Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser]
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT5G67240 369 / 8e-119 SDN3 small RNA degrading nuclease 3 (.1.2) AT3G50100 338 / 2e-111 SDN1 small RNA degrading nuclease 1 (.1) AT5G05540 304 / 3e-97 SDN2 small RNA degrading nuclease 2 (.1.2) AT3G50090 226 / 4e-69 Exonuclease family protein (.1) AT5G25800 113 / 2e-26 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1) AT3G15080 74 / 2e-14 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1) AT3G27970 69 / 2e-12 Exonuclease family protein (.1) AT5G40310 69 / 2e-12 C2H2ZnF Exonuclease family protein (.1) AT2G48100 67 / 7e-12 C2H2ZnF Exonuclease family protein (.1.2.3.4)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10019321 [exp] 919 / 0 AT5G67240 378 / 1e-122 small RNA degrading nuclease 3 (.1.2) Lus10011505 [exp] 576 / 0 AT5G67240 358 / 1e-116 small RNA degrading nuclease 3 (.1.2) Lus10019320 [exp] 421 / 9e-145 AT5G67240 214 / 2e-66 small RNA degrading nuclease 3 (.1.2) Lus10010220 [exp] 157 / 2e-45 AT5G67240 54 / 5e-09 small RNA degrading nuclease 3 (.1.2) Lus10018935 [exp] 116 / 4e-27 AT5G25800 635 / 0.0 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1) Lus10028637 [exp] 115 / 6e-27 AT5G25800 641 / 0.0 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1) Lus10042779 [exp] 115 / 7e-27 AT5G25800 712 / 0.0 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1) Lus10029748 [exp] 105 / 1e-23 AT5G25800 707 / 0.0 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1) Lus10011026 [exp] 80 / 2e-16 AT3G15080 283 / 2e-96 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1)
Poplar homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.007G048000 [exp] 555 / 0 AT5G67240 402 / 4e-132 small RNA degrading nuclease 3 (.1.2) Potri.005G186600 [exp] 120 / 8e-29 AT5G25800 752 / 0.0 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1) Potri.001G373500 [exp] 76 / 4e-15 AT3G15080 346 / 1e-120 Polynucleotidyl transferase, ribonuclease H-like superfamily protein (.1) Potri.002G215700 [exp] 65 / 4e-11 AT2G48100 374 / 3e-129 Exonuclease family protein (.1.2.3.4) Potri.017G073300 [exp] 55 / 8e-08 AT3G27970 577 / 0.0 Exonuclease family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0219 [flax] [poplar] RNase_H PF00929 [flax] [poplar] RNase_T Exonuclease
