AlfalfaGEDB | Msa0309870

M. sativa cultivar zhongmu-4 / Msa0309870

KEGG: K19600
GO: GO:0003674 GO:0003700 GO:0005488 GO:0005543 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005886 GO:0006355 GO:0008150 GO:0008289 GO:0009536 GO:0009605 GO:0009607 GO:0009620 GO:0009889 GO:0010468 GO:0010556 GO:0016020 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0035091 GO:0043167 GO:0043168 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0071944 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00646.36

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0309870	XP_003593111.1	99.532	427	2	0	1	427	1	427	0.0	885

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Swissprot:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0309870	sp\|Q75HX5\|TLP8_ORYSJ	76.286	447	84	11	1	427	1	445	0.0	632

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Trembl:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
No data available in table

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TFs/TRs:

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Gene ID	Type	Classification
Msa0309870	TF	TUB

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
No data available in table

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PPI

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Gene1	Gene2	Type
No data available in table

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0309870	MtrunA17_Chr2g0278511	99.532	427	2	0	1	427	1	427	0.0	885
Msa0309870	MtrunA17_Chr1g0201891	80.000	435	75	5	1	427	1	431	0.0	690
Msa0309870	MtrunA17_Chr5g0404321	55.300	434	169	12	1	427	1	416	5.04e-156	447
Msa0309870	MtrunA17_Chr2g0286441	58.005	381	137	6	49	427	34	393	1.79e-154	442
Msa0309870	MtrunA17_Chr1g0196071	53.241	432	167	10	1	427	1	402	5.30e-154	441
Msa0309870	MtrunA17_Chr8g0373001	52.558	430	183	8	1	427	1	412	2.04e-148	427
Msa0309870	MtrunA17_Chr1g0155301	49.777	448	178	9	1	427	1	422	1.42e-141	410
Msa0309870	MtrunA17_Chr2g0315641	48.404	376	146	9	54	427	42	371	5.34e-116	343
Msa0309870	MtrunA17_Chr2g0315651	42.895	380	162	12	54	427	37	367	1.14e-92	284
Msa0309870	MtrunA17_Chr8g0373361	42.558	430	190	15	15	420	9	405	1.52e-91	282

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0309870	AT1G25280.1	72.931	447	99	11	1	427	1	445	0.0	610
Msa0309870	AT1G76900.2	70.282	461	97	10	1	427	1	455	0.0	608
Msa0309870	AT1G76900.1	70.282	461	97	10	1	427	1	455	0.0	608
Msa0309870	AT1G76900.3	70.282	461	97	10	1	427	1	455	0.0	608
Msa0309870	AT1G43640.1	68.552	442	111	7	1	427	1	429	0.0	605
Msa0309870	AT1G43640.2	70.400	375	86	5	66	427	1	363	0.0	535
Msa0309870	AT2G47900.2	55.093	432	163	7	1	427	1	406	4.30e-167	475
Msa0309870	AT2G47900.1	55.093	432	163	7	1	427	1	406	4.30e-167	475
Msa0309870	AT2G47900.3	54.965	433	163	8	1	427	1	407	1.39e-165	471
Msa0309870	AT2G18280.2	52.765	434	157	9	1	427	1	393	5.49e-146	421

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Find 135 sgRNAs with CRISPR-Local

