AlfalfaGEDB | Msa1335450

M. sativa cultivar zhongmu-4 / Msa1335450

KEGG: -
GO: GO:0000902 GO:0000904 GO:0001067 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006355 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009653 GO:0009719 GO:0009725 GO:0009735 GO:0009736 GO:0009739 GO:0009740 GO:0009755 GO:0009888 GO:0009889 GO:0009987 GO:0010015 GO:0010026 GO:0010033 GO:0010053 GO:0010054 GO:0010468 GO:0010476 GO:0010556 GO:0016043 GO:0016049 GO:0019219 GO:0019222 GO:0021700 GO:0022622 GO:0023052 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032870 GO:0032989 GO:0033993 GO:0040007 GO:0040034 GO:0042221 GO:0044212 GO:0048364 GO:0048468 GO:0048469 GO:0048506 GO:0048509 GO:0048510 GO:0048588 GO:0048589 GO:0048731 GO:0048764 GO:0048765 GO:0048766 GO:0048767 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0060560 GO:0065007 GO:0070887 GO:0071229 GO:0071310 GO:0071368 GO:0071370 GO:0071396 GO:0071495 GO:0071695 GO:0071840 GO:0080090 GO:0080147 GO:0090558 GO:0090627 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1901700 GO:1901701 GO:1903506 GO:1905392 GO:2000112 GO:2001141
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
Msa1335450	XP_024639262.1	95.536	224	4	2	1	223	1	219	5.99e-153	434

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1335450	sp\|Q9C9H1\|GIS3_ARATH	36.842	171	84	6	13	178	14	165	3.16e-16	78.2

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1335450	A0A396HRK8	95.536	224	4	2	1	223	1	219	2.86e-153	434

TFs/TRs:

Gene ID	Type	Classification
Msa1335450	TF	C2H2

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0189600	Msa1335450	0.804237	2.378435e-49	-8.615850e-47
Msa0319270	Msa1335450	0.803755	2.996171e-49	-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
Msa1335450	MtrunA17_Chr5g0414491	95.536	224	4	2	1	223	1	219	5.51e-157	434
Msa1335450	MtrunA17_Chr5g0423141	39.716	141	66	5	14	138	22	159	3.42e-20	86.3
Msa1335450	MtrunA17_Chr1g0209561	46.667	105	44	4	67	159	116	220	4.82e-19	84.0
Msa1335450	MtrunA17_Chr7g0250871	65.385	52	17	1	61	111	41	92	1.15e-14	69.7
Msa1335450	MtrunA17_Chr1g0175851	43.299	97	49	2	11	106	33	124	1.22e-12	65.5
Msa1335450	MtrunA17_Chr2g0310101	32.632	95	50	4	65	147	56	148	8.65e-11	59.7

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1335450	AT1G68360.1	36.842	171	84	6	13	178	14	165	3.21e-17	78.2
Msa1335450	AT1G10480.1	44.516	155	56	6	11	155	20	154	7.29e-16	73.9
Msa1335450	AT1G67030.1	62.000	50	19	0	60	109	31	80	1.74e-14	69.7
Msa1335450	AT5G06650.1	37.624	101	43	2	11	111	16	96	1.79e-14	69.7
Msa1335450	AT2G41940.1	42.391	92	45	3	14	101	39	126	2.74e-11	62.0
Msa1335450	AT3G58070.1	70.588	34	10	0	68	101	89	122	6.36e-11	60.8

