Gene detail

Detail information of MD17G1040600 Annotation

Gene ID	Annotation
MD17G1040600	CRM family member 2

Network

Network Category	Global Network	Conditional network (different tissues and developmental stages)
Coexpression Positive	Top300 PCC genelist	Top300 PCC genelist
Coexpression Negative	Top300 PCC genelist	Top300 PCC genelist

Functional module

Method	Module ID	Function Annotation
Co-expression network	CFinderM0637	Group II intron splicing endoribonuclease Dicer [EC:3.1.26.-] tRNA(adenine34) deaminase [EC:3.5.4.33] DCL tRNA-specific adenosine deaminase activity ATP-dependent helicase activity nuclear dicing body Group I intron splicing tRNA wobble adenosine to inosine editing production of lsiRNA involved in RNA interference primary miRNA processing mRNA cleavage involved in gene silencing by miRNA regulation of seed maturation suspensor development

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD17G1040600	mRNA	Chr17	2954781	2960839	-

Sequences

CDS:

MD17G1040600

ATGTCGCCGCCGATGAGTCTCTCTGCAACTCACCTTACCACTTGTCGCTTCCCGCCAAAAACCATAACCGACCACCCATCACTCTCTCCCTTCTTTTCCTTTCCCAGAACCCTCCCCTCCCAAAATCCTAAATCCTCTAAATTCACAATTCGGAGCTCCGCCGCCGACACCAAAACACTTGCGCCCAAGTCTGCCATTCAGAGAATCGCCGAGAAGCTCCGAAGCCTCGGGTTCACCGAGAGCACCCAAAATCCCGACCGGCAACCCGATAAGAAGTCCGCCGGCGAAATCTTTGTTCCGATTCCGGAGAAATTGCCCAAGTACCGGGTCGGGCACACGCTCGATGCAAGCTGGAGCACGCCCGAGAACCCGGTCCCAGAACCGGGCACCGGCGGAGCGATTGCGAGGTTTCATGAGTTGAGGCGGGAGGTGAAGAAGCAGAAGGAATTAGAGAGGGAGGAGAGGAAGGGGAAGGGGGAGGGGAGGGTTCCGACATTGGCGGAGCTGAGCTTGGGGAAGGGTGAGTTGAGGCGGCTGACGACGGTTGGGCTTGGGCTGAGGAAGAAGCTGAAGATTGGGAAGGCTGGGATTACTGAAGGGATTGTGAATGGGATTCACGAGAACTGGCGGCGGTCGGAGGTTGTGAAGATTGTGTGTGAGGATTTGTGTAGGTTGAACATGAAGAGGACTCATGACTTGTTGGAGAGAAAAACTGGAGGGCTGGTTGTCTGGAGGGCTGGAAGTAAGATAATTTTGTATAGGGGGGTGAACTATAAGTATCCATACTTTTTGCGTGACAATGTTCGCAAAGATTCAATGAGTGAGGCTAACTCTATTGCACTACCTGATACACACATCAATGATGGAGGAAATGAGAGTGGTACATCCAGCAAAAATGATGTAAACTCTGCTATAGTACCAAGTACAAGCTATGAACGAGCTCAACCAGCGTTAGTACAAGGTGTTGGTTTGCCAGGTAGAGTTCGGTTTCAACTTCCAGGCGAGGCACAACTTTCAGAAGAAAATGACAGCATGTTAGAGGGACTGGGGCCGCGGTTTACTGATTGGTGGGGTTGTGAACCTCTTCCCATTGATGCTGACCTTCTACCAGCCATTGTTCCTGGATACAGGAAACCTTTCCGCCTTCTTCCCTATGGTCTGAACTCTAAACTAACAGATGATGAAATGACCACAATAAGAAGACTCGGTCGACCCTTACCATGTCATTTTGCATTGGGCAGAAACAGAAATCTTCAGGGTTTGGCCGCTTCCATTGTCAAACTCTGGGAAAAATGTGAGATTGCCAAAATAGCTGTTAAAAGAGGGGTACAGAACACTAACAGCGAGATGATGGCTGAAGAGCTAAAGAGGCTGACTGGAGGAACTCTGCTTGCTCGGGACAGGGAATTTATAGTTTTGTATAGGGGAAAGGATTTTCTGCCACCTGCAGTTTCATCTGCAATAGAAGAACGGAGGAGGCATGCAATACGTGTAGAGCGTAGTACCTCAGTTCCAACTAGACAGGATCTTGAACCCAGGACTGAGCCAGAAAATAAACATGGCTGGATCGATGATCATAAAATGGGGCTTCCATCCGCAAGAAAGCTAAAGTCTACTGAGGCAGCTGTCGATAGGACCAGCATTAAATTGTCCATGGCTTTAGAAAAGAGAGTAAAGGCAGAAAAACTTCTAGCAGATCTGGAGAACGCAGCGACCCCCCAACAACCAGAAATAGATAAAGAAGGTATTACTAAAGAAGAAAGATATATGCTAAGGAAGGTTGGCTTGAGAATGAAGCCTTTCCTACTGATGGGTAGGCGAGGAGTATTTGATGGAACAATTGAAAACATGCATCTTCATTGGAAGTATAGGGAACTCGTTAAGATAATATCTAATGAGAAAAGTATCGAAACTGTTCACCAAGTAGCACAAACCTTAGAGGCAGAAAGTGGTGGGATACTAGTGGCAGTGGAGAGAGTGAGTAAGGGTTATGCAATTATTGTGTATCGCGGAAAAAATTATAGCAGGCCTGCTTCTTTGAGACCTCAGACACTTCTGACTAAAAGAGAAGCAATGAAACGTTCTATTGAGGCACAGCGTCGTGAGTCTTTGAAACTTCATGTTTTAAAGCTTAACGAAAATATAGCTGAATTAAAGCTTCAGTTGGATGAAGACAAGGAATCAGACAATACGCACTCGGTTAATGAATCAAGAACTCAATTGGCTAGAGACAAACAAGAAGCTCATGTGATTCCCATAAGTTTGAATGATGGAGTGGCACCTGTTGTGAACGGTCAATTAGCCACGCAACAAGACAATATGACGAGTTTCTCTCCGACCTGTGACGAGGATGAATCTGGGAGAGTTGAGCCAGGATCTTCAAATGAATCAGTTACAAATGAAGAGGATGAAACTAGTACAGTTGAGACAGGATCTTCAAATGAACCAGTTACATATGAAAGTCGTGCAAGTTCGCTCAAGGATATAAATGGAGAAGTTGAAGGCTTCCCATCTACGTGTTGTCCTGAAGATGTTCTGGCTAGAAACAAACAAGAAGGTCATGCTACTCCCATGAAATTGGAAGATAGAACGGGCACTGTAGTAAATGGTCAAGTAGCCACACAGCAGGATAAAGTCCTTACTTTCTCTTCGATCTGGGGTGAGGATGAAAATGGTAAAGCTGAGCCACCCGTCTCTAAATCTTTCTCGACAAACCGTTTGAGCAGTTCAGCGACTGTGGTCAAACATCGTCGTGATAATGAGGCCAGGGACTCATCACGCAGACCTGGCAATAGTGAATCAGAACCATCAGTCCCAGTACTGGTAAGAAAGAATTTTAATGAGAGGCCCTCAAAGGCGGTTCATCTTTCCAACAATGAGAGGCTTCTTCTGCGAAAACAAGCCCTCAAGATGAAAAACCGCCCTGTGATAGCAGTTGGAAGGAGCAACATTGTAACTGGTGTTGCTAAAACAATCAAGGCACACTTTGAGAAGCACCCTCTTGCCATAGTGAACGTCAAAGGCAGAGCAAAAGGAACTTCGGTCAGGGAAGTTGTTTTCAAACTGGAGCAAGCAACGGGTGCGGTTTTAGTCTCCCAGGAGCCTAGCAAAGTTATACTTTACCGGGGCTGGGGCGCAGGAGACAATCCTCGCCGTAATGGAAGTAACACAGGGAAAATTGCTTCTTCTCAGGGTGCCGTGTCTCCCGAACTCCTGGCGGCAATAAGACTCGAGTGCGGTTTTAAACCTCGCGAGGGCGAAGATGCAGCTGCTTAGGTTGGAATCTTAGCTTGTGCCAGAAGGTACCGCTGGATCATCTATCCCTCGATCATTGCCAATGGTAGAAAGCTTGCACCTACACACACCGTCTACGTAGCAATCACCGAAGCCCATGATCGTCTTAAGAGCGTGAGTAGACTCCGAAACTCCTCGGTTCTTACCTCTTTTGGCATCTCAAATTCGAGGAATTGTGGAGATGATAACTTTGGAATGGTTAACAACCTCCGTACATAGATTGATTTAGTGCTGCAAGAAGAGAAATGCAGGCATTCTGTCGACACTTGACATCCAATGACCGGAAGTTTAACGCTGGAAGTCCAGAGAGCTGGTTGAGTTGAGGTTCTGATTAGGTTTAGTCAAATTGTAAGCTCAGAAGCCATCCTCTGTATCTGTGAATTTTCGAAACATATATAAACATTCATCAAATTTTGATTTTTTTTTTTAGGAATAAAGAGAAAAGAAAAAAGGTTAAAAGTAAATGTATGAAATGATCTTGTGTGTACATTGTAATAGTGTTGACTCTAAAA

