Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0002205

Physical Location & Seq

Genomic Coordinates Forward (+)

20629698 .. 20633007

Gene Structure 3310 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G55310.3

Sequence Viewer

CDS Protein Promoter (2k)

Length: 864 bp

ATGAGGGGAAGGAGCTACACTCCGTCACCACCTAGGGGTTATGGGAGGAGGGGTCGAAGCCCAAGCCCTAGAGGCCGATATGGAGGTCGTAGCAGGGACCTCCCGACCAGTCTTTTGGTTCGCAATCTACGCCATGATTGCAGGCAAGAAGATCTCAGGAAGTCGTTTGAGCAGTTTGGTCCTGTCAAGGACATTTACCTGCCAAGGGATTATTATACCGGAGATCCGCGAGGGTTTGGGTTCGTTCAATTTATGGACCCTGCTGATGCTGCTGATGCAAAACATCACATGGATGGTTATCTTCTTCTTGGCCGTGAGTTGACTGTCGTGTTTGCAGAAGAGAACAGAAAGAAACCGACTGAAATGAGAGCAAGGGAGCGTGGTGGAGGAAGATTTCGGGATAGAAGACGTACTCCACCTCGTTACTACTCTCGCTCTCGTTCTCCTCCCCCTCGACGTGGTAGATCTCGGTCACGGAGCGGTGACTATTATTCTCCTCCCCCTAGAAGACATCACCCAAGATCTATCTCGCCCAGGGAAGAGCGATATGATGGGAGGAGGTCATACTCGCGCTCACCTGCCTCTGATGGCTCAAGGGGTCGCAGTTTAACTCCAGTCAGAGGTAAGAGCCGCAGCTTAAGCCCCAGCCCTAGAAGAAGCATAAGCCGTAGCCCAAGAAGAAGCAGGAGCCCAAGCCCAAAAAGAAATAGGAGCGTTAGCCCAAGAAGAAGCATAAGCCGTAGCCCTAGAAGAAGCAGGAGTCCGAGGAGAAGCAGAAGAAGCTACACTCCTGAACCCGCCAGAAGCAGGAGCCAAAGCCCGCATGGGGGCCAGTATGACGAAGACCGTTCACCAAGCCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0005886 GO:0006139 GO:0006355 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006810 GO:0008150 GO:0008152 GO:0008380 GO:0009889 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010605 GO:0010629 GO:0016020 GO:0016043 GO:0016070 GO:0016071 GO:0016482 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0022607 GO:0022613 GO:0022618 GO:0031323 GO:0031324 GO:0031326 GO:0031974 GO:0031981 GO:0033119 GO:0034622 GO:0034641 GO:0035061 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043484 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045934 GO:0046483 GO:0046907 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050789 GO:0050794 GO:0051082 GO:0051171 GO:0051172 GO:0051179 GO:0051234 GO:0051252 GO:0051253 GO:0051641 GO:0051649 GO:0060255 GO:0065003 GO:0065007 GO:0070013 GO:0071704 GO:0071826 GO:0071840 GO:0071944 GO:0080090 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1903311 GO:1903312 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

287

Amino Acids

33.34

Weight (kDa)

11.73

Isoelectric Point (pI)