Find 239 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACTATTCACAAGCCAACT+TGG	0.491824	2_4:+4653528	None:intergenic
AAAGCTTGGAATGCAGATAA+AGG	0.399095	2_4:+4653577	None:intergenic
AAAGTCTCATGGTTCTGTAC+AGG	0.510601	2_4:-4655865	Msa0309870:CDS
AAAGTGAACTAATCAAACTT+TGG	0.428598	2_4:-4653479	Msa0309870:three_prime_UTR
AACTAATCAAACTTTGGTGA+TGG	0.552884	2_4:-4653473	Msa0309870:three_prime_UTR
AAGCAACCAGTACAAGCATA+TGG	0.500780	2_4:+4656041	None:intergenic
AAGCAGCTTTGACACCAAGT+TGG	0.560190	2_4:-4653542	Msa0309870:CDS
AATTACTATTTGATGTCATT+CGG	0.424860	2_4:-4655785	Msa0309870:CDS
AATTCAGCACTTGATGCCGG+CGG	0.675089	2_4:-4653994	Msa0309870:CDS
AATTCCTCCTTTCTGCTAAG+AGG	0.453202	2_4:-4654794	Msa0309870:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AGCAGAATGATAAAAGCTTT+AGG	+	chr2_4:4653503-4653522	None:intergenic	30.0%
TTGTAATTCAAAATAGCTGC+TGG	-	chr2_4:4654580-4654599	Msa0309870:intron	30.0%
TGTAATTCAAAATAGCTGCT+GGG	-	chr2_4:4654581-4654600	Msa0309870:intron	30.0%
TGACATCAAATAGTAATTCC+GGG	+	chr2_4:4654617-4654636	None:intergenic	30.0%
TGAAATAACATACTCAGTGT+AGG	+	chr2_4:4655649-4655668	None:intergenic	30.0%
ATACTTACATTGGAAAACTG+AGG	-	chr2_4:4655700-4655719	Msa0309870:CDS	30.0%
TTAACATAGTAGATGAGAGA+AGG	+	chr2_4:4655752-4655771	None:intergenic	30.0%
CTGAAATTCATTGCAACTTT+AGG	+	chr2_4:4655889-4655908	None:intergenic	30.0%
AAGTTGCAATGAATTTCAGT+TGG	-	chr2_4:4655890-4655909	Msa0309870:CDS	30.0%
GAAGATATGAATAGCAAACA+AGG	+	chr2_4:4656075-4656094	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	4653432	4656994	4653432	ID=Msa0309870;Name=Msa0309870
chr2_4	mRNA	4653432	4656994	4653432	ID=Msa0309870-mRNA-1;Parent=Msa0309870;Name=Msa0309870-mRNA-1;_AED=0.05;_eAED=0.05;_QI=309\|1\|1\|1\|0.6\|0.5\|6\|99\|427
chr2_4	exon	4653432	4654242	4653432	ID=Msa0309870-mRNA-1:exon:1595;Parent=Msa0309870-mRNA-1
chr2_4	exon	4654705	4654837	4654705	ID=Msa0309870-mRNA-1:exon:1594;Parent=Msa0309870-mRNA-1
chr2_4	exon	4655414	4655501	4655414	ID=Msa0309870-mRNA-1:exon:1593;Parent=Msa0309870-mRNA-1
chr2_4	exon	4655635	4656063	4655635	ID=Msa0309870-mRNA-1:exon:1592;Parent=Msa0309870-mRNA-1
chr2_4	exon	4656595	4656662	4656595	ID=Msa0309870-mRNA-1:exon:1591;Parent=Msa0309870-mRNA-1
chr2_4	exon	4656832	4656994	4656832	ID=Msa0309870-mRNA-1:exon:1590;Parent=Msa0309870-mRNA-1
chr2_4	five_prime_UTR	4656832	4656994	4656832	ID=Msa0309870-mRNA-1:five_prime_utr;Parent=Msa0309870-mRNA-1
chr2_4	five_prime_UTR	4656595	4656662	4656595	ID=Msa0309870-mRNA-1:five_prime_utr;Parent=Msa0309870-mRNA-1
chr2_4	five_prime_UTR	4655986	4656063	4655986	ID=Msa0309870-mRNA-1:five_prime_utr;Parent=Msa0309870-mRNA-1
chr2_4	CDS	4655635	4655985	4655635	ID=Msa0309870-mRNA-1:cds;Parent=Msa0309870-mRNA-1
chr2_4	CDS	4655414	4655501	4655414	ID=Msa0309870-mRNA-1:cds;Parent=Msa0309870-mRNA-1
chr2_4	CDS	4654705	4654837	4654705	ID=Msa0309870-mRNA-1:cds;Parent=Msa0309870-mRNA-1
chr2_4	CDS	4653531	4654242	4653531	ID=Msa0309870-mRNA-1:cds;Parent=Msa0309870-mRNA-1
chr2_4	three_prime_UTR	4653432	4653530	4653432	ID=Msa0309870-mRNA-1:three_prime_utr;Parent=Msa0309870-mRNA-1

