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 AT3G11960 1594 / 0 Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.1), Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.2) AT4G05420 99 / 1e-20 DDB1A damaged DNA binding protein 1A (.1.2) AT4G21100 98 / 3e-20 DDB1B damaged DNA binding protein 1B (.1) AT3G55200 83 / 1e-15 AtSAP130a Arabidopsis thaliana spliceosome-associated protein 130 a, Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.1) AT3G55220 83 / 1e-15 AtSAP130b, SAP130b, AtSAP130ab Arabidopsis thaliana spliceosome-associated protein 130 b, Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10017295 [exp] 2456 / 0 AT3G11960 1633 / 0.0 Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.1), Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.2) Lus10020922 [exp] 105 / 1e-22 AT4G21100 1606 / 0.0 damaged DNA binding protein 1B (.1) Lus10033455 [exp] 105 / 1e-22 AT4G05420 1519 / 0.0 damaged DNA binding protein 1A (.1.2) Lus10040321 [exp] 86 / 2e-16 AT3G55220 2125 / 0.0 Arabidopsis thaliana spliceosome-associated protein 130 b, Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.1) Lus10023443 [exp] 86 / 3e-16 AT3G55220 2237 / 0.0 Arabidopsis thaliana spliceosome-associated protein 130 b, Cleavage and polyadenylation specificity factor (CPSF) A subunit 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.006G197200 [exp] 1876 / 0 AT3G11960 1679 / 0.0 Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.1), Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.2) Potri.001G357900 [exp] 87 / 7e-17 AT4G05420 1995 / 0.0 damaged DNA binding protein 1A (.1.2) Potri.010G212100 [exp] 85 / 3e-16 AT3G55200 2243 / 0.0 Arabidopsis thaliana spliceosome-associated protein 130 a, Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.1) Potri.008G048900 [exp] 84 / 9e-16 AT3G55200 2254 / 0.0 Arabidopsis thaliana spliceosome-associated protein 130 a, Cleavage and polyadenylation specificity factor (CPSF) A subunit protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0186 [flax] [poplar] Beta_propeller PF03178 [flax] [poplar] CPSF_A CPSF A subunit region