129.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	38 - 119	4.7e-15	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: OG0002205)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT3G13570
fragaria_vesca	FvH4_3g45331 FvH4_3g45331 FvH4_6g21490
malus_domestica	MD03G1005800.v1.1 MD11G1008700.v1.1 MD11G1008800.v1.1 MD14G1050400.v1.1 MD14G1050500.v1.1
prunus_persica	Prupe.6G005600_v2.0.a1 Prupe.6G005600_v2.0.a1 Prupe.6G005600_v2.0.a1 Prupe.7G085400_v2.0.a1
pyrus_communis	pycom03g00590 pycom11g00570
rosa_chinensis	RchiOBHm_Chr3g0478671 RchiOBHm_Chr5g0083131
rosa_laevigata	RLG00000023634 RLG00000037013
rosa_multiflora	Rmu_co8251633.1_g000001 Rmu_sc0002454.1_g000003 Rmu_sc0002900.1_g000004 Rmu_sc0008074.1_g000021
rosa_roxburghii	Rroxscaffold_1G00001380 Rroxscaffold_6G00403210
rosa_rugosa	Rorug03G0166900
rosa_samantha	Rh3AG219100 Rh3BG250800 Rh3CG247600 Rh3DG243900 Rh5AG532100 Rh5BG559200 Rh5CG582100 Rh5DG568000
rosa_wichuraiana	Rw3G019700 Rw5G049630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	586
Acc36I	ACCTGC	2 cut(s)	207, 586
AccBSI	CCGCTC	1 cut(s)	480
AccII	CGCG	2 cut(s)	229, 571
AciI	CCGC	5 cut(s)	227, 480, 631, 798, 821
AclWI	GGATC	1 cut(s)	218
AcoI	YGGCCR	1 cut(s)	310
AfaI	GTAC	1 cut(s)	412
AfiI	CCNNNNNNNGG	7 cut(s)	35, 205, 458, 620, 807, 826, 827
AflII	CTTAAG	1 cut(s)	637
AgsI	TTSAA	1 cut(s)	248
AjiI	CACGTC	1 cut(s)	458
AjnI	CCWGG	1 cut(s)	533
AluBI	AGCT	3 cut(s)	15, 636, 783
AluI	AGCT	3 cut(s)	15, 636, 783
AlwI	GGATC	1 cut(s)	218
AoxI	GGCC	3 cut(s)	73, 310, 829
ApeKI	GCWGC	2 cut(s)	269, 633
ArsI	GACNNNNNNTTYG	2 cut(s)	97, 129
AspA2I	CCTAGG	1 cut(s)	32
AspLEI	GCGC	1 cut(s)	573
AspS9I	GGNCC	4 cut(s)	97, 179, 256, 829
AsuHPI	GGTGA	5 cut(s)	18, 494, 506, 567, 843
AvaII	GGWCC	3 cut(s)	97, 179, 256
AvrII	CCTAGG	1 cut(s)	32
BanII	GRGCYC	1 cut(s)	692
BbsI	GAAGAC	3 cut(s)	412, 514, 849
BbvI	GCAGC	2 cut(s)	256, 645
BccI	CCATC	3 cut(s)	287, 545, 581
BceAI	ACGGC	3 cut(s)	297, 651, 723
BciT130I	CCWGG	1 cut(s)	535
BfaI	CTAG	5 cut(s)	33, 69, 504, 651, 747
BfrI	CTTAAG	1 cut(s)	637
BfuAI	ACCTGC	2 cut(s)	207, 586
BglI	GCCNNNNNGGC	1 cut(s)	72
BglII	AGATCT	3 cut(s)	151, 464, 521
BisI	GCNGC	3 cut(s)	270, 631, 634
BlnI	CCTAGG	1 cut(s)	32
BlsI	GCNGC	3 cut(s)	271, 632, 635
Bme1390I	CCNGG	1 cut(s)	535
Bme18I	GGWCC	3 cut(s)	97, 179, 256