Protein:

Gene family

Gene family	Subfamily
--	--

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT3G01370.1	1	ATCFM2;CFM2\|Arabidopsis thaliana CRM family member 2;CRM family member 2
Prunus persica	Prupe.3G278400.1.p	1	CRM family member 2
Pyrus communis	PCP008970.1	1	-
Rosa multiflora	Rmu_sc0012445.1_g000003.1	1	-
Rubus occidentalis	Ro06_G09715	1	-
Fragaria vesca	mrna28342.1	1	CRM family member 2
Vitis vinifera	GSVIVT01032542001	1	CRM family member 2
Solanum lycopersicum	Solyc02g087250.2.1	1	CRM family member 2
Populus trichocarpa	Potri.001G350800.1	1	CRM family member 2
Nicotiana benthamiana	Niben101Scf06280g03012.1	1	"Chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic"
Nicotiana benthamiana	Niben101Scf04797g00025.1	0.827	"Chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic"
Oryza sativa	LOC_Os04g39060.2	1	"CRS1/YhbY domain containing protein, expressed"
Zea mays	GRMZM2G094072_P01	1	CFM2 alternative polyadenylation form 1

Gene Ontology

GO term	Description	Category
GO:0003723	RNA binding	molecular_function

KEGG

KO	Description	Enzyme
--	--	--

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF01985.17	CRS1_YhbY	173	254	8.50E-27
PF01985.17	CRS1_YhbY	391	475	2.00E-20
PF01985.17	CRS1_YhbY	584	670	4.60E-21
PF01985.17	CRS1_YhbY	956	1042	2.00E-12

