Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0008422

Physical Location & Seq

Genomic Coordinates Reverse (-)

17350898 .. 17352853

Gene Structure 1956 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G47120.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGAATCCATTGACGCAGGTGAAGAATCTACAGAAGATAAACGCTAGGGAATCAGATTTAGGAATATCTGATGAAGCTTCATGGCACGCTAAGTACAAAAACTCTGCATATGTCTACGTCGGAGGCATACCGTTCGATCTCACCGAAGGTGATCTTCTCGCCGTCTTCTCTCAATATGGTGAAATTGTTGATGTCAATCTTATTCGAGACAAGGGAACGGGTAAATCTAAAGGTTTTGCTTTTCTTGCTTATGAAGATCAGAGAAGTACCATTCTTGCTGTTGATAATCTGAATGGAGCTCTTGTGTTGGGACGGACCATTAAGGTGGACCATTGTGGGGCATACAAAAAGCACGAAGAGGAGGATGAAGAGACGCGACGCCAGAATAGAGAGGCTCGTGGTGTATGCAGAGCTTTTCAGAGAGGAGAGTGTACTCGTGGTGATTCTTGCAAATTTTCCCACGATGAAAAAAGAGCTGCAAATACTGGTTGGGGTCATGAAGAGGATAGAAGTTCCAAGTGGGATCATGACAAGAATAGAGAGGGTCGTGGTGTTTGCAGAGCTTTTCAGAGAGGAGAGTGTACTCGTGGTGATTCTTGTAAATTTTCACATGATGAAAAAAGAGCTGCAACTACTGGTTGGGGTCATGAAGAGGATAGAAGTTCCAAGTGGGATCAAGACAAGTTAAATGGTGCTAAAAAGGGTGGTACAAGTTTTGGCAATCGAGGAGATTTCAAACCTGATGTGGAAGAGAAAAGTTACAGAGGAAGGGGTGATGGAGATGCCTCGTATGGCCGCCCTAAAGAGAGAGAAAGAGTGGATAGGGAGGATATGGGGCCAAGGTCAAGAGATGCTTATGATATGAAGGAACAAAAGAGATCAGGACGGTATGATAATGCGTATTCTAGAAGGCACAATGATGAAATTGATTATGTAAGGGAGGACAAGGGATCCAGAGCACAAGATTGGGAGAAAAGGAAGGCAGAATCTAGAAGAGATCGTAACGACAGGGAGGAAAAAGATAGGGATTCATTAAGAAGGGAAGATCGCCGTCGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005686 GO:0006139 GO:0006396 GO:0006397 GO:0006403 GO:0006405 GO:0006406 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0008104 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0015031 GO:0015833 GO:0015931 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0030532 GO:0031503 GO:0031974 GO:0031981 GO:0032991 GO:0033036 GO:0034613 GO:0034641 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045184 GO:0046483 GO:0046907 GO:0050657 GO:0050658 GO:0051028 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051641 GO:0051649 GO:0070013 GO:0070274 GO:0070727 GO:0071011 GO:0071013 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1 zf-CCCH

Protein Analysis

352

Amino Acids

40.68

Weight (kDa)

8.52

Isoelectric Point (pI)

47.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_7	PF16367	35 - 94	2.1e-06	RNA recognition motif
RRM_1	PF00076	38 - 108	8.3e-21	RNA recognition motif
zf-CCCH_4	PF18044	135 - 155	2e-07	CCCH-type zinc finger
zf-CCCH	PF00642	135 - 156	3.1e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf_CCCH_4	PF18345	136 - 154	2.7e-06	Zinc finger domain
zf-CCCH	PF00642	182 - 206	2.3e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	185 - 205	2e-07	CCCH-type zinc finger
zf_CCCH_4	PF18345	186 - 204	2.7e-06	Zinc finger domain

