Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0013384

Physical Location & Seq

Genomic Coordinates Forward (+)

21076505 .. 21078443

Gene Structure 1939 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G56940.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1230 bp

ATGGCGGCTGAAATGGCGTTAGTGAAACCCATCTCCAAGTTCTCTTCCCCAAAGCTCTCAAACCCGAGCAAATTCCTCTCCGGCCGACGTTTCTCCACCGTGATCAGAATGTCAGCCTCTTCCTCACCGCCTCCTCCAACCACCGCCACCTCGAAGTCCAAGAAGGGAACGAAGAAAGAGATTCAAGAGTCGCTTCTTACTCCGAGGTTCTACACGACGGACTTCGAGGAAATGGAACAGCTTTTCAACACGGAGATCAACAAGAACCTTAACGAAGCAGAGTTCGAGGCTCTGCTTCAAGAGTTCAAGACCGATTACAACCAGACACATTTCGTGAGGAACAAGGAGTTTAAAGAAGCTGCAGACAAATTGCAAGGACCTCTCCGACAGATCTTCGTTGAGTTCCTTGAGCGGTCTTGTACTGCTGAGTTCTCTGGTTTCCTTCTCTACAAGGAGCTTGGTCGAAGACTCAAGAAAACAAACCCTGTTGTGGCTGAGATCTTCTCTCTTATGTCTAGAGATGAAGCAAGACATGCCGGGTTCTTGAACAAGGGATTGTCTGATTTCAACTTGGCTCTTGATTTGGGTTTCCTGACAAAGGCAAGGAAATACACTTTCTTCAAGCCAAAATTCATCTTCTACGCGACTTACTTATCCGAGAAAATCGGGTACTGGAGATACATCACAATCTACAGACACCTCAAGGAAAACCCTGAGTTCCAATGTTACCCAATCTTCAAGTACTTTGAGAACTGGTGTCAAGACGAGAACCGTCATGGTGATTTCTTCTCTGCTTTGATGAAAGCTCAGCCTCAGTTCCTCAATGACTGGCAAGCCAAGCTCTGGTCTCGCTTCTTCTGCCTCTCGGTTTATGTGACAATGTACCTCAATGACTGCCAAAGAACTAATTTCTACGAGGGTATCGGGTTAAACACAAAGGAGTTCGATATGCATGTCATCATCGAGACAAACCGAACCACGGCAAGAATATTCCCTGCGGTGCTGGATGTTGAGAACCCTGAGTTCAAGAGGAAACTGGATAGAATGGTTGTGAGCTATGAGAAGCTGCTGGCTATAGGAGAAACAGATGATGCTTCCTTCATCAAGACCCTCAAGAGGATTCCTTTGGTTACTTCTTTAGCCTCTGAGATCTTGGCTGCTTATCTCATGCCTCCTGTTGAGTCTGGCTCTGTTGATTTCGCCGAGTTTGAGCCTAATCTTGTCTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0004497 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006725 GO:0006778 GO:0006779 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009058 GO:0009507 GO:0009526 GO:0009528 GO:0009534 GO:0009535 GO:0009536 GO:0009579 GO:0009657 GO:0009658 GO:0009706 GO:0009941 GO:0009987 GO:0015994 GO:0015995 GO:0016020 GO:0016043 GO:0016491 GO:0016705 GO:0016709 GO:0018130 GO:0019222 GO:0019438 GO:0019866 GO:0031090 GO:0031323 GO:0031967 GO:0031969 GO:0031975 GO:0031976 GO:0031984 GO:0033013 GO:0033014 GO:0034357 GO:0034641 GO:0042170 GO:0042440 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044249 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0046148 GO:0046483 GO:0048529 GO:0050789 GO:0050794 GO:0051171 GO:0051186 GO:0051188 GO:0055035 GO:0055114 GO:0065007 GO:0071704 GO:0071840 GO:0097159 GO:1901360 GO:1901362 GO:1901363 GO:1901401 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00860 ko01100 ko01110 map00860 map01100 map01110

Pfam Domains

Protein Families

Rubrerythrin

Protein Analysis

409

Amino Acids

47.63

Weight (kDa)

8.55

Isoelectric Point (pI)

