Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT1G60900 531 / 0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) AT4G36690 520 / 0 ATU2AF65A U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) AT1G60830 129 / 1e-35 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT5G09880 71 / 7e-13 Splicing factor, CC1-like (.1) AT2G33435 71 / 1e-12 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT1G71800 66 / 3e-11 CSTF64 cleavage stimulating factor 64 (.1) AT5G50250 60 / 1e-09 CP31B chloroplast RNA-binding protein 31B (.1) AT5G04600 57 / 5e-09 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT2G18510 58 / 6e-09 EMB2444 embryo defective 2444, RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT4G27000 57 / 2e-08 ATRBP45C RNA-binding (RRM/RBD/RNP motifs) family 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 Potri.004G040900 [exp] 823 / 0 AT1G60900 541 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Potri.005G125500 [exp] 543 / 0 AT4G36690 626 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Potri.007G028500 [exp] 525 / 0 AT4G36690 601 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Potri.010G068400 [exp] 115 / 8e-27 AT2G33435 237 / 3e-65 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Potri.007G009800 [exp] 81 / 9e-16 AT5G09880 519 / 9e-180 Splicing factor, CC1-like (.1) Potri.005G148100 [exp] 76 / 2e-14 AT5G09880 553 / 0.0 Splicing factor, CC1-like (.1) Potri.002G061200 [exp] 66 / 5e-11 AT1G71800 354 / 3e-117 cleavage stimulating factor 64 (.1) Potri.001G340800 [exp] 61 / 6e-10 AT4G24770 322 / 2e-110 ARABIDOPSIS THALIANA RNA BINDING PROTEIN, APPROXIMATELY 31 KD, 31-kDa RNA binding protein (.1) Potri.014G105800 [exp] 58 / 4e-09 AT1G01080 271 / 7e-91 RNA-binding (RRM/RBD/RNP motifs) family protein (.1), RNA-binding (RRM/RBD/RNP motifs) family protein (.2)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10024026 [exp] 521 / 0 AT4G36690 678 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Lus10041725 [exp] 520 / 3e-180 AT4G36690 672 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1.2.3.4) Lus10037299 [exp] 507 / 2e-177 AT1G60900 629 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Lus10035713 [exp] 517 / 5e-175 AT1G60900 640 / 0.0 U2 snRNP auxilliary factor, large subunit, splicing factor (.1) Lus10011791 [exp] 138 / 3e-34 AT2G33435 215 / 6e-63 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10023746 [exp] 135 / 2e-33 AT2G33435 209 / 2e-60 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10002093 [exp] 79 / 4e-15 AT5G09880 600 / 0.0 Splicing factor, CC1-like (.1) Lus10000826 [exp] 75 / 7e-14 AT5G09880 589 / 0.0 Splicing factor, CC1-like (.1) Lus10014814 [exp] 67 / 2e-11 AT1G71800 350 / 2e-116 cleavage stimulating factor 64 (.1) Lus10017923 [exp] 67 / 2e-11 AT1G71800 306 / 4e-98 cleavage stimulating factor 64 (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0221 [poplar] [flax] RRM PF00076 [poplar] [flax] RRM_1 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) CL0221 [poplar] [flax] RRM PF13893 [poplar] [flax] RRM_5 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