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: OG0008422)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G47120 AT3G47120 AT5G58790
fragaria_vesca	FvH4_3g38440
malus_domestica	MD03G1072000.v1.1 MD11G1076000.v1.1
prunus_persica	Prupe.6G058600_v2.0.a1 Prupe.6G058600_v2.0.a1
pyrus_communis	pycom03g05820 pycom11g06370
rosa_chinensis	RchiOBHm_Chr5g0069091
rosa_laevigata	RLG00000036037
rosa_multiflora	Rmu_sc0000853.1_g000035 Rmu_sc0000936.1_g000010
rosa_roxburghii	Rroxscaffold_1G00011660
rosa_rugosa	Rorug05G0396200 Rorug05G0396200
rosa_samantha	Rh5AG453000 Rh5BG472000 Rh5CG494400 Rh5DG484500
rosa_wichuraiana	Rw0G006060 Rw5G042300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	7
Acc36I	ACCTGC	1 cut(s)	7
AccI	GTMKAC	1 cut(s)	114
AccII	CGCG	1 cut(s)	376
AciI	CCGC	1 cut(s)	796
AclWI	GGATC	4 cut(s)	531, 681, 945, 958
AcoI	YGGCCR	1 cut(s)	793
AcsI	RAATTY	2 cut(s)	452, 602
AcyI	GRCGYC	1 cut(s)	379
AfaI	GTAC	5 cut(s)	95, 268, 433, 583, 709
AfiI	CCNNNNNNNGG	1 cut(s)	337
AgsI	TTSAA	1 cut(s)	736
AluBI	AGCT	6 cut(s)	77, 299, 413, 476, 563, 626
AluI	AGCT	6 cut(s)	77, 299, 413, 476, 563, 626
Alw21I	GWGCWC	2 cut(s)	301, 961
Alw26I	GTCTC	2 cut(s)	201, 365
AlwI	GGATC	4 cut(s)	531, 681, 945, 958
AoxI	GGCC	2 cut(s)	793, 836
ApeKI	GCWGC	2 cut(s)	476, 626
ApoI	RAATTY	2 cut(s)	452, 602
AspS9I	GGNCC	3 cut(s)	315, 328, 836
AsuHPI	GGTGA	7 cut(s)	31, 133, 161, 191, 452, 602, 785
AvaII	GGWCC	2 cut(s)	315, 328
BamHI	GGATCC	1 cut(s)	950
BanII	GRGCYC	1 cut(s)	301
BauI	CACGAG	3 cut(s)	396, 435, 585
BbsI	GAAGAC	1 cut(s)	157
Bbv12I	GWGCWC	2 cut(s)	301, 961
BbvI	GCAGC	2 cut(s)	463, 613
BccI	CCATC	1 cut(s)	770
BceAI	ACGGC	2 cut(s)	146, 1035
BcgI	CGANNNNNNTGC	2 cut(s)	115, 149
BcoDI	GTCTC	2 cut(s)	201, 365
BfaI	CTAG	3 cut(s)	45, 906, 990
BfmI	CTRYAG	1 cut(s)	29
BfuAI	ACCTGC	1 cut(s)	7
BisI	GCNGC	3 cut(s)	477, 627, 796
BlsI	GCNGC	3 cut(s)	478, 628, 797
Bme18I	GGWCC	2 cut(s)	315, 328
BmgT120I	GGNCC	3 cut(s)	315, 328, 836
BmiI	GGNNCC	2 cut(s)	837, 952
BmsI	GCATC	2 cut(s)	772, 841
BpiI	GAAGAC	1 cut(s)	157
BsaBI	GATNNNNATC	1 cut(s)	195
BsaHI	GRCGYC	1 cut(s)	379
BsaJI	CCNNGG	1 cut(s)	839