39.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rubrerythrin	PF02915	57 - 190	3.1e-44	Rubrerythrin

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: OG0013384)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G56940 AT3G56940
fragaria_vesca	FvH4_1g28960 FvH4_1g28960
malus_domestica	MD00G1107700.v1.1
prunus_persica	Prupe.7G022500_v2.0.a1
pyrus_communis	pycom12g09220
rosa_chinensis	RchiOBHm_Chr3g0494361
rosa_laevigata	RLG00000022676
rosa_multiflora	Rmu_sc0031350.1_g000001
rosa_roxburghii	Rroxscaffold_6G00391150
rosa_rugosa	Rorug03G0264700
rosa_samantha	Rh3AG315100 Rh3AG315200 Rh3BG350400 Rh3CG347100 Rh3DG349700
rosa_wichuraiana	Rw3G027520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	843
AccBSI	CCGCTC	1 cut(s)	412
AccII	CGCG	1 cut(s)	644
AciI	CCGC	5 cut(s)	5, 128, 144, 412, 998
AcoI	YGGCCR	1 cut(s)	82
AcsI	RAATTY	2 cut(s)	71, 629
AfaI	GTAC	4 cut(s)	421, 671, 743, 884
AfiI	CCNNNNNNNGG	5 cut(s)	490, 598, 843, 979, 1116
AgsI	TTSAA	9 cut(s)	185, 247, 299, 307, 547, 568, 622, 739, 1027
AluBI	AGCT	8 cut(s)	55, 241, 359, 457, 806, 841, 1056, 1066
AluI	AGCT	8 cut(s)	55, 241, 359, 457, 806, 841, 1056, 1066
Alw26I	GTCTC	2 cut(s)	852, 959
Ama87I	CYCGRG	1 cut(s)	64
AoxI	GGCC	1 cut(s)	82
ApeKI	GCWGC	3 cut(s)	359, 1066, 1157
ApoI	RAATTY	2 cut(s)	71, 629
AspS9I	GGNCC	1 cut(s)	377
AsuC2I	CCSGG	1 cut(s)	538
AsuHPI	GGTGA	2 cut(s)	117, 791
AvaI	CYCGRG	1 cut(s)	64
AvaII	GGWCC	1 cut(s)	377
BaeI	ACNNNNGTAYC	2 cut(s)	904, 937
BbsI	GAAGAC	1 cut(s)	472
BbvI	GCAGC	3 cut(s)	346, 1053, 1144
BccI	CCATC	1 cut(s)	38
BceAI	ACGGC	1 cut(s)	996
BclI	TGATCA	1 cut(s)	102
BcnI	CCSGG	1 cut(s)	538
BcoDI	GTCTC	2 cut(s)	852, 959
BfaI	CTAG	1 cut(s)	516
BfmI	CTRYAG	3 cut(s)	360, 691, 1074
BglII	AGATCT	3 cut(s)	390, 498, 1149
BisI	GCNGC	4 cut(s)	6, 360, 1067, 1158
BlpI	GCTNAGC	1 cut(s)	807
BlsI	GCNGC	4 cut(s)	7, 361, 1068, 1159
BmcAI	AGTACT	1 cut(s)	743
Bme1390I	CCNGG	1 cut(s)	538
Bme18I	GGWCC	1 cut(s)	377
BmeT110I	CYCGRG	1 cut(s)	64
BmgT120I	GGNCC	1 cut(s)	377
BmrFI	CCNGG	1 cut(s)	538
BmsI	GCATC	1 cut(s)	1081
BpiI	GAAGAC	1 cut(s)	472
BplI	GAGNNNNNCTC	4 cut(s)	488, 520, 1172, 1204
BpmI	CTGGAG	1 cut(s)	694
Bpu1102I	GCTNAGC	1 cut(s)	807
