AlfalfaGEDB | Msa0132440

M. sativa cultivar zhongmu-4 / Msa0132440

KEGG: -
GO: -
PFAM: -

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0132440	G7IBX7	94.565	184	10	0	1	184	1	184	7.92e-125	358

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0043660	Msa0132440	0.817421	3.327209e-52	-8.615850e-47
Msa0047160	Msa0132440	0.811785	5.883777e-51	-8.615850e-47
Msa0086180	Msa0132440	0.885518	7.587856e-72	-8.615850e-47
Msa0132440	Msa0146770	0.815518	8.874987e-52	-8.615850e-47
Msa0132440	Msa0182030	0.800812	1.208833e-48	-8.615850e-47
Msa0132440	Msa0189300	0.818275	2.134288e-52	-8.615850e-47
Msa0132440	Msa0231660	0.831732	1.413204e-55	-8.615850e-47
Msa0132440	Msa0387910	0.812221	4.727791e-51	-8.615850e-47
Msa0132440	Msa0605000	0.821290	4.368944e-53	-8.615850e-47
Msa0132440	Msa0618930	0.802767	4.798165e-49	-8.615850e-47
Msa0132440	Msa0719420	0.845455	4.017605e-59	-8.615850e-47
Msa0132440	Msa0772480	0.823381	1.428427e-53	-8.615850e-47
Msa0132440	Msa0789680	0.848105	7.576711e-60	-8.615850e-47
Msa0132440	Msa0798440	0.826881	2.126871e-54	-8.615850e-47
Msa0132440	Msa0802410	0.846284	2.392784e-59	-8.615850e-47
Msa0132440	Msa0819060	0.812871	3.409087e-51	-8.615850e-47
Msa0132440	Msa0830540	0.801793	7.612856e-49	-8.615850e-47
Msa0132440	Msa0925770	0.817367	3.420819e-52	-8.615850e-47
Msa0132440	Msa1108820	0.801230	9.931553e-49	-8.615850e-47
Msa0132440	Msa1265630	0.806117	9.612540e-50	-8.615850e-47
Msa0132440	Msa1355700	0.810708	1.007784e-50	-8.615850e-47

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0132440	MtrunA17_Chr1g0201701	94.565	184	10	0	1	184	1	184	1.52e-128	358

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0132440	AT5G09270.1	55.789	95	37	2	90	184	19	108	4.28e-31	109
Msa0132440	AT5G09270.2	55.789	95	37	2	90	184	19	108	4.28e-31	109