BsaXI	ACNNNNNCTCC	2 cut(s)	288, 318
Bsc4I	CCNNNNNNNGG	1 cut(s)	337
Bse1I	ACTGG	2 cut(s)	490, 640
Bse8I	GATNNNNATC	1 cut(s)	195
BseDI	CCNNGG	1 cut(s)	839
BseGI	GGATG	1 cut(s)	370
BseJI	GATNNNNATC	1 cut(s)	195
BseLI	CCNNNNNNNGG	1 cut(s)	337
BseNI	ACTGG	2 cut(s)	490, 640
BseRI	GAGGAG	4 cut(s)	374, 438, 588, 741
BseXI	GCAGC	2 cut(s)	463, 613
Bsh1236I	CGCG	1 cut(s)	376
BshFI	GGCC	2 cut(s)	795, 838
BsiHKAI	GWGCWC	2 cut(s)	301, 961
BslFI	GGGAC	1 cut(s)	324
BslI	CCNNNNNNNGG	1 cut(s)	337
BsmAI	GTCTC	2 cut(s)	201, 365
BsmBI	CGTCTC	1 cut(s)	365
BsmFI	GGGAC	1 cut(s)	324
BsnI	GGCC	2 cut(s)	795, 838
Bsp1286I	GDGCHC	2 cut(s)	301, 961
Bsp143I	GATC	9 cut(s)	136, 151, 256, 523, 673, 878, 950, 997, 1045
BspACI	CCGC	1 cut(s)	796
BspANI	GGCC	2 cut(s)	795, 838
BspFNI	CGCG	1 cut(s)	376
BspHI	TCATGA	3 cut(s)	496, 526, 646
BspLI	GGNNCC	2 cut(s)	837, 952
BspMI	ACCTGC	1 cut(s)	7
BspPI	GGATC	4 cut(s)	531, 681, 945, 958
BsrI	ACTGG	2 cut(s)	490, 640
BssECI	CCNNGG	1 cut(s)	839
BssMI	GATC	9 cut(s)	136, 151, 256, 523, 673, 878, 950, 997, 1045
BssNI	GRCGYC	1 cut(s)	379
BssSI	CACGAG	3 cut(s)	396, 435, 585
BssT1I	CCWWGG	1 cut(s)	839
Bst2BI	CACGAG	3 cut(s)	396, 435, 585
Bst4CI	ACNGT	2 cut(s)	132, 888
Bst6I	CTCTTC	6 cut(s)	351, 363, 495, 645, 744, 988
BstACI	GRCGYC	1 cut(s)	379
BstC8I	GCNNGC	1 cut(s)	87
BstDEI	CTNAG	1 cut(s)	90
BstF5I	GGATG	1 cut(s)	370
BstFNI	CGCG	1 cut(s)	376
BstKTI	GATC	9 cut(s)	139, 154, 259, 526, 676, 881, 953, 1000, 1048
BstMAI	GTCTC	2 cut(s)	201, 365
BstMBI	GATC	9 cut(s)	136, 151, 256, 523, 673, 878, 950, 997, 1045
BstMWI	GCNNNNNNNGC	1 cut(s)	245
BstSFI	CTRYAG	1 cut(s)	29
BstUI	CGCG	1 cut(s)	376
BstV1I	GCAGC	2 cut(s)	463, 613
BstV2I	GAAGAC	1 cut(s)	157
BstX2I	RGATCY	1 cut(s)	950
BstXI	CCANNNNNNTGG	1 cut(s)	325
BstYI	RGATCY	1 cut(s)	950
BsuRI	GGCC	2 cut(s)	795, 838
BtsCI	GGATG	1 cut(s)	370
BveI	ACCTGC	1 cut(s)	7
Cac8I	GCNNGC	1 cut(s)	87
CciI	TCATGA	3 cut(s)	496, 526, 646
Cfr13I	GGNCC	3 cut(s)	315, 328, 836
CseI	GACGC	3 cut(s)	22, 382, 387
Csp6I	GTAC	5 cut(s)	94, 267, 432, 582, 708
CviAII	CATG	5 cut(s)	81, 497, 527, 611, 647
CviJI	RGCY	9 cut(s)	77, 299, 395, 413, 476, 563, 626, 795, 838