BpuEI	CTTGAG	4 cut(s)	428, 455, 686, 1097
BpuMI	CCSGG	1 cut(s)	538
BsaI	GGTCTC	1 cut(s)	852
BsaJI	CCNNGG	2 cut(s)	203, 978
Bsc4I	CCNNNNNNNGG	5 cut(s)	490, 598, 843, 979, 1116
Bse1I	ACTGG	4 cut(s)	677, 758, 833, 1041
BseDI	CCNNGG	2 cut(s)	203, 978
BseGI	GGATG	1 cut(s)	1012
BseLI	CCNNNNNNNGG	5 cut(s)	490, 598, 843, 979, 1116
BseMII	CTCAG	7 cut(s)	417, 486, 705, 821, 827, 1011, 1137
BseNI	ACTGG	4 cut(s)	677, 758, 833, 1041
BseRI	GAGGAG	1 cut(s)	123
BseX3I	CGGCCG	1 cut(s)	82
BseXI	GCAGC	3 cut(s)	346, 1053, 1144
Bsh1236I	CGCG	1 cut(s)	644
Bsh1285I	CGRYCG	1 cut(s)	85
BshFI	GGCC	1 cut(s)	84
BsiEI	CGRYCG	1 cut(s)	85
BsiHKCI	CYCGRG	1 cut(s)	64
BsiSI	CCGG	2 cut(s)	81, 537
BslI	CCNNNNNNNGG	5 cut(s)	490, 598, 843, 979, 1116
BsmAI	GTCTC	2 cut(s)	852, 959
BsnI	GGCC	1 cut(s)	84
Bso31I	GGTCTC	1 cut(s)	852
BsoBI	CYCGRG	1 cut(s)	64
Bsp143I	GATC	5 cut(s)	102, 255, 390, 498, 1149
Bsp1720I	GCTNAGC	1 cut(s)	807
BspACI	CCGC	5 cut(s)	5, 128, 144, 412, 998
BspANI	GGCC	1 cut(s)	84
BspCNI	CTCAG	7 cut(s)	418, 487, 706, 820, 826, 1012, 1138
BspFNI	CGCG	1 cut(s)	644
BspMAI	CTGCAG	1 cut(s)	364
BspTNI	GGTCTC	1 cut(s)	852
BsrBI	CCGCTC	1 cut(s)	412
BsrI	ACTGG	4 cut(s)	677, 758, 833, 1041
BssECI	CCNNGG	2 cut(s)	203, 978
BssMI	GATC	5 cut(s)	102, 255, 390, 498, 1149
Bst4CI	ACNGT	2 cut(s)	100, 773
Bst6I	CTCTTC	2 cut(s)	49, 124
BstAPI	GCANNNNNTGC	1 cut(s)	533
BstC8I	GCNNGC	2 cut(s)	834, 1071
BstDEI	CTNAG	7 cut(s)	426, 495, 714, 807, 813, 1020, 1146
BstDSI	CCRYGG	1 cut(s)	978
BstENI	CCTNNNNNAGG	1 cut(s)	596
BstF5I	GGATG	1 cut(s)	1012
BstFNI	CGCG	1 cut(s)	644
BstKTI	GATC	5 cut(s)	105, 258, 393, 501, 1152
BstMAI	GTCTC	2 cut(s)	852, 959
BstMBI	GATC	5 cut(s)	102, 255, 390, 498, 1149
BstMCI	CGRYCG	1 cut(s)	85
BstMWI	GCNNNNNNNGC	4 cut(s)	14, 533, 838, 858
BstNSI	RCATGY	2 cut(s)	536, 956
BstSCI	CCNGG	1 cut(s)	536
BstSFI	CTRYAG	3 cut(s)	360, 691, 1074
BstUI	CGCG	1 cut(s)	644
BstV1I	GCAGC	3 cut(s)	346, 1053, 1144
BstV2I	GAAGAC	1 cut(s)	472
BstX2I	RGATCY	3 cut(s)	390, 498, 1149
BstYI	RGATCY	3 cut(s)	390, 498, 1149
BstZI	CGGCCG	1 cut(s)	82
BsuRI	GGCC	1 cut(s)	84
BtgI	CCRYGG	1 cut(s)	978
BtsCI	GGATG	1 cut(s)	1012
Cac8I	GCNNGC	2 cut(s)	834, 1071
