Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0004118

Physical Location & Seq

Genomic Coordinates Reverse (-)

20183545 .. 20187096

Gene Structure 3552 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G54080.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1281 bp

ATGCAGAATCAAAGGCTTATTAAGCAGCAACAACAACAACAACAACAGCAACATCAACAAGCTATGATTCAACAAGCTATGATGCAACAACATCCTTCTCTTTATCATCCTGGTGTTATGGCTCCTCCTCAGATGGAGCCTTTACCAAGTGGAAACCTTCCTCCTGGTTTTGATCCAACTACTTGCCGTAGTGTGTATGCTGGAAACATTCATACGCAGGTCACAGAGATTCTTCTTCAAGAGATTTTTGCAAGTACTGGTCCTATTGAAAGCTGTAAACTCATCAGAAAGGATAAGTCATCATATGGATTTGTTCACTACTTTGATCGAAGATGTGCTAGTATGGCTATAATGACTCTTAACGGAAGGCATATATTTGGACAGCCTATGAAAGTTAATTGGGCGTATGCAACTGGTCAAAGGGAAGATACATCAAGTCATTTCAACATTTTTGTTGGAGATCTTAGTCCAGAGGTTACTGATGCAGCATTGTTTGATAGCTTTTCTGCTTTTAACAGCTGCTCGGACGCAAGAGTAATGTGGGACCAGAAAACTGGACGCTCAAGAGGCTTTGGTTTTGTTTCCTTCCGTAATCAGCAGGATGCTCAAACTGCCATAAATGAGATGAATGGTAAATGGGTAAGTAGCAGACAGATCAGATGCAACTGGGCGACAAAAGGTGCTACTTTTGGCGAGGACAAACATAGCTCTGATGGAAAAAGTGTTGTAGAACTTACTAACGGATCTTCAGAGGATGGTAGAGAGCTGTCAAATGAAGATGCCCCTGAAAACAATCCTCAATTTACAACTGTCTATGTAGGAAATCTCTCTCCAGAAGTAACTCAGCTTGATCTACACCGTCTATTCTATACCCTTGGTGCTGGAGTGATCGAAGAGGTCCGTGTCCAGCGAGACAAAGGGTTTGGTTTTGTGAGATATAACACTCATGACGAGGCTGCTCTTGCTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGGTGTTCCTGGGGAAACAAACCAACTCCATCAGGCACAGCCTCAAACCCACTTCCCCCACCAGCCCCGGCATCAGTCCCTTCTCTGTCTGCAATGGACCTCTTAGCCTACGAGAGGCAACTGGCTCTAGCCAAGATGCATCCTCAGGCTCAACATTCTCTGAGGCAAGCAGGTCTTGGAGTCAATGTTGCTGGAGGAACTGCAGCTATGTATGATGGTGGCTATCAGAATGTAGCTGCGGCCCATCAGCAGCTCATGTACTATCAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000323 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005764 GO:0005773 GO:0006355 GO:0006357 GO:0006915 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0007166 GO:0007167 GO:0007169 GO:0008150 GO:0008219 GO:0008543 GO:0009719 GO:0009889 GO:0009987 GO:0010033 GO:0010468 GO:0010494 GO:0010556 GO:0012501 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0035770 GO:0036464 GO:0042221 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044344 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070848 GO:0070887 GO:0071310 GO:0071363 GO:0071495 GO:0071774 GO:0080090 GO:0097159 GO:1901363 GO:1903506 GO:1990904 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

426

Amino Acids

47.23

Weight (kDa)

6.67

Isoelectric Point (pI)