Representative CDS sequence Show only first row Show all	>Potri.011G050400.1 pacid=42780412 polypeptide=Potri.011G050400.1.p locus=Potri.011G050400 ID=Potri.011G050400.1.v4.1 annot-version=v4.1 ATGTCTTCTAACGAAGCAGGATTCGATGAAAATGGCGATGATCACACTGATCGCGTCTCCCGTTACAGGACGCACAGTTCTCGTGAATCTGAACATGATA GGTCAAGGACTCGCGGCAGGGAAAAAGATCATGACCGCTATCATAGAGGCTCTAAGGATGGAAGTGTGAGGGATGATAGAAGAAGAGAAAAAATTGGTGA TTTTGACCGTCATGAAAGAAGTAGCCGCGATCGAAATTATCATAGGAACCGTGATTATGATGGTGATAGAGACAGAAGGAATGGAAATAGATCAAGTTCT CAATCGCAGGGTAGATTTCAGAATCGATCTAGGTCGCGTTCTCCTTCAAAAAGCAAGCGGAAAAGTGGTTTTGACATGGCTCCATCTATGGTGGGCATGC TTCCTGGTGCTGCAGTGACAGTTAATGATGCTGGGCATCTGCCAAGTGTTCCTCAAACAATGCCAGGAATGATGCAGAACACTTTACAATTTGGAACAAC ACAGTTTGGAGTTCTTCCATTAATGCCTGCCCATGCCATGACCCAGCAGGCTACAAGGCATGCACGGCGTGTATATGTTGGTGGTCTCCCCCCCTTGGCT AACGAACAGACAATCGCAACATTCTTCAGCCATGTTATGACTTCAATTGGAGGAAATGCTGCTGGTCCAGGTGATGCTGTGGTGAATGTATACATAAATC ATGAGAAGAAGTTCGCGTTCGTGGAGATGAGAACTGTAGAAGAAGCAAGCAATGCAATGACATTAGATGGAATTATTTTTGAGGGGGTTGCTGTGAGAGT TCGGAGGCCTACAGACTATAATCCATCATTGGCTGCAACACTAGGTCCTAGTCAACCAAGTCCTCTCCTTAACTTAGCCGCTGTTGGTCTCGTACCAGGT ACAATTAGCGGAGCAGAAGGGCCTGATCGTGTCTTTGTGGGTGGATTGCCATATTACTTTACCGAGACACAGATAAGAGAGCTGCTAGAGTCTTTCGGAC CTCTCCGTGGTTTTGACCTTGTGAAGGACAGAGACACTGGGAACTCTAAAGGATATGGTTTCTGTGTCTATCAGGATCCTGCAGTGACTGATATTGCATG TGCTGCTCTAAATGGCTTGAAAATGGGAGATAAAACTTTAACTGTCCGTCGTGGTACTGAAAGTGGTGGGCAGTCCAGGTCAGAACAGGAAAATATATTA GCTCAAGCTCAGCAACATATAGCTATCCAGAAAATGGCCCTGCAAGCTGGTGTTATGAATCTTCCTGGAGTAGGGATACCATTGGCGGAATCTTCACACT CTCCATCTAAAGTTTTATGCTTAACTGAGGCAATCGCAATGGAAGTACTAGCAGATGATGAAGAGTATGAAGAAATATTAGAAGATATGCGGGAAGAATG TTGTAAATTTGGAACCTTGATCAATGTTGTTATTCCTCGCCCAAGTCAGACTGAAGAGCAAATATCTGGTGCTGGAAAGGTGTTCTTGGAGTATTCCGAT ACCAGTAGCTGTGCAAATGCAAGAAATGCACTAAATGGGAGGAAATTTGGAGGAAATACTGTCAACGCGTCTTATTATCCAGAAGACAAGTATCACAATG GGGATTACGGTTTTTAG
AA sequence Show only first row Show all	>Potri.011G050400.1 pacid=42780412 polypeptide=Potri.011G050400.1.p locus=Potri.011G050400 ID=Potri.011G050400.1.v4.1 annot-version=v4.1 MSSNEAGFDENGDDHTDRVSRYRTHSSRESEHDRSRTRGREKDHDRYHRGSKDGSVRDDRRREKIGDFDRHERSSRDRNYHRNRDYDGDRDRRNGNRSSS QSQGRFQNRSRSRSPSKSKRKSGFDMAPSMVGMLPGAAVTVNDAGHLPSVPQTMPGMMQNTLQFGTTQFGVLPLMPAHAMTQQATRHARRVYVGGLPPLA NEQTIATFFSHVMTSIGGNAAGPGDAVVNVYINHEKKFAFVEMRTVEEASNAMTLDGIIFEGVAVRVRRPTDYNPSLAATLGPSQPSPLLNLAAVGLVPG TISGAEGPDRVFVGGLPYYFTETQIRELLESFGPLRGFDLVKDRDTGNSKGYGFCVYQDPAVTDIACAALNGLKMGDKTLTVRRGTESGGQSRSEQENIL AQAQQHIAIQKMALQAGVMNLPGVGIPLAESSHSPSKVLCLTEAIAMEVLADDEEYEEILEDMREECCKFGTLINVVIPRPSQTEEQISGAGKVFLEYSD TSSCANARNALNGRKFGGNTVNASYYPEDKYHNGDYGF

