Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0008012

Physical Location & Seq

Genomic Coordinates Forward (+)

2135810 .. 2137838

Gene Structure 2029 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G06960.4

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGTTAACGGCTGATATACCACCAAATCAGTCAATCTACATAAAACATATCAATGAGAAGATCAAGAAAGAAGAGCTGAAGAGGTCTCTTTACTGTTTGTTCTCTCAGTTTGGAAGATTACTTGATGTGGTTGCGTTAAAGACTCCTAAGCTCCGGGGACAAGCATGGGTTGTTTTTACTGAAGTCACCGCTGCTAGCAACGCTGTCCGTCAGATGCAGAACTTTCCTTTCTATGATAAGCCTATGCGGATACAATATGCAAAATCAAAGTCAGATTATGTTACTAAAGCCGAAGGGTCTTTTGTTCCAAAAGAAAAGAAGATGAAGCAAGAAGAGAAAGTTGAAAGGAAGCGACATGCTGAAGAAACTCAACAACCAAGCATGCCTAATGGCGCAACTACTCAGAACGGAATGCCTGTGCCTCCTTTCCAGCCGAGTGGGCAAGACACGATGCCACCAAACAACATACTCTTCATTCATAATCTTCCCATTGAGACGAATAGTATGATGCTTCAGCTGCTCTTTGAGCAATACCCAGGATTCAAAGAGATAAGAATGATCGAAGCAAAACCCGGAATTGCGTTTGTGGAGTATGAAGACGATGTTCAGTCTTCCATGGCCATGCAGGCTCTTCAGGGTTTCAAGATCACTCCGCAGAATCCAATGGTCGTCTCTTTTGCCAAGAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000354 GO:0000375 GO:0000377 GO:0000398 GO:0001650 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0005685 GO:0005686 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0015030 GO:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0017069 GO:0022607 GO:0022613 GO:0022618 GO:0030532 GO:0030619 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0035613 GO:0035614 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0045292 GO:0046483 GO:0065003 GO:0070013 GO:0071005 GO:0071007 GO:0071011 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

229

Amino Acids

26.22

Weight (kDa)

9.25

Isoelectric Point (pI)

56.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_5	PF13893	56 - 149	6.9e-06	RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
RRM_1	PF00076	78 - 137	5.2e-12	RNA recognition motif

