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 AT5G64200 202 / 2e-63 ATSC35, At-SC35 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) AT5G18810 76 / 6e-16 SCL28, At-SCL28 SC35-like splicing factor 28 (.1) AT3G13570 66 / 3e-12 SCL30A, At-SCL30A SC35-like splicing factor 30A (.1) AT3G10400 66 / 4e-12 U11/U12-31K U11/U12-31K, RNA recognition motif and CCHC-type zinc finger domains containing protein (.1) AT1G55310 64 / 6e-12 ATSCL33, SR33, At-SCL33 SC35-like splicing factor 33 (.1.2.3) AT5G61030 64 / 2e-11 GR-RBP3 glycine-rich RNA-binding protein 3 (.1) AT3G47120 64 / 2e-11 C3HZnF RNA recognition motif (RRM)-containing protein (.1) AT5G06210 61 / 2e-11 RNA binding (RRM/RBD/RNP motifs) family protein (.1) AT1G73530 61 / 3e-11 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) AT3G46020 59 / 3e-11 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.002G095800 [exp] 246 / 1e-81 AT5G64200 204 / 5e-65 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.003G023800 [exp] 206 / 1e-65 AT5G64200 207 / 4e-66 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Potri.010G026100 [exp] 76 / 5e-16 AT5G18810 172 / 2e-53 SC35-like splicing factor 28 (.1) Potri.008G196700 [exp] 72 / 1e-14 AT5G18810 168 / 8e-52 SC35-like splicing factor 28 (.1) Potri.012G061600 [exp] 72 / 2e-14 AT5G61030 181 / 9e-56 glycine-rich RNA-binding protein 3 (.1) Potri.006G197000 [exp] 71 / 4e-14 AT1G55310 187 / 8e-59 SC35-like splicing factor 33 (.1.2.3) Potri.001G006400 [exp] 71 / 5e-14 AT3G13570 170 / 3e-52 SC35-like splicing factor 30A (.1) Potri.010G203200 [exp] 71 / 6e-14 AT3G55460 144 / 1e-41 SC35-like splicing factor 30 (.1) Potri.003G218600 [exp] 70 / 7e-14 AT3G13570 177 / 7e-55 SC35-like splicing factor 30A (.1)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10023802 [exp] 207 / 5e-65 AT5G64200 217 / 1e-68 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Lus10003957 [exp] 205 / 5e-65 AT5G64200 217 / 9e-70 ARABIDOPSIS THALIANA ORTHOLOG OF HUMAN SPLICING FACTOR SC35, ortholog of human splicing factor SC35 (.1.2) Lus10003593 [exp] 69 / 5e-13 AT5G54580 174 / 6e-54 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10014802 [exp] 69 / 7e-13 AT5G54580 176 / 2e-54 RNA-binding (RRM/RBD/RNP motifs) family protein (.1) Lus10002699 [exp] 66 / 3e-12 AT3G55460 138 / 3e-39 SC35-like splicing factor 30 (.1) Lus10029426 [exp] 67 / 4e-12 AT5G27720 190 / 2e-58 SM-like protein 4, embryo defective 1644, Small nuclear ribonucleoprotein family protein (.1) Lus10000953 [exp] 66 / 9e-12 AT2G39670 588 / 0.0 Radical SAM superfamily protein (.1.2) Lus10034685 [exp] 64 / 2e-11 AT5G61030 177 / 7e-54 glycine-rich RNA-binding protein 3 (.1) Lus10017852 [exp] 63 / 2e-11 AT5G61030 178 / 7e-55 glycine-rich RNA-binding protein 3 (.1) Lus10043158 [exp] 61 / 3e-11 AT4G13850 154 / 1e-48 glycine rich protein 2, glycine-rich RNA-binding protein 2 (.1.2.3.4)
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)
Representative CDS sequence Show only first row Show all	>Potri.005G165400.11 pacid=42802309 polypeptide=Potri.005G165400.11.p locus=Potri.005G165400 ID=Potri.005G165400.11.v4.1 annot-version=v4.1 ATGTCGCATTTCGGCCGATCTGGTCCTCCAGATATCAGAGACACCTTTTCTCTCCTCGTTCTCAACATCACTTTCCGAACCACTGCCGACGATCTTTTCC CTCTCTTTGACAAGTACGGCAAGGTAGTCGATGTATTCATACCCCGCGATCGGAGGACTGGAGAATCGAGAGGCTTTGCGTTTGTGAGGTATAAATACGC TGAAGAGGCGCAGAAAGCAGTTGATAGGCTTGATGGGAGAGTTGTAGATGGGAGAGAGATTATGGTGCAATTCGCTAAGTATGGGCCCAACGCTGAGCGA ATTCGGAGTGGGAGGATAGTGGAATCATCTTCAAAGATTAAAGGTAGGTCCAGAAGCCGCAGCCCTCGTCCAAGGTATCGAGATGGCTATAGGGACAAGG ACAAGGATAGGGATTACAGAAGGAGAAGTCGCAGTAGAAGCAAGGATCGTTATGACCGTGATGGGTATCGAGGTAGGGATAGAGATTATCATCCCCGAAG CGTGAGCCACAGCCCAGATCATCGCAAAGAATATGGTAGAGGACATGATGAGAAACGACACCGTCGGAGCCAGTCTCATGGAAGCCCTAATTCTCCAAGG AGCCCTTCTCCACACAGGGCATATCCTAGGGATGGAAGTCCTAATGGACGTAATGATAACAAACACTCACCTAATGGAAGCCCTAATTCTCCAAGGAGCC CTTCTCCACACAGGGCACATCCTAGGGATGGAAGTCCTAATGGATGTAATGATAACAAACGCTCACCTAATGGAAGCCCTAATTCTCCAAGGAGCCCTTC TCCACACAGGGCACATCCTAGGGATGGAAGTCCTAATGGACGCAATGATAACAAACGCTCACCTACTTCAAAGAGTGTCTCACCTTGCAATGAACCAGTT GATTCTTGA
AA sequence Show only first row Show all	>Potri.005G165400.11 pacid=42802309 polypeptide=Potri.005G165400.11.p locus=Potri.005G165400 ID=Potri.005G165400.11.v4.1 annot-version=v4.1 MSHFGRSGPPDIRDTFSLLVLNITFRTTADDLFPLFDKYGKVVDVFIPRDRRTGESRGFAFVRYKYAEEAQKAVDRLDGRVVDGREIMVQFAKYGPNAER IRSGRIVESSSKIKGRSRSRSPRPRYRDGYRDKDKDRDYRRRSRSRSKDRYDRDGYRGRDRDYHPRSVSHSPDHRKEYGRGHDEKRHRRSQSHGSPNSPR SPSPHRAYPRDGSPNGRNDNKHSPNGSPNSPRSPSPHRAHPRDGSPNGCNDNKRSPNGSPNSPRSPSPHRAHPRDGSPNGRNDNKRSPTSKSVSPCNEPV DS