Find 52 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CCCTCCTGCTGCAGGCTTTA+TGG	0.092653	1_3:+63511473	Msa0132440:CDS
CTCTTCTGCTACGGGCTTTA+TGG	0.095185	1_3:+63511302	Msa0132440:CDS
TATATGGCGGATTTGGTCTT+TGG	0.234560	1_3:+63511574	Msa0132440:CDS
ATTCTTGTATATGGCGGATT+TGG	0.303440	1_3:+63511567	Msa0132440:CDS
ATAGATATAGAAAGCTTCTT+AGG	0.309898	1_3:+63511604	Msa0132440:CDS
GGTTCCTATATTCTTGTATA+TGG	0.337081	1_3:+63511558	Msa0132440:CDS
TTCTGCCAAAGTGGTTGAAA+AGG	0.353945	1_3:+63511713	Msa0132440:CDS
CTTGGTCCTCACCAGTTTCC+AGG	0.356142	1_3:-63511440	None:intergenic
TGCAGGCTTTATGGATTCAT+TGG	0.369416	1_3:+63511482	Msa0132440:CDS
CAGAAACTTATCCTTATGTA+TGG	0.372733	1_3:+63511535	Msa0132440:CDS
TGGATAAGTGCTTCAGAACT+TGG	0.383586	1_3:-63511249	None:intergenic
TTATGGATTCATTGGAAAAT+CGG	0.384322	1_3:+63511490	Msa0132440:CDS
TGATTTGCCATGTCCTTGGC+TGG	0.408407	1_3:-63511372	None:intergenic
AAGAAGCTTTCTATATCTAT+AGG	0.413891	1_3:-63511601	None:intergenic
GTCGGTGCCCCTCCTGCTGC+AGG	0.419080	1_3:+63511465	Msa0132440:CDS
CAGGAGGGGCACCGACTACT+TGG	0.421600	1_3:-63511458	None:intergenic
AAGTTCTGCAGCACCTATCC+TGG	0.422828	1_3:+63511422	Msa0132440:CDS
AGGATAGGTGCTGCAGAACT+TGG	0.446859	1_3:-63511420	None:intergenic
AGTCGGTGGCTCTTCTGCTA+CGG	0.454743	1_3:+63511293	Msa0132440:CDS
GCAGCACCTATCCTGGAAAC+TGG	0.465240	1_3:+63511429	Msa0132440:CDS
GAAGCACTTATCCAGAAAAC+TGG	0.468163	1_3:+63511258	Msa0132440:CDS
GTCGGTGGCTCTTCTGCTAC+GGG	0.474768	1_3:+63511294	Msa0132440:CDS
TCCGCCATATACAAGAATAT+AGG	0.486205	1_3:-63511562	None:intergenic
TGGTTGATTTGCCATGTCCT+TGG	0.486730	1_3:-63511376	None:intergenic
ACTACGTGAGATGGTTGAAA+AGG	0.493284	1_3:+63511659	Msa0132440:CDS
AGCTTCTTAGGACAGAGGAC+AGG	0.494425	1_3:+63511616	Msa0132440:CDS
AGAAACTTATCCTTATGTAT+GGG	0.501079	1_3:+63511536	Msa0132440:CDS
TTCTAATAATTCTGCCAAAG+TGG	0.501415	1_3:+63511704	Msa0132440:CDS
TCTGCCAAAGTGGTTGAAAA+GGG	0.502981	1_3:+63511714	Msa0132440:CDS
ATATAGGAACCCCATACATA+AGG	0.508413	1_3:-63511546	None:intergenic
TCCTATATTCTTGTATATGG+CGG	0.519420	1_3:+63511561	Msa0132440:CDS
ATGTTGCAATGTAGGCTACT+TGG	0.523428	1_3:-63511760	None:intergenic
CATAAAGCCTGCAGCAGGAG+GGG	0.525453	1_3:-63511472	None:intergenic
TCCTCACCAGTTTCCAGGAT+AGG	0.526596	1_3:-63511435	None:intergenic
TCCATAAAGCCTGCAGCAGG+AGG	0.530529	1_3:-63511474	None:intergenic
TTAGGACAGAGGACAGGGTA+CGG	0.537011	1_3:+63511622	Msa0132440:CDS
GAATCCATAAAGCCTGCAGC+AGG	0.543830	1_3:-63511477	None:intergenic
TAGGACAGAGGACAGGGTAC+GGG	0.558112	1_3:+63511623	Msa0132440:CDS
GGAAGGAATCTCAGAAGATG+TGG	0.565631	1_3:-63511739	None:intergenic
GAAACTTATCCTTATGTATG+GGG	0.570070	1_3:+63511537	Msa0132440:CDS
TCAAGCAAGACTACGTGAGA+TGG	0.592566	1_3:+63511650	Msa0132440:CDS
CCATAAAGCCTGCAGCAGGA+GGG	0.618716	1_3:-63511473	None:intergenic
TAGCTGGAACACTCCAGCCA+AGG	0.621030	1_3:+63511359	Msa0132440:CDS
GAACACTCCAGCCAAGGACA+TGG	0.636957	1_3:+63511365	Msa0132440:CDS
GCTTCTTAGGACAGAGGACA+GGG	0.639564	1_3:+63511617	Msa0132440:CDS
ACCTATCCTGGAAACTGGTG+AGG	0.641675	1_3:+63511434	Msa0132440:CDS
TGCAATGTAGGCTACTTGGA+AGG	0.646398	1_3:-63511756	None:intergenic
ACTGGCGAGGATCAAGTAGT+CGG	0.654403	1_3:+63511276	Msa0132440:CDS
TAGAAAGCTTCTTAGGACAG+AGG	0.663471	1_3:+63511611	Msa0132440:CDS
ACTGGTGAGGACCAAGTAGT+CGG	0.664340	1_3:+63511447	Msa0132440:CDS
GGCGAGGATCAAGTAGTCGG+TGG	0.665719	1_3:+63511279	Msa0132440:CDS
ACTTATCCAGAAAACTGGCG+AGG	0.696112	1_3:+63511263	Msa0132440:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	TTATGGATTCATTGAAAAAT+CGG	+	chr1_3:63511319-63511338	Msa0132440:CDS	20.0%
!	ATCAAAAAATCATAGATAGC+TGG	+	chr1_3:63511343-63511362	Msa0132440:CDS	25.0%
!	TTATGGATTCATTGGAAAAT+CGG	+	chr1_3:63511490-63511509	Msa0132440:CDS	25.0%
!	AGAAACTTATCCTTATGTAT+GGG	+	chr1_3:63511536-63511555	Msa0132440:CDS	25.0%
!	AAGAAGCTTTCTATATCTAT+AGG	-	chr1_3:63511604-63511623	None:intergenic	25.0%
!	ATAGATATAGAAAGCTTCTT+AGG	+	chr1_3:63511604-63511623	Msa0132440:CDS	25.0%
!!!	GCTTGTTGCTTTTCATTATT+TGG	-	chr1_3:63511399-63511418	None:intergenic	30.0%
	CAGAAACTTATCCTTATGTA+TGG	+	chr1_3:63511535-63511554	Msa0132440:CDS	30.0%