Representative CDS sequence Show only first row Show all	>Lus10013542 pacid=23168771 polypeptide=Lus10013542 locus=Lus10013542.g ID=Lus10013542.BGIv1.0 annot-version=v1.0 ATGGCGGTTACTGAGGAGGAATGCTCCAACGCCAAATCCCGGTCCTCTTCCTCCTCCTCCGCCGTCATCGGATCCGCCCGTGACTCCCATTACCTTGCCA AGTGCGTCCTCCCCGGTAGCGCCATCCTCCACGTCGTCTCTGCTCACTTCCGCTCCTCTTCCTCCTTGGACATCGTCTTCGGCAAGGAGACATCCATAGA GCTAGTAGTAGTAGACGAAGATGGGGTTGTGCAGTCCGTTTGCGAGCAACCTGTATTTGGCACGATAAAAGATCTTGCCGCTGTACCTTGGAGTAGCAGA TTCCACTCCCGAACAACTACTATGCAGGGAAAAGACCTTCTAGCTGTGATTTCTGACTCCGGGAAGCTCTCATTCCTCACATTCAGCAATGAAATGCACA GGTTTTTTCCTTTGACACACATCCAGCTTTCTAATCCCGGAAACTCAAGGAATCAGCTCGGAAGAATGCTTGCGGTTCACTCCAGGCAAGTTGCTCTTGG CTGTTTTGTTGCTACTAGTGCATATGAAGATCGGTTAGCTCTTTTCTCCCTTTCAACCTGTGGTGGCAGTGACATAATTGATAAGAGAATACTTTATCCT CCTGAAAATGAAGCAAGCACAGCTGTTGGCAGAGGCAACCGGCGAATGAGTTTCTCTGGTACAATATGGAGCATGTGCTTTATCTCAAGACATTCAATTC AATCAAGCAAGGAGCATAATCCTGTACTAGCGATTATAGTAAATAGGACAGAATGTGTTCTCAATGACTTGCTGTTGTTGGGATGGAACGTGAAAGAACA CACTATAGGCGTTCTCTCTCAATTTGTTGAAGCTGGACCTTTGGCACATGATATTGTAGAAGTTCCTCATTCTAATGGTTTTGCCTTTCTGTTTAGGGTT GGTGATGCCCTTTTGATGGATCTCAGAGATGCTCATAGCCCTAGTTGTTTATCTAGAATAAGCCTTAATTCCTTGCCTGCTGCAATAGAGGAACATAATT TTGTTGAAGAGCCATGTAAAGTTCATGAAGTCGACGATGATGGTTTATTTAATGTAGCTGCTTCTGCGTTGCTGGAGCTTCGGGATTATGATCCCATGTG TATAGACGGTGATAGTAGTGATATAAAATCAACCTCTAAGCATATGTGCTCGTGGAGCTGGGAACCAATATCTGGTAAAAGTGCAAAGATGGTGTTTTGT GTAGACACAGGAGAATTTTTCATGATTGAAGTTGCAGTTGATTCAGAAGCTCCTAAAGTCAATCTTTCTGAATGTCTCTATAGAGGCTTACCATGTAAAG AAATTCTGTGGATTGAAGGTGGGTTTCTAGCTGCTATTGTGGACATGGGTGATGGCATTATCCTCAAAGTGGAAAATGAAAGACTTCTACACATAAGCCC TATCCAAAACATTGCACCAATATTGGATATGTCAATTGTAGATTACCATGATGAGAAACGAGATCAAATGTTTGCCTGCTGTGGTGCAGCTCCTGAGGGA TCATTAAGGATTATTCGTAATGGAATAAATGTTGAAAGGTTATTGAAGACTGCTCCTACATATCAAGGAATAATTGGTACCTGGTCAATTCGAATGGGAT TAACCGATTTGCATCATTCTTTTCTTGTTCTGTCGTTTGTTGAAGAGACCAGGGTTCTGTCAGTTGGAGTAAGCTTTACCGATGTAACTGATTCAGTTGG TTTCCTGCCAGATGTTTCTACTTTGGCATGTGGACTCGTAACTGATGGTTTGTTGGTTCAGGTTCACCAAGCTGCAGTTCAGTTTTCCTTGCCTACAAAG ATTGCTCGGGCTGAAGGTTCACCATTGTCATCCCCAGTTTGCAAATCTTGGTCTCCAGATAATACAAGTATTAGCTTAGGTGCAGTTGGACAGAATTGGA TTGTTGTTTCCACTTCTAATCCTTGCTTTTTATATGTTCTTGGTGTCAGAATGCTTTCTGGTTATGAGTATGAAATAGTTGAATTGCAACATTTAAGCAA GATGCCATCCGTGGAAGTTATATGCCTTAAGCCTGGTGAAGGCTTAAAAATCATAGCTTCAGGTACAATTGCATTAATAACTGCTATGGGGACTGCTATT AGTGGGTGTGTTCCTCAAGATGTCAGAGTTGTACTAGTTGATCGGTATTATGTTCTTTCTGGTTTGAGGAATGGTATGCTACTGCGGTTTGAGTGGTGTT