Cfr13I	GGNCC	1 cut(s)	377
Csp6I	GTAC	4 cut(s)	420, 670, 742, 883
CviAII	CATG	4 cut(s)	533, 776, 953, 1168
CviQI	GTAC	4 cut(s)	420, 670, 742, 883
DdeI	CTNAG	7 cut(s)	426, 495, 714, 807, 813, 1020, 1146
DpnI	GATC	5 cut(s)	104, 257, 392, 500, 1151
DpnII	GATC	5 cut(s)	102, 255, 390, 498, 1149
DraI	TTTAAA	1 cut(s)	352
EaeI	YGGCCR	1 cut(s)	82
EagI	CGGCCG	1 cut(s)	82
Eam1104I	CTCTTC	2 cut(s)	49, 124
EarI	CTCTTC	2 cut(s)	49, 124
EclXI	CGGCCG	1 cut(s)	82
Eco31I	GGTCTC	1 cut(s)	852
Eco47I	GGWCC	1 cut(s)	377
Eco52I	CGGCCG	1 cut(s)	82
Eco88I	CYCGRG	1 cut(s)	64
EcoNI	CCTNNNNNAGG	1 cut(s)	596
EcoO109I	RGGNCCY	1 cut(s)	377
EcoT22I	ATGCAT	1 cut(s)	954
FaeI	CATG	4 cut(s)	536, 779, 956, 1171
FaiI	YATR	9 cut(s)	512, 534, 777, 873, 950, 954, 1059, 1076, 1169
FalI	AAGNNNNNCTT	2 cut(s)	177, 209
FatI	CATG	4 cut(s)	532, 775, 952, 1167
FbaI	TGATCA	1 cut(s)	102
Fnu4HI	GCNGC	4 cut(s)	6, 360, 1067, 1158
FokI	GGATG	1 cut(s)	1019
Fsp4HI	GCNGC	4 cut(s)	6, 360, 1067, 1158
FspBI	CTAG	1 cut(s)	516
GluI	GCNGC	4 cut(s)	6, 360, 1067, 1158
GsuI	CTGGAG	1 cut(s)	694
HaeIII	GGCC	1 cut(s)	84
HapII	CCGG	2 cut(s)	81, 537
Hin1II	CATG	4 cut(s)	536, 779, 956, 1171
HinfI	GANTC	5 cut(s)	181, 188, 468, 1120, 1181
HpaII	CCGG	2 cut(s)	81, 537
HphI	GGTGA	2 cut(s)	117, 791
Hpy188I	TCNGA	6 cut(s)	107, 204, 386, 562, 658, 1147
Hpy99I	CGWCG	2 cut(s)	90, 220
HpyAV	CCTTC	3 cut(s)	157, 452, 1108
HpyCH4III	ACNGT	2 cut(s)	100, 773
HpyCH4IV	ACGT	1 cut(s)	88
HpyCH4V	TGCA	3 cut(s)	362, 373, 952
HpyF10VI	GCNNNNNNNGC	4 cut(s)	14, 533, 838, 858
HpyF3I	CTNAG	7 cut(s)	426, 495, 714, 807, 813, 1020, 1146
HpySE526I	ACGT	1 cut(s)	88
Hsp92II	CATG	4 cut(s)	536, 779, 956, 1171
Ksp22I	TGATCA	1 cut(s)	102
Kzo9I	GATC	5 cut(s)	102, 255, 390, 498, 1149
LmnI	GCTCC	1 cut(s)	454
Lsp1109I	GCAGC	3 cut(s)	346, 1053, 1144
LweI	GCATC	1 cut(s)	1081
MaeI	CTAG	1 cut(s)	516
MaeII	ACGT	1 cut(s)	88
MaeIII	GTNAC	3 cut(s)	725, 874, 1129
MalI	GATC	5 cut(s)	104, 257, 392, 500, 1151
MbiI	CCGCTC	1 cut(s)	412
MboI	GATC	5 cut(s)	102, 255, 390, 498, 1149
MflI	RGATCY	3 cut(s)	390, 498, 1149
MluCI	AATT	4 cut(s)	71, 368, 629, 907
MlyI	GAGTC	3 cut(s)	197, 462, 1190
MmeI	TCCRAC	2 cut(s)	161, 409