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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
AT5G64200		ATSC35, At-SC35	ARABIDOPSIS THALIANA ORTHOLOG ...		Potri.005G165400 [exp]	0	1
AT5G37930			Protein with RING/U-box and TR...		Potri.017G122800 [exp]	8.83	0.8654
AT5G60390			GTP binding Elongation factor ...		Potri.008G042700 [exp]	13.00	0.8786	Pt-ADR12.2
AT1G10417			unknown protein		Potri.008G190600 [exp]	13.41	0.8640
AT2G34480			Ribosomal protein L18ae/LX fam...		Potri.002G057600 [exp]	19.39	0.8784	RPL18.7
AT1G08130		ATLIG1	DNA ligase 1 (.1)		Potri.009G005900 [exp]	19.74	0.7855
AT4G34110		PABP2, PAB2, AT...	ARABIDOPSIS POLY\(A\) BINDING ...		Potri.001G304000 [exp]	25.69	0.8147
AT1G04170		EIF2 GAMMA, EIF...	eukaryotic translation initiat...		Potri.003G104900 [exp]	26.11	0.8422	EIF2.4
AT1G71840			transducin family protein / WD...		Potri.013G116900 [exp]	30.00	0.8455
AT5G60390			GTP binding Elongation factor ...		Potri.008G043100 [exp]	31.14	0.8454	ADR12.3
AT1G74630			Tetratricopeptide repeat (TPR)...		Potri.005G035900 [exp]	31.41	0.8127

Compare expression of checked genes

Potri.005G165400 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.