Find 31 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTGTATTTGACTGCAAATTA+AGG	0.250990	tig0000410:+28523	None:intergenic
GAGAAGAGGCTTAGGCTATT+TGG	0.266105	tig0000410:-29128	Msa1335450:CDS
TCCAGATGAAATTGAGTTAG+AGG	0.309544	tig0000410:+29028	None:intergenic
CTAAAGCTTTACTATGACTT+TGG	0.341132	tig0000410:+28559	None:intergenic
CCTTCATTATTATTCTTTGT+TGG	0.347792	tig0000410:+29092	None:intergenic
TTTGCAAACTCACAAGCATT+AGG	0.367060	tig0000410:-28924	Msa1335450:CDS
TCCTCTAACTCAATTTCATC+TGG	0.371493	tig0000410:-29029	Msa1335450:CDS
AATGAAAGGCTTATCATCAT+TGG	0.394798	tig0000410:+28599	None:intergenic
TAAACATGCAAGTATCTTGT+TGG	0.424563	tig0000410:+28628	None:intergenic
ACCATGGTTCAGATACTCAT+TGG	0.429510	tig0000410:-28779	Msa1335450:CDS
CTATGACTTTGGTTTGAAGA+AGG	0.449620	tig0000410:+28570	None:intergenic
TCTAAGAGAAATCATGGAAA+AGG	0.462817	tig0000410:-29171	None:intergenic
AATTCAGAATTATAAGAAGA+AGG	0.468102	tig0000410:+28747	None:intergenic
GAAGAAGGGTTCAAAATGAA+AGG	0.471207	tig0000410:+28585	None:intergenic
AAACATGCAAGTATCTTGTT+GGG	0.484870	tig0000410:+28629	None:intergenic
TTTCTGTTGAGAAGAGGCTT+AGG	0.492954	tig0000410:-29136	Msa1335450:CDS
TATGACTTTGGTTTGAAGAA+GGG	0.499738	tig0000410:+28571	None:intergenic
AAAGATTGCAACTTCAAGCT+AGG	0.537354	tig0000410:-28860	Msa1335450:CDS
ATACAATAAGAAGCTCGAAA+AGG	0.538230	tig0000410:-28506	Msa1335450:CDS
ATTCAGAATTATAAGAAGAA+GGG	0.538945	tig0000410:+28748	None:intergenic
CTTGTCAAAGAGTCTAATGA+AGG	0.543002	tig0000410:-29068	Msa1335450:CDS
CCAACAAAGAATAATAATGA+AGG	0.552922	tig0000410:-29092	Msa1335450:CDS
TTCATGATACCAACTCTAGT+TGG	0.553264	tig0000410:-28680	Msa1335450:CDS
AAGAGAATACCAACTAGAGT+TGG	0.578901	tig0000410:+28671	None:intergenic
ATGCAAGTATCTTGTTGGGA+AGG	0.589523	tig0000410:+28633	None:intergenic
TCTAACTCAATTTCATCTGG+AGG	0.594407	tig0000410:-29026	Msa1335450:CDS
GCAAACTCACAAGCATTAGG+AGG	0.596016	tig0000410:-28921	Msa1335450:CDS
GTGATATTTCTGTTGAGAAG+AGG	0.599073	tig0000410:-29142	Msa1335450:CDS
AAAGCTTTAGATCTTCAACT+AGG	0.603964	tig0000410:-28546	Msa1335450:CDS
TGGGAAGGAGAAACATGAGA+AGG	0.610434	tig0000410:+28648	None:intergenic
ACCAATGAGTATCTGAACCA+TGG	0.631741	tig0000410:+28778	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATTCAGAATTATAAGAAGAA+GGG	+	tig0000410:28913-28932	None:intergenic	20.0%
!!	AATTCAGAATTATAAGAAGA+AGG	+	tig0000410:28914-28933	None:intergenic	20.0%
!	CCTTCATTATTATTCTTTGT+TGG	+	tig0000410:28569-28588	None:intergenic	25.0%
!	CCAACAAAGAATAATAATGA+AGG	-	tig0000410:28566-28585	Msa1335450:CDS	25.0%
!!!	CTCTAGATGAATTTTTTTCT+TGG	+	tig0000410:28670-28689	None:intergenic	25.0%
!!!	CCATGATGATTTTTTTGAAA+AGG	+	tig0000410:28851-28870	None:intergenic	25.0%
!!	CCTTTTCAAAAAAATCATCA+TGG	-	tig0000410:28848-28867	Msa1335450:CDS	25.0%
!	TTGTATTTGACTGCAAATTA+AGG	+	tig0000410:29138-29157	None:intergenic	25.0%
!	ACTCAAATTTTCTCTCATCT+TGG	+	tig0000410:28694-28713	None:intergenic	30.0%
	AAACATGCAAGTATCTTGTT+GGG	+	tig0000410:29032-29051	None:intergenic	30.0%
	TAAACATGCAAGTATCTTGT+TGG	+	tig0000410:29033-29052	None:intergenic	30.0%
	AATGAAAGGCTTATCATCAT+TGG	+	tig0000410:29062-29081	None:intergenic	30.0%
!!	TATGACTTTGGTTTGAAGAA+GGG	+	tig0000410:29090-29109	None:intergenic	30.0%
	CTAAAGCTTTACTATGACTT+TGG	+	tig0000410:29102-29121	None:intergenic	30.0%
!!	AAAGCTTTAGATCTTCAACT+AGG	-	tig0000410:29112-29131	Msa1335450:CDS	30.0%
	ATACAATAAGAAGCTCGAAA+AGG	-	tig0000410:29152-29171	Msa1335450:CDS	30.0%
!	GTGATATTTCTGTTGAGAAG+AGG	-	tig0000410:28516-28535	Msa1335450:CDS	35.0%
	CTTGTCAAAGAGTCTAATGA+AGG	-	tig0000410:28590-28609	Msa1335450:CDS	35.0%
	TCCTCTAACTCAATTTCATC+TGG	-	tig0000410:28629-28648	Msa1335450:CDS	35.0%
	TCCAGATGAAATTGAGTTAG+AGG	+	tig0000410:28633-28652	None:intergenic	35.0%
	TCTAACTCAATTTCATCTGG+AGG	-	tig0000410:28632-28651	Msa1335450:CDS	35.0%
	TTTGCAAACTCACAAGCATT+AGG	-	tig0000410:28734-28753	Msa1335450:CDS	35.0%
!	CTTTCTTGTGTGCATTTTGA+TGG	+	tig0000410:28763-28782	None:intergenic	35.0%
	AAAGATTGCAACTTCAAGCT+AGG	-	tig0000410:28798-28817	Msa1335450:CDS	35.0%
!	CATCATGGTTTTTCTTACCA+TGG	-	tig0000410:28863-28882	Msa1335450:CDS	35.0%
	TTCATGATACCAACTCTAGT+TGG	-	tig0000410:28978-28997	Msa1335450:CDS	35.0%
	AAGAGAATACCAACTAGAGT+TGG	+	tig0000410:28990-29009	None:intergenic	35.0%
	GAAGAAGGGTTCAAAATGAA+AGG	+	tig0000410:29076-29095	None:intergenic	35.0%
!!	CTATGACTTTGGTTTGAAGA+AGG	+	tig0000410:29091-29110	None:intergenic	35.0%
	TTTCTGTTGAGAAGAGGCTT+AGG	-	tig0000410:28522-28541	Msa1335450:CDS	40.0%
	ACCATGGTTCAGATACTCAT+TGG	-	tig0000410:28879-28898	Msa1335450:CDS	40.0%
	ACCAATGAGTATCTGAACCA+TGG	+	tig0000410:28883-28902	None:intergenic	40.0%
	ATGCAAGTATCTTGTTGGGA+AGG	+	tig0000410:29028-29047	None:intergenic	40.0%
	GAGAAGAGGCTTAGGCTATT+TGG	-	tig0000410:28530-28549	Msa1335450:CDS	45.0%
	GCAAACTCACAAGCATTAGG+AGG	-	tig0000410:28737-28756	Msa1335450:CDS	45.0%
	TGGGAAGGAGAAACATGAGA+AGG	+	tig0000410:29013-29032	None:intergenic	45.0%