51.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	65 - 130	6.6e-11	RNA recognition motif
RRM_1	PF00076	150 - 224	5.9e-17	RNA recognition motif
RRM_1	PF00076	275 - 332	4.4e-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: OG0004118)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G17370 AT1G17370 AT1G54080 AT3G14100
fragaria_vesca	FvH4_1g09080 FvH4_6g35150
malus_domestica	MD02G1096200.v1.1 MD09G1178500.v1.1 MD17G1148300.v1.1
prunus_persica	Prupe.3G037700_v2.0.a1 Prupe.3G037700_v2.0.a1 Prupe.7G194700_v2.0.a1 Prupe.7G194700_v2.0.a1
pyrus_communis	pycom02g07600 pycom15g19550 pycom17g14160
rosa_chinensis	RchiOBHm_Chr2g0095491 RchiOBHm_Chr2g0146411
rosa_laevigata	RLG00000016572 RLG00000020198
rosa_multiflora	Rmu_sc0006076.1_g000007
rosa_roxburghii	Rroxscaffold_2G00100120 Rroxscaffold_2G00146260
rosa_rugosa	Rorug02G0051600 Rorug02G0394100 Rorug02G0394200
rosa_samantha	Rh2AG450900 Rh2BG100900 Rh2BG463300 Rh2CG437700 Rh2DG472300
rosa_wichuraiana	Rw2G007550 Rw2G036800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	208, 1172
AciI	CCGC	1 cut(s)	1250
AclWI	GGATC	2 cut(s)	167, 751
AcuI	CTGAAG	1 cut(s)	732
AfaI	GTAC	2 cut(s)	256, 1271
AfiI	CCNNNNNNNGG	1 cut(s)	1125
AgsI	TTSAA	4 cut(s)	71, 239, 269, 445
AjnI	CCWGG	3 cut(s)	109, 163, 1019
Alw26I	GTCTC	1 cut(s)	906
AlwI	GGATC	2 cut(s)	167, 751
AoxI	GGCC	1 cut(s)	1251
ApeKI	GCWGC	7 cut(s)	25, 485, 519, 956, 1214, 1247, 1261
ArsI	GACNNNNNNTTYG	2 cut(s)	905, 937
AspS9I	GGNCC	5 cut(s)	260, 544, 898, 1108, 1252
AsuC2I	CCSGG	1 cut(s)	1079
AvaII	GGWCC	4 cut(s)	260, 544, 898, 1108
AxyI	CCTNAGG	1 cut(s)	1155
BbvI	GCAGC	7 cut(s)	37, 497, 506, 943, 1226, 1234, 1273
BccI	CCATC	7 cut(s)	127, 707, 749, 967, 1048, 1220, 1263
BceAI	ACGGC	1 cut(s)	171
BciT130I	CCWGG	3 cut(s)	111, 165, 1021
BcnI	CCSGG	1 cut(s)	1079
BcoDI	GTCTC	1 cut(s)	906
BfaI	CTAG	2 cut(s)	339, 1139
BfmI	CTRYAG	1 cut(s)	1212
BfuAI	ACCTGC	2 cut(s)	208, 1172
BglII	AGATCT	1 cut(s)	460
BisI	GCNGC	8 cut(s)	26, 486, 520, 957, 1215, 1248, 1251, 1262
BlpI	GCTNAGC	1 cut(s)	984
BlsI	GCNGC	8 cut(s)	27, 487, 521, 958, 1216, 1249, 1252, 1263
BmcAI	AGTACT	1 cut(s)	256
Bme1390I	CCNGG	4 cut(s)	111, 165, 1021, 1079
Bme18I	GGWCC	4 cut(s)	260, 544, 898, 1108
BmgT120I	GGNCC	5 cut(s)	260, 544, 898, 1108, 1252
BmiI	GGNNCC	3 cut(s)	123, 138, 545
BmrFI	CCNGG	4 cut(s)	111, 165, 1021, 1079
BmrI	ACTGGG	1 cut(s)	676