Gene Sequence

>Msa0309870

ATGTCTTTCCGTAGCATAGTTCGTGACGTTCGTGATAGTTTTGGGAGCTTATCTAGGCGTAGTTTTGATGTCAAACTTACTGGCCATCATCATAGAGGAAAGTCTCATGGTTCTGTACAGGATTTGCATGATCAGCCTCTTGTAATTCAAAATAGCTGCTGGGCGAACTTGCCCCCGGAATTACTATTTGATGTCATTCGGCGACTAGAGGAGAGTGAGAATACATGGCCTTCAAGAAAGCATGTAGTTGCATGTGCTTCTGTTTGCCAGTCTTGGAGGAATATGTGCAAGGACATCGTTAAGAGCCCAGAGTTCTGTGGCAAACTTACGTTCCCTGTGTCCCTGAAGCAGCCAGGGCCACGAGACGGAATCATTCAATGCTTTATCAAAAGAGATAAATCTAACTTAACATACCACCTATTCCTTTGTCTGAGCCCTGCTTTGTTGGTTGAAAATGGAAAATTCCTCCTTTCTGCTAAGAGGACCAGGAGAACAACCTACACTGAGTATGTTATTTCAATGGATGCTGACAACATCTCTAGATCAAGTAATACTTACATTGGAAAACTGAGATCAAACTTTCTTGGAACAAAATTCATCATATATGATACACAGCCTCCCTGCACTTCTGGCCATATATGTCCTCCAGGGACTGGGAAGACGAGCCGTAGATTTTCTAAAAAGGTATCGCCAAAGGTCCCATCTGGGAGTTACAACATAGCTCAGGTAACATATGAACTAAATGTGCTCGGAACTCGAGGCCCAAGGAAGATGCATTGCATTATGCATTCAATACCAAATTCAGCACTTGATGCCGGCGGCTCCGTTCCTGGACAGCCAGAGCTAATTCACCGTTCCCTAGAGGACTCATTCCGGAGCATCTCATTTTCGAAGTCTCTAGATCATTCCATCGAGTTCAGCAGTGCACGGTTTTCTGAGATTGGGGGATCCTGTAATGAGGATGATGACGGCAAGATGAGACCTTTGGTTCTGAAAAACAAGCCTCCAAGATGGCATGAACAATTACAGTGCTGGTGCCTTAATTTTCGGGGACGAGTAACTGTTGCATCTGTTAAAAACTTTCAGCTGATTGCTTCCACCCAACCACCTGCTGGGGCGCCGACACCATCTCAACCAGCACCACCGGAACATGATAAGATTATTCTGCAATTCGGCAAAGTTGGGAAAGATATGTTCACCATGGATTATCGATATCCTTTATCTGCATTCCAAGCTTTTGCAATATGCTTAAGCAGCTTTGACACCAAGTTGGCTTGTGAATAG

Protein sequence

>Msa0309870

MSFRSIVRDVRDSFGSLSRRSFDVKLTGHHHRGKSHGSVQDLHDQPLVIQNSCWANLPPELLFDVIRRLEESENTWPSRKHVVACASVCQSWRNMCKDIVKSPEFCGKLTFPVSLKQPGPRDGIIQCFIKRDKSNLTYHLFLCLSPALLVENGKFLLSAKRTRRTTYTEYVISMDADNISRSSNTYIGKLRSNFLGTKFIIYDTQPPCTSGHICPPGTGKTSRRFSKKVSPKVPSGSYNIAQVTYELNVLGTRGPRKMHCIMHSIPNSALDAGGSVPGQPELIHRSLEDSFRSISFSKSLDHSIEFSSARFSEIGGSCNEDDDGKMRPLVLKNKPPRWHEQLQCWCLNFRGRVTVASVKNFQLIASTQPPAGAPTPSQPAPPEHDKIILQFGKVGKDMFTMDYRYPLSAFQAFAICLSSFDTKLACE*