	GAAACTTATCCTTATGTATG+GGG	+	chr1_3:63511537-63511556	Msa0132440:CDS	30.0%
	GGTTCCTATATTCTTGTATA+TGG	+	chr1_3:63511558-63511577	Msa0132440:CDS	30.0%
	TCCTATATTCTTGTATATGG+CGG	+	chr1_3:63511561-63511580	Msa0132440:CDS	30.0%
	TTCTAATAATTCTGCCAAAG+TGG	+	chr1_3:63511704-63511723	Msa0132440:CDS	30.0%
!!!	GCTTGCTGCTTTTCATTATT+TGG	-	chr1_3:63511228-63511247	None:intergenic	35.0%
	ATATAGGAACCCCATACATA+AGG	-	chr1_3:63511549-63511568	None:intergenic	35.0%
	TCCGCCATATACAAGAATAT+AGG	-	chr1_3:63511565-63511584	None:intergenic	35.0%
!!	ATTCTTGTATATGGCGGATT+TGG	+	chr1_3:63511567-63511586	Msa0132440:CDS	35.0%
	TGGATAAGTGCTTCAGAACT+TGG	-	chr1_3:63511252-63511271	None:intergenic	40.0%
!	GAAGCACTTATCCAGAAAAC+TGG	+	chr1_3:63511258-63511277	Msa0132440:CDS	40.0%
!	TGCAGGCTTTATGGATTCAT+TGG	+	chr1_3:63511482-63511501	Msa0132440:CDS	40.0%
!!	TATATGGCGGATTTGGTCTT+TGG	+	chr1_3:63511574-63511593	Msa0132440:CDS	40.0%
	TAGAAAGCTTCTTAGGACAG+AGG	+	chr1_3:63511611-63511630	Msa0132440:CDS	40.0%
	ACTACGTGAGATGGTTGAAA+AGG	+	chr1_3:63511659-63511678	Msa0132440:CDS	40.0%
	TTCTGCCAAAGTGGTTGAAA+AGG	+	chr1_3:63511713-63511732	Msa0132440:CDS	40.0%
	TCTGCCAAAGTGGTTGAAAA+GGG	+	chr1_3:63511714-63511733	Msa0132440:CDS	40.0%
	ACTTATCCAGAAAACTGGCG+AGG	+	chr1_3:63511263-63511282	Msa0132440:CDS	45.0%
!!	TGGTTGATTTGCCATGTCCT+TGG	-	chr1_3:63511379-63511398	None:intergenic	45.0%
	TCAAGCAAGACTACGTGAGA+TGG	+	chr1_3:63511650-63511669	Msa0132440:CDS	45.0%
!	GGAACCCTTTTCAACCACTT+TGG	-	chr1_3:63511721-63511740	None:intergenic	45.0%
	GGAAGGAATCTCAGAAGATG+TGG	-	chr1_3:63511742-63511761	None:intergenic	45.0%
!	CTTGATCCTCGCCAGTTTTC+TGG	-	chr1_3:63511272-63511291	None:intergenic	50.0%
	ACTGGCGAGGATCAAGTAGT+CGG	+	chr1_3:63511276-63511295	Msa0132440:CDS	50.0%
	CTCTTCTGCTACGGGCTTTA+TGG	+	chr1_3:63511302-63511321	Msa0132440:CDS	50.0%
!	TGATTTGCCATGTCCTTGGC+TGG	-	chr1_3:63511375-63511394	None:intergenic	50.0%
!	AGGATAGGTGCTGCAGAACT+TGG	-	chr1_3:63511423-63511442	None:intergenic	50.0%
	AAGTTCTGCAGCACCTATCC+TGG	+	chr1_3:63511422-63511441	Msa0132440:CDS	50.0%
	ACCTATCCTGGAAACTGGTG+AGG	+	chr1_3:63511434-63511453	Msa0132440:CDS	50.0%
	TCCTCACCAGTTTCCAGGAT+AGG	-	chr1_3:63511438-63511457	None:intergenic	50.0%
	ACTGGTGAGGACCAAGTAGT+CGG	+	chr1_3:63511447-63511466	Msa0132440:CDS	50.0%
	GAATCCATAAAGCCTGCAGC+AGG	-	chr1_3:63511480-63511499	None:intergenic	50.0%
	AGCTTCTTAGGACAGAGGAC+AGG	+	chr1_3:63511616-63511635	Msa0132440:CDS	50.0%
	GCTTCTTAGGACAGAGGACA+GGG	+	chr1_3:63511617-63511636	Msa0132440:CDS	50.0%
	TTAGGACAGAGGACAGGGTA+CGG	+	chr1_3:63511622-63511641	Msa0132440:CDS	50.0%
	AGTCGGTGGCTCTTCTGCTA+CGG	+	chr1_3:63511293-63511312	Msa0132440:CDS	55.0%
	TAGCTGGAACACTCCAGCCA+AGG	+	chr1_3:63511359-63511378	Msa0132440:CDS	55.0%
	GAACACTCCAGCCAAGGACA+TGG	+	chr1_3:63511365-63511384	Msa0132440:CDS	55.0%
	GCAGCACCTATCCTGGAAAC+TGG	+	chr1_3:63511429-63511448	Msa0132440:CDS	55.0%
	CTTGGTCCTCACCAGTTTCC+AGG	-	chr1_3:63511443-63511462	None:intergenic	55.0%
	CATAAAGCCTGCAGCAGGAG+GGG	-	chr1_3:63511475-63511494	None:intergenic	55.0%
	CCATAAAGCCTGCAGCAGGA+GGG	-	chr1_3:63511476-63511495	None:intergenic	55.0%
	TCCATAAAGCCTGCAGCAGG+AGG	-	chr1_3:63511477-63511496	None:intergenic	55.0%
	TAGGACAGAGGACAGGGTAC+GGG	+	chr1_3:63511623-63511642	Msa0132440:CDS	55.0%
	GGCGAGGATCAAGTAGTCGG+TGG	+	chr1_3:63511279-63511298	Msa0132440:CDS	60.0%
	GTCGGTGGCTCTTCTGCTAC+GGG	+	chr1_3:63511294-63511313	Msa0132440:CDS	60.0%
	CCCTCCTGCTGCAGGCTTTA+TGG	+	chr1_3:63511473-63511492	Msa0132440:CDS	60.0%
!!	CAGGAGGGGCACCGACTACT+TGG	-	chr1_3:63511461-63511480	None:intergenic	65.0%
!	GTCGGTGCCCCTCCTGCTGC+AGG	+	chr1_3:63511465-63511484	Msa0132440:CDS	75.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_3	gene	63511213	63511767	63511213	ID=Msa0132440;Name=Msa0132440
chr1_3	mRNA	63511213	63511767	63511213	ID=Msa0132440-mRNA-1;Parent=Msa0132440;Name=Msa0132440-mRNA-1;_AED=0.21;_eAED=0.21;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|184
chr1_3	exon	63511213	63511767	63511213	ID=Msa0132440-mRNA-1:exon:21273;Parent=Msa0132440-mRNA-1
chr1_3	CDS	63511213	63511767	63511213	ID=Msa0132440-mRNA-1:cds;Parent=Msa0132440-mRNA-1