CviKI_1	RGCY	9 cut(s)	77, 299, 395, 413, 476, 563, 626, 795, 838
CviQI	GTAC	5 cut(s)	94, 267, 432, 582, 708
DdeI	CTNAG	1 cut(s)	90
DpnI	GATC	9 cut(s)	138, 153, 258, 525, 675, 880, 952, 999, 1047
DpnII	GATC	9 cut(s)	136, 151, 256, 523, 673, 878, 950, 997, 1045
EaeI	YGGCCR	1 cut(s)	793
Eam1104I	CTCTTC	6 cut(s)	351, 363, 495, 645, 744, 988
EarI	CTCTTC	6 cut(s)	351, 363, 495, 645, 744, 988
Ecl136II	GAGCTC	1 cut(s)	299
Eco130I	CCWWGG	1 cut(s)	839
Eco24I	GRGCYC	1 cut(s)	301
Eco47I	GGWCC	2 cut(s)	315, 328
Eco53kI	GAGCTC	1 cut(s)	299
EcoICRI	GAGCTC	1 cut(s)	299
EcoT14I	CCWWGG	1 cut(s)	839
EcoT38I	GRGCYC	1 cut(s)	301
ErhI	CCWWGG	1 cut(s)	839
Esp3I	CGTCTC	1 cut(s)	365
FaeI	CATG	5 cut(s)	84, 500, 530, 614, 650
FalI	AAGNNNNNCTT	4 cut(s)	138, 170, 838, 870
FaqI	GGGAC	1 cut(s)	324
FatI	CATG	5 cut(s)	80, 496, 526, 610, 646
FauNDI	CATATG	1 cut(s)	109
FblI	GTMKAC	1 cut(s)	114
Fnu4HI	GCNGC	3 cut(s)	477, 627, 796
FokI	GGATG	1 cut(s)	377
FriOI	GRGCYC	1 cut(s)	301
Fsp4HI	GCNGC	3 cut(s)	477, 627, 796
FspBI	CTAG	3 cut(s)	45, 906, 990
GluI	GCNGC	3 cut(s)	477, 627, 796
HaeIII	GGCC	2 cut(s)	795, 838
HgaI	GACGC	3 cut(s)	22, 382, 387
Hin1I	GRCGYC	1 cut(s)	379
Hin1II	CATG	5 cut(s)	84, 500, 530, 614, 650
HindIII	AAGCTT	1 cut(s)	75
HinfI	GANTC	7 cut(s)	4, 25, 50, 443, 593, 986, 1028
HphI	GGTGA	7 cut(s)	31, 133, 161, 191, 452, 602, 785
Hpy166II	GTNNAC	4 cut(s)	115, 328, 432, 582
Hpy188I	TCNGA	7 cut(s)	55, 70, 122, 261, 291, 420, 570
Hpy8I	GTNNAC	4 cut(s)	115, 328, 432, 582
Hpy99I	CGWCG	3 cut(s)	122, 381, 1056
HpyAV	CCTTC	6 cut(s)	140, 762, 859, 903, 973, 1032
HpyCH4III	ACNGT	2 cut(s)	132, 888
HpyCH4IV	ACGT	1 cut(s)	117
HpyCH4V	TGCA	6 cut(s)	107, 408, 450, 479, 558, 629
HpyF10VI	GCNNNNNNNGC	1 cut(s)	245
HpyF3I	CTNAG	1 cut(s)	90
HpySE526I	ACGT	1 cut(s)	117
Hsp92I	GRCGYC	1 cut(s)	379
Hsp92II	CATG	5 cut(s)	84, 500, 530, 614, 650
Kzo9I	GATC	9 cut(s)	136, 151, 256, 523, 673, 878, 950, 997, 1045
LmnI	GCTCC	1 cut(s)	296
LpnPI	CCDG	8 cut(s)	2, 395, 471, 621, 753, 867, 967, 994
Lsp1109I	GCAGC	2 cut(s)	463, 613
LweI	GCATC	2 cut(s)	772, 841
MaeI	CTAG	3 cut(s)	45, 906, 990
