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 AT2G17870 85 / 2e-19 ATCSP3 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) AT4G36020 82 / 3e-18 CSDP1 cold shock domain protein 1 (.1) AT2G21060 64 / 2e-12 ATCSP4, ATGRP2B COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) AT4G38680 61 / 3e-11 ATCSP2, CSDP2, GRP2 COLD SHOCK DOMAIN PROTEIN 2, ARABIDOPSIS THALIANA COLD SHOCK PROTEIN 2, glycine rich protein 2 (.1) AT3G53500 47 / 3e-06 RSZ32, RS2Z32, At-RS2Z arginine/serine-rich zinc knuckle-containing protein 32, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.2) AT2G37340 46 / 8e-06 RSZ33, ATRSZ33, RS2Z33, AT-RS2Z33 arginine/serine-rich zinc knuckle-containing protein 33 (.1.2.3) AT3G42860 46 / 9e-06 zinc knuckle (CCHC-type) family protein (.1) AT3G43590 40 / 0.001 zinc knuckle (CCHC-type) 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.007G057100 [exp] 247 / 1e-82 AT4G36020 127 / 3e-35 cold shock domain protein 1 (.1) Potri.004G172600 [exp] 88 / 3e-21 AT2G21060 102 / 3e-27 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Potri.009G132000 [exp] 83 / 3e-19 AT2G21060 103 / 1e-27 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Potri.005G174300 [exp] 66 / 6e-13 AT2G17870 92 / 1e-22 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) Potri.002G086900 [exp] 64 / 2e-12 AT2G17870 89 / 2e-21 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) Potri.006G215200 [exp] 47 / 4e-06 AT2G37340 266 / 6e-89 arginine/serine-rich zinc knuckle-containing protein 33 (.1.2.3) Potri.016G081700 [exp] 47 / 4e-06 AT2G37340 268 / 2e-89 arginine/serine-rich zinc knuckle-containing protein 33 (.1.2.3) Potri.001G318100 [exp] 40 / 0.0008 AT3G42860 211 / 8e-66 zinc knuckle (CCHC-type) family protein (.1) Potri.005G234700 [exp] 40 / 0.001 AT1G75560 278 / 2e-94 zinc knuckle (CCHC-type) family protein (.1), zinc knuckle (CCHC-type) 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 Lus10041902 [exp] 174 / 7e-54 AT4G36020 159 / 2e-47 cold shock domain protein 1 (.1) Lus10028449 [exp] 170 / 3e-52 AT4G36020 158 / 3e-47 cold shock domain protein 1 (.1) Lus10025058 [exp] 75 / 1e-17 AT2G21060 112 / 6e-33 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Lus10005066 [exp] 70 / 6e-15 AT2G17870 122 / 1e-35 ARABIDOPSIS COLD SHOCK DOMAIN PROTEIN 3, cold shock domain protein 3 (.1) Lus10027839 [exp] 70 / 8e-15 AT2G21060 110 / 6e-31 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Lus10028073 [exp] 66 / 6e-13 AT4G36020 115 / 3e-31 cold shock domain protein 1 (.1) Lus10034487 [exp] 64 / 1e-12 AT2G21060 110 / 7e-31 COLD SHOCK DOMAIN PROTEIN 4, glycine-rich protein 2B (.1) Lus10025623 [exp] 62 / 6e-12 ND 81 / 8e-20 Lus10003987 [exp] 45 / 2e-05 AT3G53500 255 / 2e-84 arginine/serine-rich zinc knuckle-containing protein 32, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.2) Lus10015039 [exp] 45 / 2e-05 AT3G53500 256 / 8e-85 arginine/serine-rich zinc knuckle-containing protein 32, RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.1), RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain (.2)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0511 [poplar] [flax] Retroviral_zf PF00098 [poplar] [flax] zf-CCHC Zinc knuckle CL0021 [poplar] [flax] OB PF00313 [poplar] [flax] CSD 'Cold-shock' DNA-binding domain
Representative CDS sequence Show only first row Show all	>Potri.005G112800.1 pacid=42805109 polypeptide=Potri.005G112800.1.p locus=Potri.005G112800 ID=Potri.005G112800.1.v4.1 annot-version=v4.1 ATGGCGGAGGAGCAAGTGGCGGCGACCAAGGAGGAGAGATCGACCGGCAGGGTGGTTCGTTTCAGCGACAAGAAAGGATTTGGATTCATCAAACCTGATG CCGGCGACAAAGATCTCTTCGTTCACCACTCCGCCATCAAATCCGACGGTGGATACCGTACTCTTTACGAAGACGACGTCGTCGAGTTCACCATTCTACT GAACGACGACAAGTACCAAGCGGTTGACGTCACTGCCCCCGGTGGCGGACCTATAAAACGCCGCACTACCTTCTCCGGTGGATTCAACCGCCGCAACAGC AATACCAATGGTGGTGGCTGCTTCAATTGTGGGAATCCTGGCCACATAGCTAGGGAGTGCAACAATAACAGTAGTAAGAGTTACAATTACAATAATAATA ACAATCGCACCGGCGGCGGCGGCGGCGATTTTGGTTGCTACAAGTGTGGGAACAGTGGGCATTTTGCGAGGGAGTGTACGAAGGGGAATAATAATAATGG GTGTTACAGTTGTGGAGGGTTTGGACATGTTGCGAGGGACTGCCCGGGCGGGAGTGGAGCTTGTTATAACTGCGGTGGGCATGGACATTTGGCTAGGGAT TGCACCAGTGCGAGAGGAAGTGGTGGAGGAAGGTTTGGTAGTGGTAATACCGGCGGGTGTTTTAATTGTGGGAAGGATGGGCATTTTGCTAGGGATTGTC CTGAATGA
AA sequence Show only first row Show all	>Potri.005G112800.1 pacid=42805109 polypeptide=Potri.005G112800.1.p locus=Potri.005G112800 ID=Potri.005G112800.1.v4.1 annot-version=v4.1 MAEEQVAATKEERSTGRVVRFSDKKGFGFIKPDAGDKDLFVHHSAIKSDGGYRTLYEDDVVEFTILLNDDKYQAVDVTAPGGGPIKRRTTFSGGFNRRNS NTNGGGCFNCGNPGHIARECNNNSSKSYNYNNNNNRTGGGGGDFGCYKCGNSGHFARECTKGNNNNGCYSCGGFGHVARDCPGGSGACYNCGGHGHLARD CTSARGSGGGRFGSGNTGGCFNCGKDGHFARDCPE