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	8.36495
SRR5252888	dormant buds	no	dormant buds(0 month)	7.27126
SRR5252889	dormant buds	no	dormant buds(0 month)	5.18727
SRR5252886	dormant buds	no	dormant buds(1 months)	11.1153
SRR5252887	dormant buds	no	dormant buds(1 months)	6.76637
SRR5252884	dormant buds	no	dormant buds(2 months)	14.3488
SRR5252882	dormant buds	no	dormant buds(3 months)	12.7032
SRR5252883	dormant buds	no	dormant buds(3 months)	7.04217
SRR5252880	dormant buds	no	dormant buds(4 months)	9.88524
SRR5252881	dormant buds	no	dormant buds(4 months)	9.91435
SRR5252878	bud break	no	bud break	9.05125
SRR5252879	bud break	no	bud break	7.05028
SRR3744766	flower	no	mature	6.01145
SRR3744767	flower	no	mature	6.41634
SRR3744768	flower	no	mature	6.11226
SRR6308190	stigmas	no	open flowers	2.88738
SRR6308181	styles	no	open flowers	1.71983
SRR6308188	filaments	no	open flowers	0.827649
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	1.80786
SRR6308192	pollen	no	open flowers	6.19955
SRR6308191	petals	no	open flowers	2.36294
SRR6308194	sepals	no	open flowers	4.77
SRR6308193	receptacles	no	open flowers	2.22196
SRR6308189	ovaries	no	open flowers	2.89613
SRR3384922	fruit	no	1 week after full bloom	1.8294
SRR3384921	fruit	no	2 week after full bloom	1.03511
SRR3384920	fruit	no	3 week after full bloom	1.92194
SRR3384919	fruit	no	4 week after full bloom	1.35457
SRR3384923	fruit	no	5 week after full bloom	1.65375
SRR3384918	fruit	no	6 week after full bloom	1.25961
SRR3384917	fruit	no	8 week after full bloom	1.28697
SRR3384916	fruit	no	10 week after full bloom	1.96265
SRR3384915	fruit	no	12 week after full bloom	1.74164
SRR3384914	fruit	no	14 week after full bloom	1.45975
SRR3384913	fruit	no	16 week after full bloom	0.810548
SRR3384912	fruit	no	18 week after full bloom	1.01421
SRR3384911	fruit	no	19 week after full bloom	1.06118
SRR3384910	fruit	no	20 week after full bloom	1.29824
SRR768128	whole fruit	no	25 days post anthesis	3.08579
SRR768129	whole fruit	no	35 days post anthesis	1.12955
SRR768130	whole fruit	no	60 days post anthesis	1.06238
SRR768131	whole fruit	no	87 days post anthesis	1.11257
SRR7343308	immature fruit flesh	no	immature	3.68067
SRR7343309	immature fruit flesh	no	immature	1.83507
SRR6320494	ripe fruit flesh	no	mature	4.01636
SRR5405143	ripe fruit peel	no	mature	3.34393
SRR6320572	ripe fruit peel	no	mature	1.8577
SRR7403504	fruit	uninfected	mature	3.57347
SRR7403506	fruit	uninfected	mature	4.09247
SRR7403507	fruit	uninfected	mature	3.94531
SRR7403500	fruit	infected with penicillium expansum	mature	0.239115
SRR7403501	fruit	infected with penicillium expansum	mature	0.0443551
SRR7403508	fruit	infected with penicillium expansum	mature	0.191851
SRR7403502	fruit	infected with penicillium expansum	mature	0.420266
SRR7403503	fruit	infected with penicillium expansum	mature	0.552239
SRR7403505	fruit	infected with penicillium expansum	mature	0.620495
SRR1613973	Central seeds	no	20DAPF	1.08434
SRR1613974	Central seeds	no	20DAPF	1.01898
SRR1613975	Central seeds	no	20DAPF	1.01722
SRR1613976	Lateral seeds	no	20DAPF	1.20144
SRR1613977	Lateral seeds	no	20DAPF	1.12097
SRR1613978	Lateral seeds	no	20DAPF	1.3957
SRR3744786	stem	no	mature	6.08025
SRR3744787	stem	no	mature	6.16993
SRR3744772	stem	no	mature	6.70324
SRX765691	seedling shoot apex	no	4-6 week old seedling	4.35191
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	3.75246
SRR1089478	leaf	Virus-free	plantlets	3.77334
SRR1089477	leaf	ASGV-infected	plantlets	5.76046
SRR767660	leaf	uninfected	fully developed	5.25605
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	6.33652
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	7.52612
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	1.05246
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	0
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	1.3828
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	2.22983
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	3.47995
SRR6308182	young leaf	no	immature leaves	3.50346
SRR3744769	leaf	no	mature	11.8073
SRR3744770	leaf	no	mature	12.167
SRR3744771	leaf	no	mature	12.9767
SRR5405145	leaf	no	mature	15.6086
SRR6320561	leaf	no	mature	8.65945