Gene Sequence

>Msa0132440

ATGGCAAATCAACCAAATAATGAAAAGCAGCAAGCACCAAGTTCTGAAGCACTTATCCAGAAAACTGGCGAGGATCAAGTAGTCGGTGGCTCTTCTGCTACGGGCTTTATGGATTCATTGAAAAATCGGTATCAAAAAATCATAGATAGCTGGAACACTCCAGCCAAGGACATGGCAAATCAACCAAATAATGAAAAGCAACAAGCACCAAGTTCTGCAGCACCTATCCTGGAAACTGGTGAGGACCAAGTAGTCGGTGCCCCTCCTGCTGCAGGCTTTATGGATTCATTGGAAAATCGGTATAAAAAAATCAAAGAGCATGCAGAAACTTATCCTTATGTATGGGGTTCCTATATTCTTGTATATGGCGGATTTGGTCTTTGGTTTGCCTATAGATATAGAAAGCTTCTTAGGACAGAGGACAGGGTACGGGCACTTCAAGCAAGACTACGTGAGATGGTTGAAAAGGATAAGATTGTTGAAGCTGAAAATTCTAATAATTCTGCCAAAGTGGTTGAAAAGGGTTCCACATCTTCTGAGATTCCTTCCAAGTAG

Protein sequence

>Msa0132440

MANQPNNEKQQAPSSEALIQKTGEDQVVGGSSATGFMDSLKNRYQKIIDSWNTPAKDMANQPNNEKQQAPSSAAPILETGEDQVVGAPPAAGFMDSLENRYKKIKEHAETYPYVWGSYILVYGGFGLWFAYRYRKLLRTEDRVRALQARLREMVEKDKIVEAENSNNSAKVVEKGSTSSEIPSK*