BmgBI	CACGTC	1 cut(s)	458
BmgT120I	GGNCC	4 cut(s)	97, 179, 256, 829
BmiI	GGNNCC	5 cut(s)	98, 258, 689, 812, 830
BmrFI	CCNGG	1 cut(s)	535
BmsI	GCATC	2 cut(s)	256, 265
BpiI	GAAGAC	3 cut(s)	412, 514, 849
BplI	GAGNNNNNCTC	1 cut(s)	36
BpmI	CTGGAG	1 cut(s)	597
BpuEI	CTTGAG	1 cut(s)	577
BsaBI	GATNNNNATC	1 cut(s)	297
BsaJI	CCNNGG	5 cut(s)	32, 203, 533, 534, 764
BsaWI	WCCGGW	1 cut(s)	218
BsaXI	ACNNNNNCTCC	2 cut(s)	37, 67
Bsc4I	CCNNNNNNNGG	7 cut(s)	35, 205, 458, 620, 807, 826, 827
Bse1I	ACTGG	4 cut(s)	108, 614, 832, 859
Bse8I	GATNNNNATC	1 cut(s)	297
BseBI	CCWGG	1 cut(s)	535
BseDI	CCNNGG	5 cut(s)	32, 203, 533, 534, 764
BseGI	GGATG	1 cut(s)	298
BseJI	GATNNNNATC	1 cut(s)	297
BseLI	CCNNNNNNNGG	7 cut(s)	35, 205, 458, 620, 807, 826, 827
BseMII	CTCAG	1 cut(s)	169
BseNI	ACTGG	4 cut(s)	108, 614, 832, 859
BseRI	GAGGAG	5 cut(s)	61, 435, 486, 571, 781
BseXI	GCAGC	2 cut(s)	256, 645
BseYI	CCCAGC	1 cut(s)	644
Bsh1236I	CGCG	2 cut(s)	229, 571
BshFI	GGCC	3 cut(s)	75, 312, 831
BsiSI	CCGG	1 cut(s)	219
BslFI	GGGAC	1 cut(s)	110
BslI	CCNNNNNNNGG	7 cut(s)	35, 205, 458, 620, 807, 826, 827
BsmFI	GGGAC	1 cut(s)	110
BsnI	GGCC	3 cut(s)	75, 312, 831
Bsp1286I	GDGCHC	1 cut(s)	692
Bsp143I	GATC	4 cut(s)	151, 223, 464, 521
BspACI	CCGC	5 cut(s)	227, 480, 631, 798, 821
BspANI	GGCC	3 cut(s)	75, 312, 831
BspCNI	CTCAG	1 cut(s)	168
BspFNI	CGCG	2 cut(s)	229, 571
BspLI	GGNNCC	5 cut(s)	98, 258, 689, 812, 830
BspMI	ACCTGC	2 cut(s)	207, 586
BspPI	GGATC	1 cut(s)	218
BspQI	GCTCTTC	1 cut(s)	534
BspTI	CTTAAG	1 cut(s)	637
BsrBI	CCGCTC	1 cut(s)	480
BsrI	ACTGG	4 cut(s)	108, 614, 832, 859
BssECI	CCNNGG	5 cut(s)	32, 203, 533, 534, 764
BssMI	GATC	4 cut(s)	151, 223, 464, 521
BssT1I	CCWWGG	2 cut(s)	32, 203
Bst2UI	CCWGG	1 cut(s)	535
Bst4CI	ACNGT	2 cut(s)	325, 848
Bst6I	CTCTTC	2 cut(s)	333, 534
BstAFI	CTTAAG	1 cut(s)	637
BstC8I	GCNNGC	2 cut(s)	143, 821
BstDEI	CTNAG	1 cut(s)	155
BstF5I	GGATG	1 cut(s)	298
BstFNI	CGCG	2 cut(s)	229, 571
BstHHI	GCGC	1 cut(s)	573
BstKTI	GATC	4 cut(s)	154, 226, 467, 524
BstMBI	GATC	4 cut(s)	151, 223, 464, 521
BstMWI	GCNNNNNNNGC	7 cut(s)	72, 129, 138, 269, 275, 639, 780
BstNI	CCWGG	1 cut(s)	535
BstSCI	CCNGG	1 cut(s)	533
BstUI	CGCG	2 cut(s)	229, 571
BstV1I	GCAGC	2 cut(s)	256, 645
BstV2I	GAAGAC	3 cut(s)	412, 514, 849
BstX2I	RGATCY	4 cut(s)	151, 223, 464, 521