MaeII	ACGT	1 cut(s)	117
MaeIII	GTNAC	2 cut(s)	758, 1001
MalI	GATC	9 cut(s)	138, 153, 258, 525, 675, 880, 952, 999, 1047
MboI	GATC	9 cut(s)	136, 151, 256, 523, 673, 878, 950, 997, 1045
MflI	RGATCY	1 cut(s)	950
MhlI	GDGCHC	2 cut(s)	301, 961
MluCI	AATT	4 cut(s)	183, 452, 602, 924
MmeI	TCCRAC	1 cut(s)	100
MseI	TTAA	4 cut(s)	321, 686, 1034, 1057
MslI	CAYNNNNRTG	2 cut(s)	323, 918
MvnI	CGCG	1 cut(s)	376
MwoI	GCNNNNNNNGC	1 cut(s)	245
NdeI	CATATG	1 cut(s)	109
NdeII	GATC	9 cut(s)	136, 151, 256, 523, 673, 878, 950, 997, 1045
NlaIII	CATG	5 cut(s)	84, 500, 530, 614, 650
NlaIV	GGNNCC	2 cut(s)	837, 952
PagI	TCATGA	3 cut(s)	496, 526, 646
PaqCI	CACCTGC	1 cut(s)	7
PcsI	WCGNNNNNNNCGW	1 cut(s)	141
PfeI	GAWTC	7 cut(s)	4, 25, 50, 443, 593, 986, 1028
PkrI	GCNGC	3 cut(s)	478, 628, 797
Psp124BI	GAGCTC	1 cut(s)	301
PspN4I	GGNNCC	2 cut(s)	837, 952
PspPI	GGNCC	3 cut(s)	315, 328, 836
PsuI	RGATCY	1 cut(s)	950
RsaI	GTAC	5 cut(s)	95, 268, 433, 583, 709
RsaNI	GTAC	5 cut(s)	94, 267, 432, 582, 708
RseI	CAYNNNNRTG	2 cut(s)	323, 918
SacI	GAGCTC	1 cut(s)	301
SaqAI	TTAA	4 cut(s)	321, 686, 1034, 1057
SatI	GCNGC	3 cut(s)	477, 627, 796
Sau3AI	GATC	9 cut(s)	136, 151, 256, 523, 673, 878, 950, 997, 1045
Sau96I	GGNCC	3 cut(s)	315, 328, 836
SduI	GDGCHC	2 cut(s)	301, 961
SfaNI	GCATC	2 cut(s)	772, 841
SfcI	CTRYAG	1 cut(s)	29
SinI	GGWCC	2 cut(s)	315, 328
SmiMI	CAYNNNNRTG	2 cut(s)	323, 918
Sse9I	AATT	4 cut(s)	183, 452, 602, 924
SsiI	CCGC	1 cut(s)	796
SspMI	CTAG	3 cut(s)	45, 906, 990
SstI	GAGCTC	1 cut(s)	301
StyI	CCWWGG	1 cut(s)	839
TaaI	ACNGT	2 cut(s)	132, 888
TaiI	ACGT	1 cut(s)	120
TaqI	TCGA	3 cut(s)	135, 205, 724
TasI	AATT	4 cut(s)	183, 452, 602, 924
TatI	WGTACW	3 cut(s)	93, 431, 581
TauI	GCSGC	1 cut(s)	798
TfiI	GAWTC	7 cut(s)	4, 25, 50, 443, 593, 986, 1028
Tru1I	TTAA	4 cut(s)	321, 686, 1034, 1057
Tru9I	TTAA	4 cut(s)	321, 686, 1034, 1057
TseI	GCWGC	2 cut(s)	476, 626
TspGWI	ACGGA	1 cut(s)	328
VpaK11BI	GGWCC	2 cut(s)	315, 328
XapI	RAATTY	2 cut(s)	452, 602
XbaI	TCTAGA	2 cut(s)	905, 989
XmiI	GTMKAC	1 cut(s)	114
XspI	CTAG	3 cut(s)	45, 906, 990

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