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: OG0008012)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06960 AT1G06960 AT1G06960 AT1G06960 AT1G06960 AT2G30260
fragaria_vesca	FvH4_3g39900
malus_domestica	MD03G1057700.v1.1 MD11G1060000.v1.1
prunus_persica	Prupe.6G046700_v2.0.a1 Prupe.6G046700_v2.0.a1
pyrus_communis	pycom03g04610 pycom11g04960
rosa_chinensis	RchiOBHm_Chr5g0071861
rosa_laevigata	RLG00000036256
rosa_multiflora	Rmu_sc0025243.1_g000001
rosa_roxburghii	Rroxscaffold_1G00009300
rosa_rugosa	Rorug05G0415100 Rorug05G0415100
rosa_samantha	Rh5AG471300 Rh5BG491000 Rh5CG514900 Rh5DG502700
rosa_wichuraiana	Rw5G043790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	189, 247, 653
AcoI	YGGCCR	1 cut(s)	618
AcuI	CTGAAG	5 cut(s)	98, 201, 381, 497, 617
AgsI	TTSAA	3 cut(s)	344, 544, 643
AjnI	CCWGG	1 cut(s)	535
AluBI	AGCT	3 cut(s)	76, 151, 517
AluI	AGCT	3 cut(s)	76, 151, 517
Alw26I	GTCTC	3 cut(s)	90, 488, 676
AoxI	GGCC	1 cut(s)	618
ApeKI	GCWGC	2 cut(s)	191, 517
ArsI	GACNNNNNNTTYG	2 cut(s)	254, 286
AspLEI	GCGC	1 cut(s)	395
AsuC2I	CCSGG	2 cut(s)	155, 573
AsuHPI	GGTGA	1 cut(s)	178
AsuNHI	GCTAGC	1 cut(s)	194
BalI	TGGCCA	1 cut(s)	620
BbsI	GAAGAC	2 cut(s)	603, 603
BbvI	GCAGC	2 cut(s)	178, 504
BceAI	ACGGC	1 cut(s)	24
BciT130I	CCWGG	1 cut(s)	537
BciVI	GTATCC	1 cut(s)	243
BcnI	CCSGG	2 cut(s)	155, 573
BcoDI	GTCTC	3 cut(s)	90, 488, 676
BfaI	CTAG	1 cut(s)	195
BfuI	GTATCC	1 cut(s)	243
BglI	GCCNNNNNGGC	2 cut(s)	439, 626
BisI	GCNGC	2 cut(s)	192, 518
BlsI	GCNGC	2 cut(s)	193, 519
Bme1390I	CCNGG	3 cut(s)	155, 537, 573
BmrFI	CCNGG	3 cut(s)	155, 537, 573
BmsI	GCATC	3 cut(s)	204, 441, 498
BmtI	GCTAGC	1 cut(s)	198
BpiI	GAAGAC	2 cut(s)	603, 603
Bpu10I	CCTNAGC	1 cut(s)	147
BpuMI	CCSGG	2 cut(s)	155, 573
BsaI	GGTCTC	1 cut(s)	90
BsaJI	CCNNGG	3 cut(s)	154, 535, 615
BseBI	CCWGG	1 cut(s)	537
BseDI	CCNNGG	3 cut(s)	154, 535, 615
BseMII	CTCAG	2 cut(s)	119, 416
BseXI	GCAGC	2 cut(s)	178, 504
BshFI	GGCC	1 cut(s)	620
BsiSI	CCGG	2 cut(s)	154, 573
BslFI	GGGAC	1 cut(s)	171
BsmAI	GTCTC	3 cut(s)	90, 488, 676
BsmBI	CGTCTC	2 cut(s)	488, 676
BsmFI	GGGAC	1 cut(s)	171
BsmI	GAATGC	1 cut(s)	417
BsnI	GGCC	1 cut(s)	620
Bso31I	GGTCTC	1 cut(s)	90
Bsp143I	GATC	3 cut(s)	60, 558, 645
Bsp19I	CCATGG	1 cut(s)	615
BspACI	CCGC	3 cut(s)	189, 247, 653
BspANI	GGCC	1 cut(s)	620
BspCNI	CTCAG	2 cut(s)	118, 415
BspOI	GCTAGC	1 cut(s)	198