CTGCAAGTTCGATGCATTCATTTGTTACATCCAATCTCAACAGTCCTACTGAAATTACATCTGCGATGAATCTTGAGCCTCAGTCATGTGGCTCAACTGA TATGTCAATGGATGAGCTTCCTGCTACATTGGAATTGATTGCCAGCCGCCGGATAGGCATTACTCCTGTATTCCTGGTTCCTCTCAGTGATTCTCTTGAT GCAGATATAATTGCTCTCAGTGATAGGCCGTGGTTGCTGCAAACTGCCAGACACAGTCTCTCATATATTTCGATATCATTTCAGTCTGCAACACATGCAA CACCAATATGCTCAGCTGAATGCCCTAAAGGAATTTTGTTCGTTGCGGAAAACAGTTTGCATTTGGTGGAGATGGTTAGTTCCAAGAGGCTTAATGTGCA GAAGTTCCATCTTGGAGGTACCCCGCGAAAGATTCTATATCACAGTGAAAGCAGATTATTAATTGTGATGAGGACAGATCTGAGTAACGATACATGTTCT TCTGATATATGTTGTGTTGATCCTGTAAATGGCTCCATTGTTTCATATTTTAAACTTGATCTTGGTGAGACTGGAAAATCCATGGAGTTGGTAAGGTTGG GAAGTGATCAGGTTCTTGTGGTTGGAACCAGCCTCTCTTCCGGCCCAGCCATCATGCCCAGTGGCGAAGCTGAAAGTACCAAGGGCCGTCTACTTGTCCT CTGCCTGGAACACTTGCAAAATTCAGACACTGGTTCTATGATTCTGGGATCAAGGGCAGGATCATCTTCCCAAAGGACGTCCCCGTTTCGTGATATTGCT GGATATGCTATGGAGCAGCTATCAGGCAGTAGTCTTGGCAGCAGCCCAGATGATACCAGCTGTGATGGAGTTAAACTTGAGGAAACTGAAGTTTGGCAGT TCCGTTTGGCTTATGCAACAGTATTACCCGGCATGGTACTTGCAATATGCCCATACTTAGATCGATACTTCTTGGCCTCTGCTGGTAGTGGTTTTTATGT ATGCGGCTTTGGGAATGAAAACCCACAAAGAGTGAAAAAGTTGGCTCTTGGAAGGACTCGCTTTATGATAACATCGTTGACTGCACACTATACCAGGATT GCAGTTGGTGATTGCCGAGATGGGGTTCTTTTTTATTCTTATCACGAGGACACAAAAAAGGTGGAGCAGCTTTATTGTGACCCTTGTCAGAGATTAGTTG CTGATTGTGTTCTTGTGGATCCCGACACAGCTGTGGTTTCTGACAGGAAGGGGAGCATTGCTATTTTATCATGTTCGGATAGTTTGGAATGTAACGCCAG TCCAGAGAGCAATTTGAAGTTGAGCAGTGTGTATTATACTGGTGAGGTAGCCATGAGCTTGAAGAAGGGGTCCTTTTCATATAAACTCCCAGCAGACGAT TTGCTGACGGGTTGTGATGACATTCTTGCGAATGTTAGTGCGTCAAGCAACACTATCATGGCTAGTACGCTATTGGGGGGCATAATGGTCCTTTTCCCAT TGTCAAGGGATGACCACGAACTCCTAGAAGCTGTTCAAGCGAGACTTGCCGTCCATCCTTTGACCGCTCCTCCTCTAGGAAATGATCACCATGAGTTTCG AAGCCGAGAGAACCCTGTGAGAGTGCCCAAGATACTGGATGGTGATATGTTGGCTCAGTTCCTGGAACTAACCCATGCACAACAGGAGGCGGTATTATCG GTGCCAGTTGTAACAACGTCGAATAAAGCTGGCATCAAAGCTGTAGCGACCACTCCACTCTCTGTTAGCCAGGTGGTTCAGGTCTTGGAACGGGTTCATT ACGCTCTCAGTTAG
AA sequence Show only first row Show all	>Lus10013542 pacid=23168771 polypeptide=Lus10013542 locus=Lus10013542.g ID=Lus10013542.BGIv1.0 annot-version=v1.0 MAVTEEECSNAKSRSSSSSSAVIGSARDSHYLAKCVLPGSAILHVVSAHFRSSSSLDIVFGKETSIELVVVDEDGVVQSVCEQPVFGTIKDLAAVPWSSR FHSRTTTMQGKDLLAVISDSGKLSFLTFSNEMHRFFPLTHIQLSNPGNSRNQLGRMLAVHSRQVALGCFVATSAYEDRLALFSLSTCGGSDIIDKRILYP