Chromosome	Type	Strat	End	Strand	Name
tig0000410	gene	28500	29180	28500	ID=Msa1335450;Name=Msa1335450
tig0000410	mRNA	28500	29180	28500	ID=Msa1335450-mRNA-1;Parent=Msa1335450;Name=Msa1335450-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|226
tig0000410	exon	28500	29180	28500	ID=Msa1335450-mRNA-1:exon:199;Parent=Msa1335450-mRNA-1
tig0000410	CDS	28500	29180	28500	ID=Msa1335450-mRNA-1:cds;Parent=Msa1335450-mRNA-1

Gene Sequence

>Msa1335450

ATGGAAAAGGAAATGTGTGATATTTCTGTTGAGAAGAGGCTTAGGCTATTTGGTTTTGAGCTAAATCCAACAAAGAATAATAATGAAGGACTTGTCAAAGAGTCTAATGAAGGAGATGAAAGTGTGAATTCCTCTAACTCAATTTCATCTGGAGGAGATAAAATTGTCCAAGAAAAAAATTCATCTAGAGACCAAGATGAGAGAAAATTTGAGTGTCAATATTGTTTCAAAGAATTTGCAAACTCACAAGCATTAGGAGGCCATCAAAATGCACACAAGAAAGAGAGAATGAAGAAAAAAAGATTGCAACTTCAAGCTAGGAAAGCTAGCATAAACTATTACTTACAACCTTTTCAAAAAAATCATCATGGTTTTTCTTACCATGGTTCAGATACTCATTGGTTTTATGACCCTTCTTCTTATAATTCTGAATTCTCTCTGAGTGAAGAATCTCAAATTAGTTTCAAGTCAAAAAATGTTCATGATACCAACTCTAGTTGGTATTCTCTTCCTTCTCATGTTTCTCCTTCCCAACAAGATACTTGCATGTTTACTTTCTCCAATGATGATAAGCCTTTCATTTTGAACCCTTCTTCAAACCAAAGTCATAGTAAAGCTTTAGATCTTCAACTAGGCCTTAATTTGCAGTCAAATACAATAAGAAGCTCGAAAAGGACATAG

Protein sequence

>Msa1335450

MEKEMCDISVEKRLRLFGFELNPTKNNNEGLVKESNEGDESVNSSNSISSGGDKIVQEKNSSRDQDERKFECQYCFKEFANSQALGGHQNAHKKERMKKKRLQLQARKASINYYLQPFQKNHHGFSYHGSDTHWFYDPSSYNSEFSLSEESQISFKSKNVHDTNSSWYSLPSHVSPSQQDTCMFTFSNDDKPFILNPSSNQSHSKALDLQLGLNLQSNTIRSSKRT*