BspQI	GCTCTTC	2 cut(s)	66, 636
BspTNI	GGTCTC	1 cut(s)	90
BssECI	CCNNGG	3 cut(s)	154, 535, 615
BssMI	GATC	3 cut(s)	60, 558, 645
BssT1I	CCWWGG	1 cut(s)	615
Bst2UI	CCWGG	1 cut(s)	537
Bst4CI	ACNGT	1 cut(s)	95
Bst6I	CTCTTC	5 cut(s)	66, 74, 327, 476, 636
BstC8I	GCNNGC	3 cut(s)	196, 383, 627
BstDEI	CTNAG	3 cut(s)	105, 147, 402
BstDSI	CCRYGG	1 cut(s)	615
BstHHI	GCGC	1 cut(s)	395
BstKTI	GATC	3 cut(s)	63, 561, 648
BstMAI	GTCTC	3 cut(s)	90, 488, 676
BstMBI	GATC	3 cut(s)	60, 558, 645
BstMWI	GCNNNNNNNGC	5 cut(s)	200, 439, 517, 526, 626
BstNI	CCWGG	1 cut(s)	537
BstNSI	RCATGY	2 cut(s)	359, 385
BstSCI	CCNGG	3 cut(s)	153, 535, 571
BstV1I	GCAGC	2 cut(s)	178, 504
BstV2I	GAAGAC	2 cut(s)	603, 603
BstXI	CCANNNNNNTGG	1 cut(s)	437
BsuI	GTATCC	1 cut(s)	243
BsuRI	GGCC	1 cut(s)	620
BtgI	CCRYGG	1 cut(s)	615
Cac8I	GCNNGC	3 cut(s)	196, 383, 627
CfoI	GCGC	1 cut(s)	395
CviAII	CATG	5 cut(s)	165, 356, 382, 616, 622
CviJI	RGCY	9 cut(s)	11, 76, 151, 241, 290, 433, 517, 620, 629
CviKI_1	RGCY	9 cut(s)	11, 76, 151, 241, 290, 433, 517, 620, 629
DdeI	CTNAG	3 cut(s)	105, 147, 402
DpnI	GATC	3 cut(s)	62, 560, 647
DpnII	GATC	3 cut(s)	60, 558, 645
EaeI	YGGCCR	1 cut(s)	618
Eam1104I	CTCTTC	5 cut(s)	66, 74, 327, 476, 636
EarI	CTCTTC	5 cut(s)	66, 74, 327, 476, 636
Eco130I	CCWWGG	1 cut(s)	615
Eco31I	GGTCTC	1 cut(s)	90
Eco57I	CTGAAG	5 cut(s)	98, 201, 381, 497, 617
EcoRII	CCWGG	1 cut(s)	535
EcoT14I	CCWWGG	1 cut(s)	615
ErhI	CCWWGG	1 cut(s)	615
Esp3I	CGTCTC	2 cut(s)	488, 676
FaeI	CATG	5 cut(s)	168, 359, 385, 619, 625
FaqI	GGGAC	1 cut(s)	171
FatI	CATG	5 cut(s)	164, 355, 381, 615, 621
Fnu4HI	GCNGC	2 cut(s)	192, 518
Fsp4HI	GCNGC	2 cut(s)	192, 518
FspBI	CTAG	1 cut(s)	195
GlaI	GCGC	1 cut(s)	394
GluI	GCNGC	2 cut(s)	192, 518
HaeIII	GGCC	1 cut(s)	620
HapII	CCGG	2 cut(s)	154, 573
HhaI	GCGC	1 cut(s)	395
Hin1II	CATG	5 cut(s)	168, 359, 385, 619, 625
Hin6I	GCGC	1 cut(s)	393
HinP1I	GCGC	1 cut(s)	393
HincII	GTYRAC	1 cut(s)	6
HindII	GTYRAC	1 cut(s)	6
HinfI	GANTC	3 cut(s)	142, 540, 658
HpaI	GTTAAC	1 cut(s)	6
HpaII	CCGG	2 cut(s)	154, 573
HphI	GGTGA	1 cut(s)	178
Hpy166II	GTNNAC	1 cut(s)	6
Hpy188I	TCNGA	3 cut(s)	213, 274, 405
Hpy188III	TCNNGA	2 cut(s)	64, 643
Hpy8I	GTNNAC	1 cut(s)	6
HpyAV	CCTTC	1 cut(s)	287
HpyCH4III	ACNGT	1 cut(s)	95
HpyCH4V	TGCA	3 cut(s)	217, 260, 625
HpyF10VI	GCNNNNNNNGC	5 cut(s)	200, 439, 517, 526, 626
