(s)	676
XspI	CTAG	3 cut(s)	582, 591, 843
ZraI	GACGTC	1 cut(s)	754
Zsp2I	ATGCAT	1 cut(s)	318

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