Mph1103I	ATGCAT	1 cut(s)	954
MseI	TTAA	3 cut(s)	270, 351, 929
MspI	CCGG	2 cut(s)	81, 537
MspR9I	CCNGG	1 cut(s)	538
MvnI	CGCG	1 cut(s)	644
MwoI	GCNNNNNNNGC	4 cut(s)	14, 533, 838, 858
NciI	CCSGG	1 cut(s)	538
NdeII	GATC	5 cut(s)	102, 255, 390, 498, 1149
NlaIII	CATG	4 cut(s)	536, 779, 956, 1171
NmeAIII	GCCGAG	1 cut(s)	1228
NmuCI	GTSAC	1 cut(s)	874
NsiI	ATGCAT	1 cut(s)	954
NspI	RCATGY	2 cut(s)	536, 956
PfeI	GAWTC	2 cut(s)	181, 1120
PflMI	CCANNNNNTGG	1 cut(s)	843
PkrI	GCNGC	4 cut(s)	7, 361, 1068, 1159
PleI	GAGTC	3 cut(s)	196, 462, 1189
PpsI	GAGTC	3 cut(s)	196, 462, 1189
PpuMI	RGGWCCY	1 cut(s)	377
Psp5II	RGGWCCY	1 cut(s)	377
PspPI	GGNCC	1 cut(s)	377
PspPPI	RGGWCCY	1 cut(s)	377
PstI	CTGCAG	1 cut(s)	364
PsuI	RGATCY	3 cut(s)	390, 498, 1149
RsaI	GTAC	4 cut(s)	421, 671, 743, 884
RsaNI	GTAC	4 cut(s)	420, 670, 742, 883
SaqAI	TTAA	3 cut(s)	270, 351, 929
SatI	GCNGC	4 cut(s)	6, 360, 1067, 1158
Sau3AI	GATC	5 cut(s)	102, 255, 390, 498, 1149
Sau96I	GGNCC	1 cut(s)	377
ScaI	AGTACT	1 cut(s)	743
SchI	GAGTC	3 cut(s)	197, 462, 1190
ScrFI	CCNGG	1 cut(s)	538
SfaNI	GCATC	1 cut(s)	1081
SfcI	CTRYAG	3 cut(s)	360, 691, 1074
SinI	GGWCC	1 cut(s)	377
SmlI	CTYRAG	4 cut(s)	407, 470, 701, 1112
SmoI	CTYRAG	4 cut(s)	407, 470, 701, 1112
Sse9I	AATT	4 cut(s)	71, 368, 629, 907
SsiI	CCGC	5 cut(s)	5, 128, 144, 412, 998
SspI	AATATT	1 cut(s)	990
SspMI	CTAG	1 cut(s)	516
StyD4I	CCNGG	1 cut(s)	536
TaaI	ACNGT	2 cut(s)	100, 773
TaiI	ACGT	1 cut(s)	91
TaqI	TCGA	6 cut(s)	152, 225, 285, 463, 945, 963
TaqII	GACCGA	1 cut(s)	326
TasI	AATT	4 cut(s)	71, 368, 629, 907
TatI	WGTACW	2 cut(s)	419, 741
TauI	GCSGC	1 cut(s)	8
TfiI	GAWTC	2 cut(s)	181, 1120
Tru1I	TTAA	3 cut(s)	270, 351, 929
Tru9I	TTAA	3 cut(s)	270, 351, 929
TseFI	GTSAC	1 cut(s)	874
TseI	GCWGC	3 cut(s)	359, 1066, 1157
Tsp45I	GTSAC	1 cut(s)	874
TspDTI	ATGAA	4 cut(s)	537, 622, 815, 1090
TspGWI	ACGGA	2 cut(s)	233, 266
Van91I	CCANNNNNTGG	1 cut(s)	843
VpaK11BI	GGWCC	1 cut(s)	377
XagI	CCTNNNNNAGG	1 cut(s)	596
XapI	RAATTY	2 cut(s)	71, 629
XbaI	TCTAGA	1 cut(s)	515
XceI	RCATGY	2 cut(s)	536, 956
XspI	CTAG	1 cut(s)	516
ZrmI	AGTACT	1 cut(s)	743
Zsp2I	ATGCAT	1 cut(s)	954

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