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DESeq2's median of ratios [POPLAR]

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

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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	NWA:WT	NWB:WT	NWA:OE-ARK2	NWB:OE-ARK2	NWA:miRNA-ARK2	NWB:miRNA-ARK2	NW 0hr	WT H20	WT-NW	TUA1dEY NW	TUA1dEY+TUB15 NW	TUA1dY+TUB9 NW	Pde NW	NWA:WT GA	NWBWT GA	TW:WT	TW:WT GA	NWA:OE-ARK2 GA	NWB:OE-ARK2 GA	TW:OE-ARK2	TW:OE-ARK2 GA	NWA:miRNA-ARK2 GA	NWB:miRNA-ARK2 GA	TW:miRNA-ARK2	TW:miRNA-ARK2 GA	TW 2hr	TW 8hr	TW 24hr	TW 48hr	TW 96hr	TW 336hr	WT ACC	35S::etr1-1 H20	35S::etr1-1 ACC	LMX5::etr1-1 H20	LMX5::etr1-1 ACC	WT-TW	TUA1dEY TW	TUA1dEY+TUB15 TW	TUA1dY+TUB9 TW	Pde TW	OW:WT	OW:WT GA	OW:OE-ARK2	OW:OE-ARK2 GA	OW:miRNA-ARK2	OW:miRNA-ARK2 GA	OW 2hr	OW 8hr	OW 24hr	OW 48hr	OW 96hr	OW 336hr	Root CTR	Root LongCold	Root LongDrougt	Root LongHeat	Root LongSalt	Root ShortCold	Root ShortDrougt	Root ShortHeat	Root ShortSalt	Ptr root	Leaf CTR	Leaf LongCold	Leaf LongDrougt	Leaf LongHeat	Leaf LongSalt	Leaf ShortCold	Leaf ShortDrougt	Leaf ShortHeat	Leaf ShortSalt	Ptr leaf	Stem CTR	Stem LongCold	Stem LongDrougt	Stem LongHeat	Stem LongSalt	Stem ShortCold	Stem ShortDrougt	Stem ShortHeat	Stem ShortSalt	Ptr shoot	Ptr xylem	Ptr phloem	Ptr fiber	Ptr vessel	Ptr fiber vessel ray
AT1G60900			U2 snRNP auxilliary factor, la...		Potri.011G050400 [exp]	0	1
AT3G11397		PRA1.A3	prenylated RAB acceptor 1.A3 (...		Potri.008G060400 [exp]	3.74	0.6938
AT5G06830			unknown protein		Potri.006G059500 [exp]	6.92	0.6412
AT2G23890			HAD-superfamily hydrolase, sub...		Potri.018G100600 [exp]	10.09	0.6770
AT1G07470			Transcription factor IIA, alph...		Potri.009G036700 [exp]	11.95	0.6158
AT3G26618		ERF1-3	eukaryotic release factor 1-3 ...		Potri.001G072000 [exp]	21.77	0.6529	ERF1.6
AT1G49980			DNA/RNA polymerases superfamil...		Potri.001G293600 [exp]	22.91	0.5287
AT3G19770		ATVPS9A	ARABIDOPSIS THALIANA VACUOLAR ...		Potri.019G066200 [exp]	26.22	0.5884
AT3G57650		LPAT2	lysophosphatidyl acyltransfera...		Potri.006G055000 [exp]	30.80	0.5962
AT2G25710		HCS1	holocarboxylase synthase 1 (.1...		Potri.002G087700 [exp]	33.10	0.4962
AT5G46210		CUL4, ATCUL4	cullin4 (.1)		Potri.004G132900 [exp]	35.49	0.5561

Compare expression of checked genes

Potri.011G050400 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.