BmsI	GCATC	8 cut(s)	72, 472, 592, 650, 769, 1091, 1137, 1159
BmuI	ACTGGG	1 cut(s)	676
BpmI	CTGGAG	3 cut(s)	816, 903, 1224
Bpu1102I	GCTNAGC	1 cut(s)	984
BpuEI	CTTGAG	1 cut(s)	547
BpuMI	CCSGG	1 cut(s)	1079
BsaJI	CCNNGG	3 cut(s)	874, 1020, 1077
BsaXI	ACNNNNNCTCC	2 cut(s)	1182, 1212
Bsc4I	CCNNNNNNNGG	1 cut(s)	1125
Bse1I	ACTGG	5 cut(s)	262, 418, 559, 671, 1137
Bse21I	CCTNAGG	1 cut(s)	1155
Bse3DI	GCAATG	1 cut(s)	1110
BseBI	CCWGG	3 cut(s)	111, 165, 1021
BseDI	CCNNGG	3 cut(s)	874, 1020, 1077
BseGI	GGATG	5 cut(s)	91, 106, 607, 760, 1150
BseLI	CCNNNNNNNGG	1 cut(s)	1125
BseMI	GCAATG	1 cut(s)	1110
BseMII	CTCAG	5 cut(s)	143, 857, 998, 1163, 1169
BseNI	ACTGG	5 cut(s)	262, 418, 559, 671, 1137
BseRI	GAGGAG	2 cut(s)	114, 117
BseXI	GCAGC	7 cut(s)	37, 497, 506, 943, 1226, 1234, 1273
BshFI	GGCC	1 cut(s)	1253
BsiSI	CCGG	1 cut(s)	1079
BslFI	GGGAC	2 cut(s)	557, 1073
BslI	CCNNNNNNNGG	1 cut(s)	1125
BsmAI	GTCTC	1 cut(s)	906
BsmFI	GGGAC	2 cut(s)	557, 1073
BsnI	GGCC	1 cut(s)	1253
Bsp143I	GATC	7 cut(s)	172, 325, 460, 654, 743, 850, 888
Bsp1720I	GCTNAGC	1 cut(s)	984
BspACI	CCGC	1 cut(s)	1250
BspANI	GGCC	1 cut(s)	1253
BspCNI	CTCAG	5 cut(s)	142, 856, 997, 1164, 1168
BspHI	TCATGA	1 cut(s)	946
BspLI	GGNNCC	3 cut(s)	123, 138, 545
BspMAI	CTGCAG	1 cut(s)	1216
BspMI	ACCTGC	2 cut(s)	208, 1172
BspPI	GGATC	2 cut(s)	167, 751
BsrDI	GCAATG	1 cut(s)	1110
BsrI	ACTGG	5 cut(s)	262, 418, 559, 671, 1137
BssECI	CCNNGG	3 cut(s)	874, 1020, 1077
BssMI	GATC	7 cut(s)	172, 325, 460, 654, 743, 850, 888
BssT1I	CCWWGG	1 cut(s)	874
Bst2UI	CCWGG	3 cut(s)	111, 165, 1021
Bst4CI	ACNGT	2 cut(s)	811, 860
Bst6I	CTCTTC	1 cut(s)	888
BstC8I	GCNNGC	1 cut(s)	1179
BstDEI	CTNAG	7 cut(s)	129, 464, 843, 984, 1114, 1155, 1172
BstENI	CCTNNNNNAGG	1 cut(s)	1123
BstF5I	GGATG	5 cut(s)	91, 106, 607, 760, 1150
BstKTI	GATC	7 cut(s)	175, 328, 463, 657, 746, 853, 891
BstMAI	GTCTC	1 cut(s)	906
BstMBI	GATC	7 cut(s)	172, 325, 460, 654, 743, 850, 888
BstMWI	GCNNNNNNNGC	5 cut(s)	22, 344, 567, 611, 962
BstNI	CCWGG	3 cut(s)	111, 165, 1021
BstSCI	CCNGG	4 cut(s)	109, 163, 1019, 1077
BstSFI	CTRYAG	1 cut(s)	1212
BstV1I	GCAGC	7 cut(s)	37, 497, 506, 943, 1226, 1234, 1273
BstX2I	RGATCY	2 cut(s)	460, 743
BstXI	CCANNNNNNTGG	1 cut(s)	554
BstYI	RGATCY	2 cut(s)	460, 743
Bsu36I	CCTNAGG	1 cut(s)	1155
BsuRI	GGCC	1 cut(s)	1253
BtsCI	GGATG	5 cut(s)	91, 106, 607, 760, 1150
BveI	ACCTGC	2 cut(s)	208, 1172