Representative CDS sequence Show only first row Show all	>Lus10011504 pacid=23140438 polypeptide=Lus10011504 locus=Lus10011504.g ID=Lus10011504.BGIv1.0 annot-version=v1.0 ATGGACGAGAAACTAGCCGCCGCAATCTCCGCCGCTCCGGCGAACGTTCTGACTGAGATCGTGAAGTTAGCTCAACGGCTAGGACGCGAGGGCACCAAGG GCAGCTGGAAGGAATTCCTCAATGTCTACGATACTAAGTGCGGCTCATCACTCAGTGATCCTGGCAAGAGGCCTCGAGACAGTTTGGTTGCGTTCCTCCA AACGTTTACCGGAGAAGATGAACAAAAGTTTGTTGCTAATGTCCTTGGATCGTGTTCAAGCCGGCAAGTGTTATTGCAGACTGCTAAAGAGTCTTCAGAC GATCTTTCGCCTGGACAGAGGATGGTTCATTTAACACTTGAGCACCCGTATTTCATGTCGAAGTATGTGTTCCCTACTTATGAAAAGGATTGGTTGGTTT CAAAACCCTGTGAAGGATCTAAGACGAAAAGCTCAAGTAAGATGCTTGCTGTTGATTGTGAGATGGTTCTCTGCGAGGATGGTAATGATGGCTTAGTCAG AGTTTGTGTGGTGGATTCCGATTTACAGGTGAAGCTCGACGAAAAGGTGAAACCTGACAAGGCAATAACAGATTATCGAACTGAAATTACTGGAATCAAT CCTGGAGATTTGGATAATGTTACATGTTCGTTAAAGAACGTACAGAGACGCATGAAAAAGCTGTTATCCAAAGGAAGAACCATTTTAGTGGGACAAGGGT TGTATAATGATCTACTTGCATTGAAGATCGACCATGCCAGAGTTGTAGACACATCATTTATCTTCAAAACTGCAGATGGTCGCCCACCGTCTTTACGTAA TTTGTGTAGGACGATTTTAGGTTACGAACTCCGAGAGGATGGCGCTCCGCATAATTGTTTAGATGATGCACGTACCGCAATGAAAATTGTCCTGGCGAAG ATGAATGGATTTGATAAAGTGATTCCAAAGATTGCGTCAGAAGTGAAGCATGTATCCGAAGATGAACAAGCTAAGCTTCTCCTTCACAAAATACCAAGCG CTGTACCTACTGAAGAGCTTCGAAGAATCTTTCCTGTGAACTTCACCATTCAACTAAAGCCAGTTAAGCGAGCTGAAGGAAAACATTATTCTGTGCTTGC CATCTTTAAGAATCTAAGCGAGGCACACGAAGCATTCGAGAAAGTTGATGGAGTCATTGACAAGGATACCGTTGGCCGGCCACAAAAGCTGGCTACACTC ACGTCCGACAAAGGAAAAACTTCTACTCTATTTGTACGTAAAATGTCGCCCGAGGGTTCATCCCAGCCAAAGAGATCGTTGGAAAGTGACGATCACGGCA GTCAAAAGAAGCAAAAGACCGATCGCCGCCATAACCATCTGGAAGAGAATGAAAGACTGAAGCAGGAACTGAGAGACAAGGATGAAGCGATTGAAAGGTT GAAGCAAGAACTGAAGGAGAGTGCTGTCAAGAATCCTTCGGACAAGCACTTGAGCGAGATCGAAAAGTTGAAGAAGGAGGTACGAGCGAAAGACTTCGAA ATCGTTACCAGTGACAAGATCATTGATGGTCTCAAGGAGAAGTTGAAGGAGGTACGAACGAAAGACTTCGAAATCGTTACCAGTGACAAGATCATTGATG GTCTCAAGGAGAAGTTGAAGGAGGTACGAACGAAAGACTTCGAAATCGTTACCAGTGACAAGATCATTGATGGTCTGAAGGAGAAGTTGAAAGATAAAAA GAAGAGCAGAAAACGCTAG
AA sequence Show only first row Show all	>Lus10011504 pacid=23140438 polypeptide=Lus10011504 locus=Lus10011504.g ID=Lus10011504.BGIv1.0 annot-version=v1.0 MDEKLAAAISAAPANVLTEIVKLAQRLGREGTKGSWKEFLNVYDTKCGSSLSDPGKRPRDSLVAFLQTFTGEDEQKFVANVLGSCSSRQVLLQTAKESSD DLSPGQRMVHLTLEHPYFMSKYVFPTYEKDWLVSKPCEGSKTKSSSKMLAVDCEMVLCEDGNDGLVRVCVVDSDLQVKLDEKVKPDKAITDYRTEITGIN PGDLDNVTCSLKNVQRRMKKLLSKGRTILVGQGLYNDLLALKIDHARVVDTSFIFKTADGRPPSLRNLCRTILGYELREDGAPHNCLDDARTAMKIVLAK MNGFDKVIPKIASEVKHVSEDEQAKLLLHKIPSAVPTEELRRIFPVNFTIQLKPVKRAEGKHYSVLAIFKNLSEAHEAFEKVDGVIDKDTVGRPQKLATL TSDKGKTSTLFVRKMSPEGSSQPKRSLESDDHGSQKKQKTDRRHNHLEENERLKQELRDKDEAIERLKQELKESAVKNPSDKHLSEIEKLKKEVRAKDFE IVTSDKIIDGLKEKLKEVRTKDFEIVTSDKIIDGLKEKLKEVRTKDFEIVTSDKIIDGLKEKLKDKKKSRKR