BstXI	CCANNNNNNTGG	1 cut(s)	115
BstYI	RGATCY	4 cut(s)	151, 223, 464, 521
BsuRI	GGCC	3 cut(s)	75, 312, 831
BtrI	CACGTC	1 cut(s)	458
BtsCI	GGATG	1 cut(s)	298
BveI	ACCTGC	2 cut(s)	207, 586
Cac8I	GCNNGC	2 cut(s)	143, 821
CfoI	GCGC	1 cut(s)	573
Cfr13I	GGNCC	4 cut(s)	97, 179, 256, 829
Csp6I	GTAC	1 cut(s)	411
CviAII	CATG	3 cut(s)	134, 289, 824
CviQI	GTAC	1 cut(s)	411
DdeI	CTNAG	1 cut(s)	155
DpnI	GATC	4 cut(s)	153, 225, 466, 523
DpnII	GATC	4 cut(s)	151, 223, 464, 521
EaeI	YGGCCR	1 cut(s)	310
Eam1104I	CTCTTC	2 cut(s)	333, 534
EarI	CTCTTC	2 cut(s)	333, 534
Eco130I	CCWWGG	2 cut(s)	32, 203
Eco24I	GRGCYC	1 cut(s)	692
Eco47I	GGWCC	3 cut(s)	97, 179, 256
EcoO109I	RGGNCCY	1 cut(s)	97
EcoRII	CCWGG	1 cut(s)	533
EcoT14I	CCWWGG	2 cut(s)	32, 203
EcoT38I	GRGCYC	1 cut(s)	692
ErhI	CCWWGG	2 cut(s)	32, 203
FaeI	CATG	3 cut(s)	137, 292, 827
FaqI	GGGAC	1 cut(s)	110
FatI	CATG	3 cut(s)	133, 288, 823
FauI	CCCGC	2 cut(s)	805, 828
Fnu4HI	GCNGC	3 cut(s)	270, 631, 634
FokI	GGATG	1 cut(s)	305
FriOI	GRGCYC	1 cut(s)	692
Fsp4HI	GCNGC	3 cut(s)	270, 631, 634
FspBI	CTAG	5 cut(s)	33, 69, 504, 651, 747
GlaI	GCGC	1 cut(s)	572
GluI	GCNGC	3 cut(s)	270, 631, 634
GsaI	CCCAGC	1 cut(s)	648
GsuI	CTGGAG	1 cut(s)	597
HaeIII	GGCC	3 cut(s)	75, 312, 831
HapII	CCGG	1 cut(s)	219
HhaI	GCGC	1 cut(s)	573
Hin1II	CATG	3 cut(s)	137, 292, 827
Hin6I	GCGC	1 cut(s)	571
HinP1I	GCGC	1 cut(s)	571
HincII	GTYRAC	1 cut(s)	321
HindII	GTYRAC	1 cut(s)	321
HinfI	GANTC	1 cut(s)	760
HpaII	CCGG	1 cut(s)	219
HphI	GGTGA	5 cut(s)	18, 494, 506, 567, 843
Hpy166II	GTNNAC	2 cut(s)	321, 851
Hpy188I	TCNGA	3 cut(s)	586, 620, 765
Hpy188III	TCNNGA	4 cut(s)	103, 157, 398, 791
Hpy8I	GTNNAC	2 cut(s)	321, 851
Hpy99I	CGWCG	1 cut(s)	459
HpyAV	CCTTC	1 cut(s)	3
HpyCH4III	ACNGT	2 cut(s)	325, 848
HpyCH4IV	ACGT	2 cut(s)	409, 457
HpyCH4V	TGCA	3 cut(s)	141, 278, 335
HpyF10VI	GCNNNNNNNGC	7 cut(s)	72, 129, 138, 269, 275, 639, 780
HpyF3I	CTNAG	1 cut(s)	155
HpySE526I	ACGT	2 cut(s)	409, 457
Hsp92II	CATG	3 cut(s)	137, 292, 827
HspAI	GCGC	1 cut(s)	571
Kzo9I	GATC	4 cut(s)	151, 223, 464, 521
LguI	GCTCTTC	1 cut(s)	534
LmnI	GCTCC	6 cut(s)	12, 376, 477, 687, 711, 810
Lsp1109I	GCAGC	2 cut(s)	256, 645
LweI	GCATC	2 cut(s)	256, 265
MaeI	CTAG	5 cut(s)	33, 69, 504, 651, 747
MaeII	ACGT	2 cut(s)	409, 457
MaeIII	GTNAC	4 cut(s)	24, 422, 471, 482