Cac8I	GCNNGC	1 cut(s)	1179
CciI	TCATGA	1 cut(s)	946
Cfr13I	GGNCC	5 cut(s)	260, 544, 898, 1108, 1252
CseI	GACGC	2 cut(s)	536, 567
Csp6I	GTAC	2 cut(s)	255, 1270
CviAII	CATG	2 cut(s)	947, 1267
CviQI	GTAC	2 cut(s)	255, 1270
DdeI	CTNAG	7 cut(s)	129, 464, 843, 984, 1114, 1155, 1172
DpnI	GATC	7 cut(s)	174, 327, 462, 656, 745, 852, 890
DpnII	GATC	7 cut(s)	172, 325, 460, 654, 743, 850, 888
Eam1104I	CTCTTC	1 cut(s)	888
EarI	CTCTTC	1 cut(s)	888
Eco130I	CCWWGG	1 cut(s)	874
Eco47I	GGWCC	4 cut(s)	260, 544, 898, 1108
Eco57I	CTGAAG	1 cut(s)	732
Eco81I	CCTNAGG	1 cut(s)	1155
EcoNI	CCTNNNNNAGG	1 cut(s)	1123
EcoRII	CCWGG	3 cut(s)	109, 163, 1019
EcoT14I	CCWWGG	1 cut(s)	874
EcoT22I	ATGCAT	1 cut(s)	1152
ErhI	CCWWGG	1 cut(s)	874
FaeI	CATG	2 cut(s)	950, 1270
FalI	AAGNNNNNCTT	2 cut(s)	1170, 1202
FaqI	GGGAC	2 cut(s)	557, 1073
FatI	CATG	2 cut(s)	946, 1266
FauNDI	CATATG	1 cut(s)	304
Fnu4HI	GCNGC	8 cut(s)	26, 486, 520, 957, 1215, 1248, 1251, 1262
FokI	GGATG	5 cut(s)	78, 93, 614, 767, 1137
Fsp4HI	GCNGC	8 cut(s)	26, 486, 520, 957, 1215, 1248, 1251, 1262
FspBI	CTAG	2 cut(s)	339, 1139
GluI	GCNGC	8 cut(s)	26, 486, 520, 957, 1215, 1248, 1251, 1262
GsuI	CTGGAG	3 cut(s)	816, 903, 1224
HaeIII	GGCC	1 cut(s)	1253
HapII	CCGG	1 cut(s)	1079
HgaI	GACGC	2 cut(s)	536, 567
Hin1II	CATG	2 cut(s)	950, 1270
HinfI	GANTC	5 cut(s)	7, 67, 229, 355, 1191
HpaII	CCGG	1 cut(s)	1079
Hpy166II	GTNNAC	2 cut(s)	278, 316
Hpy188I	TCNGA	9 cut(s)	132, 287, 526, 659, 712, 751, 972, 1173, 1239
Hpy188III	TCNNGA	5 cut(s)	239, 470, 564, 833, 947
Hpy8I	GTNNAC	2 cut(s)	278, 316
HpyAV	CCTTC	5 cut(s)	105, 167, 360, 595, 1101
HpyCH4III	ACNGT	2 cut(s)	811, 860
HpyCH4V	TGCA	9 cut(s)	4, 85, 251, 410, 485, 663, 1103, 1150, 1214
HpyF10VI	GCNNNNNNNGC	5 cut(s)	22, 344, 567, 611, 962
HpyF3I	CTNAG	7 cut(s)	129, 464, 843, 984, 1114, 1155, 1172
Hsp92II	CATG	2 cut(s)	950, 1270
Kzo9I	GATC	7 cut(s)	172, 325, 460, 654, 743, 850, 888
LmnI	GCTCC	2 cut(s)	127, 136
Lsp1109I	GCAGC	7 cut(s)	37, 497, 506, 943, 1226, 1234, 1273
LweI	GCATC	8 cut(s)	72, 472, 592, 650, 769, 1091, 1137, 1159
MaeI	CTAG	2 cut(s)	339, 1139
MaeIII	GTNAC	3 cut(s)	220, 475, 838
MalI	GATC	7 cut(s)	174, 327, 462, 656, 745, 852, 890
MboI	GATC	7 cut(s)	172, 325, 460, 654, 743, 850, 888
MboII	GAAGA	7 cut(s)	224, 227, 342, 437, 738, 788, 905
MflI	RGATCY	2 cut(s)	460, 743
MluCI	AATT	2 cut(s)	397, 800
MlyI	GAGTC	2 cut(s)	349, 1200