PENEASTAVGRGNRRMSFSGTIWSMCFISRHSIQSSKEHNPVLAIIVNRTECVLNDLLLLGWNVKEHTIGVLSQFVEAGPLAHDIVEVPHSNGFAFLFRV GDALLMDLRDAHSPSCLSRISLNSLPAAIEEHNFVEEPCKVHEVDDDGLFNVAASALLELRDYDPMCIDGDSSDIKSTSKHMCSWSWEPISGKSAKMVFC VDTGEFFMIEVAVDSEAPKVNLSECLYRGLPCKEILWIEGGFLAAIVDMGDGIILKVENERLLHISPIQNIAPILDMSIVDYHDEKRDQMFACCGAAPEG SLRIIRNGINVERLLKTAPTYQGIIGTWSIRMGLTDLHHSFLVLSFVEETRVLSVGVSFTDVTDSVGFLPDVSTLACGLVTDGLLVQVHQAAVQFSLPTK IARAEGSPLSSPVCKSWSPDNTSISLGAVGQNWIVVSTSNPCFLYVLGVRMLSGYEYEIVELQHLSKMPSVEVICLKPGEGLKIIASGTIALITAMGTAI SGCVPQDVRVVLVDRYYVLSGLRNGMLLRFEWCSASSMHSFVTSNLNSPTEITSAMNLEPQSCGSTDMSMDELPATLELIASRRIGITPVFLVPLSDSLD ADIIALSDRPWLLQTARHSLSYISISFQSATHATPICSAECPKGILFVAENSLHLVEMVSSKRLNVQKFHLGGTPRKILYHSESRLLIVMRTDLSNDTCS SDICCVDPVNGSIVSYFKLDLGETGKSMELVRLGSDQVLVVGTSLSSGPAIMPSGEAESTKGRLLVLCLEHLQNSDTGSMILGSRAGSSSQRTSPFRDIA GYAMEQLSGSSLGSSPDDTSCDGVKLEETEVWQFRLAYATVLPGMVLAICPYLDRYFLASAGSGFYVCGFGNENPQRVKKLALGRTRFMITSLTAHYTRI AVGDCRDGVLFYSYHEDTKKVEQLYCDPCQRLVADCVLVDPDTAVVSDRKGSIAILSCSDSLECNASPESNLKLSSVYYTGEVAMSLKKGSFSYKLPADD LLTGCDDILANVSASSNTIMASTLLGGIMVLFPLSRDDHELLEAVQARLAVHPLTAPPLGNDHHEFRSRENPVRVPKILDGDMLAQFLELTHAQQEAVLS VPVVTTSNKAGIKAVATTPLSVSQVVQVLERVHYALS

---

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
AT3G11960			Cleavage and polyadenylation s...		Lus10013542 [exp]	0	1
AT4G30100			P-loop containing nucleoside t...		Lus10020914 [exp]	2.0	0.9538
AT3G13530		MAPKKK7, MAP3KE...	MAP3K EPSILON PROTEIN KINASE, ...		Lus10010209 [exp]	2.4	0.9430
AT3G08850		ATRAPTOR1B, RAP...	HEAT repeat ;WD domain, G-beta...		Lus10009083 [exp]	3.5	0.9399
AT4G33650		APEM1, DRP3A, A...	ABERRANT PEROXISOME MORPHOLOGY...		Lus10019875 [exp]	4.7	0.9156
AT1G30470			SIT4 phosphatase-associated fa...		Lus10023354 [exp]	4.8	0.9141
AT2G47330			P-loop containing nucleoside t...		Lus10037527 [exp]	6.0	0.9235
AT4G16310		LDL3	LSD1-like 3 (.1)		Lus10024311 [exp]	7.4	0.9398
AT4G36630		EMB2754	EMBRYO DEFECTIVE 2754, Vacuola...		Lus10026018 [exp]	7.7	0.8934
AT3G55320		ABCB20, PGP20	ATP-binding cassette B20, P-gl...		Lus10023437 [exp]	8.4	0.9062
AT3G14010		CID4	CTC-interacting domain 4 (.1.2...		Lus10037656 [exp]	8.5	0.9184

Compare expression of checked genes

Lus10013542 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.