MalI	GATC	4 cut(s)	153, 225, 466, 523
MbiI	CCGCTC	1 cut(s)	480
MboI	GATC	4 cut(s)	151, 223, 464, 521
MflI	RGATCY	4 cut(s)	151, 223, 464, 521
MhlI	GDGCHC	1 cut(s)	692
MluCI	AATT	1 cut(s)	248
MlyI	GAGTC	1 cut(s)	769
MseI	TTAA	2 cut(s)	608, 638
MslI	CAYNNNNRTG	1 cut(s)	291
MspCI	CTTAAG	1 cut(s)	637
MspI	CCGG	1 cut(s)	219
MspR9I	CCNGG	1 cut(s)	535
MvaI	CCWGG	1 cut(s)	535
MvnI	CGCG	2 cut(s)	229, 571
MwoI	GCNNNNNNNGC	7 cut(s)	72, 129, 138, 269, 275, 639, 780
NdeII	GATC	4 cut(s)	151, 223, 464, 521
NlaIII	CATG	3 cut(s)	137, 292, 827
NlaIV	GGNNCC	5 cut(s)	98, 258, 689, 812, 830
NmuCI	GTSAC	3 cut(s)	24, 471, 482
PaqCI	CACCTGC	1 cut(s)	586
PasI	CCCWGGG	1 cut(s)	534
PciSI	GCTCTTC	1 cut(s)	534
PkrI	GCNGC	3 cut(s)	271, 632, 635
PleI	GAGTC	1 cut(s)	768
PpsI	GAGTC	1 cut(s)	768
PpuMI	RGGWCCY	1 cut(s)	97
Psp5II	RGGWCCY	1 cut(s)	97
Psp6I	CCWGG	1 cut(s)	533
PspFI	CCCAGC	1 cut(s)	644
PspGI	CCWGG	1 cut(s)	533
PspN4I	GGNNCC	5 cut(s)	98, 258, 689, 812, 830
PspPI	GGNCC	4 cut(s)	97, 179, 256, 829
PspPPI	RGGWCCY	1 cut(s)	97
PsuI	RGATCY	4 cut(s)	151, 223, 464, 521
RsaI	GTAC	1 cut(s)	412
RsaNI	GTAC	1 cut(s)	411
RseI	CAYNNNNRTG	1 cut(s)	291
SapI	GCTCTTC	1 cut(s)	534
SaqAI	TTAA	2 cut(s)	608, 638
SatI	GCNGC	3 cut(s)	270, 631, 634
Sau3AI	GATC	4 cut(s)	151, 223, 464, 521
Sau96I	GGNCC	4 cut(s)	97, 179, 256, 829
SchI	GAGTC	1 cut(s)	769
ScrFI	CCNGG	1 cut(s)	535
SduI	GDGCHC	1 cut(s)	692
SfaNI	GCATC	2 cut(s)	256, 265
SinI	GGWCC	3 cut(s)	97, 179, 256
SmiMI	CAYNNNNRTG	1 cut(s)	291
SmlI	CTYRAG	2 cut(s)	592, 637
SmoI	CTYRAG	2 cut(s)	592, 637
Sse9I	AATT	1 cut(s)	248
SsiI	CCGC	5 cut(s)	227, 480, 631, 798, 821
SspMI	CTAG	5 cut(s)	33, 69, 504, 651, 747
StyD4I	CCNGG	1 cut(s)	533
StyI	CCWWGG	2 cut(s)	32, 203
TaaI	ACNGT	2 cut(s)	325, 848
TaiI	ACGT	2 cut(s)	412, 460
TaqI	TCGA	2 cut(s)	55, 454
TaqII	GACCGA	1 cut(s)	459
TasI	AATT	1 cut(s)	248
TauI	GCSGC	1 cut(s)	633
Tru1I	TTAA	2 cut(s)	608, 638
Tru9I	TTAA	2 cut(s)	608, 638
TseFI	GTSAC	3 cut(s)	24, 471, 482
TseI	GCWGC	2 cut(s)	269, 633
Tsp45I	GTSAC	3 cut(s)	24, 471, 482
TspGWI	ACGGA	2 cut(s)	12, 490
Vha464I	CTTAAG	1 cut(s)	637
VpaK11BI	GGWCC	3 cut(s)	97, 179, 256
XcmI	CCANNNNNNNNNTGG	1 cut(s)	821
XmaJI	CCTAGG	1 cut(s)	32
XspI	CTAG	5 cut(s)	33, 69, 504, 651, 747

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