---

DESeq2's median of ratios [FLAX]

Order by: Tissue Experiment Show only core collection Show again Show schematic diagram

---

Coexpressed genes

Compare expression of checked genes Schematic diagram [FLAX] Schematic diagram [POPLAR]

*If you select 4 or less genes and then press "compare expression", expression will be shown as a graph. If you select more than 4 genes, expresion will be shown as a heat map.
*Color represents relative expression level among samples for each gene.

At best	At TF class	At alias	At description		Locus	MR	r	Symbol	HYP	R_s2_CTR	R_s2_Fox	R_s4_CTR	R_s4_Fox	R_r1_CTR	R_r1_Fox	R_r3_CTR	R_r3_Fox	R_r1s2_CTR	R_r1s2_Fox	R_r3s2_CTR	R_r3s2_Fox	R_s6_CTR	R_s6_Al4	R_s6_Al12	R_s6_Al24	R_s8_CTR	R_s8_Al4	R_s8_Al12	R_s8_Al24	R_r5_CTR	R_r5_Al4	R_r5_Al12	R_r5_Al24	R_r7_CTR	R_r7_Al4	R_r7_Al12	R_r7_Al24	LEAF_N	LEAF_P	LEAF_NPK	SAM	AR_Bet	AR_rdf	cPAR	TOP_Bet	TOP_rdf	iFIBa	iFIBb	MID_Bet	MID_rdf	tFIBa	tFIB_Gr	tFIB_Li	tFIB_Bi	tFIBb	tFIBb_PUL8	tFIBb_PUL24	tFIBb_PUL96	tFIBb_OPP8	tFIBb_OPP24	tFIBb_OPP96	sXYLa	sXYLb	sXYLb_PUL8	sXYLb_PUL24	sXYLb_PUL96	sXYLb_OPP8	sXYLb_OPP24	sXYLb_OPP96
AT5G67240		SDN3	small RNA degrading nuclease 3...		Lus10011504 [exp]	0	1
AT3G56990		EDA7	embryo sac development arrest ...		Lus10019107 [exp]	1.4	0.9112
AT1G13160			ARM repeat superfamily protein...		Lus10036950 [exp]	3.5	0.8882
AT5G11240			transducin family protein / WD...		Lus10020907 [exp]	3.7	0.9020
AT2G43650		EMB2777	EMBRYO DEFECTIVE 2777, Sas10/U...		Lus10012061 [exp]	4.5	0.8582
AT2G17250		EMB2762	EMBRYO DEFECTIVE 2762, CCAAT-b...		Lus10001388 [exp]	5.0	0.8354
AT3G16810		APUM24	pumilio 24 (.1)		Lus10037712 [exp]	5.3	0.8775
AT4G15640			unknown protein		Lus10012810 [exp]	7.9	0.8598
AT3G07050		NSN1	nucleostemin-like 1, GTP-bindi...		Lus10018858 [exp]	8.1	0.8676
AT1G26170			ARM repeat superfamily protein...		Lus10000328 [exp]	12.8	0.8268
AT3G16810		APUM24	pumilio 24 (.1)		Lus10016836 [exp]	13.4	0.8415

Compare expression of checked genes

Lus10011504 coexpression network

*The number of genes in the network is adjusted within 50 genes.
*Gene name represents symbol(s) of closest Arabidopsis gene if symbol(s) for the gene itself doesn't exist.
*Circle diameter represents the number of connection with other genes within this network.
*Color for gene name represents subnetwork based on the result of network clustering.