MmeI	TCCRAC	2 cut(s)	200, 436
Mph1103I	ATGCAT	1 cut(s)	1152
MseI	TTAA	4 cut(s)	21, 360, 396, 513
MslI	CAYNNNNRTG	1 cut(s)	111
MspA1I	CMGCKG	1 cut(s)	519
MspI	CCGG	1 cut(s)	1079
MspR9I	CCNGG	4 cut(s)	111, 165, 1021, 1079
MvaI	CCWGG	3 cut(s)	111, 165, 1021
MwoI	GCNNNNNNNGC	5 cut(s)	22, 344, 567, 611, 962
NciI	CCSGG	1 cut(s)	1079
NdeI	CATATG	1 cut(s)	304
NdeII	GATC	7 cut(s)	172, 325, 460, 654, 743, 850, 888
NlaIII	CATG	2 cut(s)	950, 1270
NlaIV	GGNNCC	3 cut(s)	123, 138, 545
NmuCI	GTSAC	1 cut(s)	220
NsiI	ATGCAT	1 cut(s)	1152
PagI	TCATGA	1 cut(s)	946
PfeI	GAWTC	3 cut(s)	7, 67, 229
PkrI	GCNGC	8 cut(s)	27, 487, 521, 958, 1216, 1249, 1252, 1263
PleI	GAGTC	2 cut(s)	349, 1199
PpsI	GAGTC	2 cut(s)	349, 1199
Psp6I	CCWGG	3 cut(s)	109, 163, 1019
PspGI	CCWGG	3 cut(s)	109, 163, 1019
PspN4I	GGNNCC	3 cut(s)	123, 138, 545
PspPI	GGNCC	5 cut(s)	260, 544, 898, 1108, 1252
PstI	CTGCAG	1 cut(s)	1216
PsuI	RGATCY	2 cut(s)	460, 743
PvuII	CAGCTG	1 cut(s)	519
RsaI	GTAC	2 cut(s)	256, 1271
RsaNI	GTAC	2 cut(s)	255, 1270
RseI	CAYNNNNRTG	1 cut(s)	111
SaqAI	TTAA	4 cut(s)	21, 360, 396, 513
SatI	GCNGC	8 cut(s)	26, 486, 520, 957, 1215, 1248, 1251, 1262
Sau3AI	GATC	7 cut(s)	172, 325, 460, 654, 743, 850, 888
Sau96I	GGNCC	5 cut(s)	260, 544, 898, 1108, 1252
ScaI	AGTACT	1 cut(s)	256
SchI	GAGTC	2 cut(s)	349, 1200
ScrFI	CCNGG	4 cut(s)	111, 165, 1021, 1079
SfaNI	GCATC	8 cut(s)	72, 472, 592, 650, 769, 1091, 1137, 1159
SfcI	CTRYAG	1 cut(s)	1212
SinI	GGWCC	4 cut(s)	260, 544, 898, 1108
SmiMI	CAYNNNNRTG	1 cut(s)	111
SmlI	CTYRAG	1 cut(s)	562
SmoI	CTYRAG	1 cut(s)	562
Sse9I	AATT	2 cut(s)	397, 800
SsiI	CCGC	1 cut(s)	1250
SspMI	CTAG	2 cut(s)	339, 1139
StyD4I	CCNGG	4 cut(s)	109, 163, 1019, 1077
StyI	CCWWGG	1 cut(s)	874
TaaI	ACNGT	2 cut(s)	811, 860
TaqI	TCGA	2 cut(s)	328, 891
TasI	AATT	2 cut(s)	397, 800
TatI	WGTACW	2 cut(s)	254, 1269
TauI	GCSGC	1 cut(s)	1253
TfiI	GAWTC	3 cut(s)	7, 67, 229
Tru1I	TTAA	4 cut(s)	21, 360, 396, 513
Tru9I	TTAA	4 cut(s)	21, 360, 396, 513
TseFI	GTSAC	1 cut(s)	220
TseI	GCWGC	7 cut(s)	25, 485, 519, 956, 1214, 1247, 1261
Tsp45I	GTSAC	1 cut(s)	220
TspDTI	ATGAA	4 cut(s)	200, 404, 641, 789
TspGWI	ACGGA	4 cut(s)	378, 578, 756, 890
VpaK11BI	GGWCC	4 cut(s)	260, 544, 898, 1108
XagI	CCTNNNNNAGG	1 cut(s)	1123
XspI	CTAG	2 cut(s)	339, 1139
ZrmI	AGTACT	1 cut(s)	256
Zsp2I	ATGCAT	1 cut(s)	1152

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