HpyF3I	CTNAG	3 cut(s)	105, 147, 402
Hsp92II	CATG	5 cut(s)	168, 359, 385, 619, 625
HspAI	GCGC	1 cut(s)	393
KspAI	GTTAAC	1 cut(s)	6
Kzo9I	GATC	3 cut(s)	60, 558, 645
LguI	GCTCTTC	2 cut(s)	66, 636
LmnI	GCTCC	1 cut(s)	156
LpnPI	CCDG	8 cut(s)	167, 429, 443, 522, 549, 586, 611, 620
Lsp1109I	GCAGC	2 cut(s)	178, 504
LweI	GCATC	3 cut(s)	204, 441, 498
MaeI	CTAG	1 cut(s)	195
MaeIII	GTNAC	2 cut(s)	184, 280
MalI	GATC	3 cut(s)	62, 560, 647
MboI	GATC	3 cut(s)	60, 558, 645
MlsI	TGGCCA	1 cut(s)	620
MluCI	AATT	1 cut(s)	576
MluNI	TGGCCA	1 cut(s)	620
MlyI	GAGTC	1 cut(s)	136
MnlI	CCTC	2 cut(s)	75, 432
Mox20I	TGGCCA	1 cut(s)	620
MscI	TGGCCA	1 cut(s)	620
MseI	TTAA	2 cut(s)	5, 137
MslI	CAYNNNNRTG	2 cut(s)	51, 620
Msp20I	TGGCCA	1 cut(s)	620
MspA1I	CMGCKG	2 cut(s)	191, 517
MspI	CCGG	2 cut(s)	154, 573
MspR9I	CCNGG	3 cut(s)	155, 537, 573
Mva1269I	GAATGC	1 cut(s)	417
MvaI	CCWGG	1 cut(s)	537
MwoI	GCNNNNNNNGC	5 cut(s)	200, 439, 517, 526, 626
NciI	CCSGG	2 cut(s)	155, 573
NcoI	CCATGG	1 cut(s)	615
NdeII	GATC	3 cut(s)	60, 558, 645
NheI	GCTAGC	1 cut(s)	194
NlaIII	CATG	5 cut(s)	168, 359, 385, 619, 625
NmeAIII	GCCGAG	1 cut(s)	459
NmuCI	GTSAC	1 cut(s)	184
NspI	RCATGY	2 cut(s)	359, 385
PaeI	GCATGC	1 cut(s)	385
PciSI	GCTCTTC	2 cut(s)	66, 636
PctI	GAATGC	1 cut(s)	417
PfeI	GAWTC	2 cut(s)	540, 658
PkrI	GCNGC	2 cut(s)	193, 519
PleI	GAGTC	1 cut(s)	136
PpsI	GAGTC	1 cut(s)	136
Psp6I	CCWGG	1 cut(s)	535
PspGI	CCWGG	1 cut(s)	535
PvuII	CAGCTG	1 cut(s)	517
RseI	CAYNNNNRTG	2 cut(s)	51, 620
SapI	GCTCTTC	2 cut(s)	66, 636
SaqAI	TTAA	2 cut(s)	5, 137
SatI	GCNGC	2 cut(s)	192, 518
Sau3AI	GATC	3 cut(s)	60, 558, 645
SchI	GAGTC	1 cut(s)	136
ScrFI	CCNGG	3 cut(s)	155, 537, 573
SetI	ASST	4 cut(s)	78, 86, 153, 519
SfaNI	GCATC	3 cut(s)	204, 441, 498
SmiMI	CAYNNNNRTG	2 cut(s)	51, 620
SphI	GCATGC	1 cut(s)	385
Sse9I	AATT	1 cut(s)	576
SsiI	CCGC	3 cut(s)	189, 247, 653
SspMI	CTAG	1 cut(s)	195
StyD4I	CCNGG	3 cut(s)	153, 535, 571
StyI	CCWWGG	1 cut(s)	615
TaaI	ACNGT	1 cut(s)	95
TaqI	TCGA	1 cut(s)	561
TasI	AATT	1 cut(s)	576
TfiI	GAWTC	2 cut(s)	540, 658
Tru1I	TTAA	2 cut(s)	5, 137
Tru9I	TTAA	2 cut(s)	5, 137
TseFI	GTSAC	1 cut(s)	184
TseI	GCWGC	2 cut(s)	191, 517
Tsp45I	GTSAC	1 cut(s)	184
TspDTI	ATGAA	4 cut(s)	338, 463, 467, 609
TspGWI	ACGGA	2 cut(s)	197, 423
XceI	RCATGY	2 cut(s)	359, 385
XspI	CTAG	1 cut(s)	195

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