---

DESeq2's median of ratios [POPLAR]

Mapped by: StringTie Salmon 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	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
AT2G17870		ATCSP3	ARABIDOPSIS COLD SHOCK DOMAIN ...		Potri.005G112800 [exp]	0	1
AT5G04990		ATSUN1	ARABIDOPSIS SAD1/UNC-84 DOMAIN...		Potri.010G247900 [exp]	4.47	0.8357
AT4G25340		ATFKBP53	FK506 BINDING PROTEIN 53 (.1.2...		Potri.015G130900 [exp]	4.58	0.8248
AT1G06530		PMD2	peroxisomal and mitochondrial ...		Potri.002G060200 [exp]	4.69	0.8571
AT3G59990		MAP2B	methionine aminopeptidase 2B (...		Potri.004G084800 [exp]	7.81	0.7326	Pt-MAP2.2
AT1G61730	GeBP		DNA-binding storekeeper protei...		Potri.007G119800 [exp]	8.24	0.8204
AT2G21290			unknown protein		Potri.004G163100 [exp]	12.24	0.8011
AT4G36520			Chaperone DnaJ-domain superfam...		Potri.002G033800 [exp]	14.24	0.7975	AUL1.3
AT5G67100		ICU2	INCURVATA2, DNA-directed DNA p...		Potri.007G045300 [exp]	18.43	0.7738
					Potri.012G074300 [exp]	23.23	0.7778
AT1G55460	C2H2ZnF		DNA/RNA-binding protein Kin17,...		Potri.010G204900 [exp]	23.45	0.7651

Compare expression of checked genes

Potri.005G112800 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.