AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480019971.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019971.01.T01 MTR_0004s0440 86.726 226 11 3 1 221 1 212 2.54e-134 376
MsG0480019971.01.T01 MTR_1g021995 32.000 225 138 5 11 221 37 260 7.65e-32 117
MsG0480019971.01.T01 MTR_7g076200 26.906 223 144 8 8 220 14 227 1.63e-12 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019971.01.T01 AT3G47430 74.554 224 52 1 3 221 4 227 2.63e-117 333
MsG0480019971.01.T01 AT1G47750 29.915 234 147 6 3 221 16 247 6.09e-24 96.3

Find 36 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAACCTCTTGGATATATC+AGG 0.230932 4:-31000286 None:intergenic
CTAGCAGTGCTTTCTAATTC+AGG 0.262558 4:+31000421 MsG0480019971.01.T01:CDS
TTTCTTTGGTTGTCAAGAAT+TGG 0.292472 4:+31000472 MsG0480019971.01.T01:CDS
CTGGTTCTACTCTCACTTTA+AGG 0.302972 4:+31000395 MsG0480019971.01.T01:CDS
ATGAGTTTCATATCTGCTTT+TGG 0.310972 4:+31000523 MsG0480019971.01.T01:CDS
TTGCAAGCTTGGAAACATAT+TGG 0.323667 4:-31000240 None:intergenic
ACTGTTTCTCTTGGTATTAG+TGG 0.331245 4:+31000763 MsG0480019971.01.T01:CDS
AGAACTGGAAGGTTTCTTAC+TGG 0.334576 4:+31000349 MsG0480019971.01.T01:CDS
TTTGTCCACTGTGTCATTCA+TGG 0.336012 4:-31000164 None:intergenic
GGGCTGGTTGGTATAGAAAT+TGG 0.339600 4:+31000800 MsG0480019971.01.T01:CDS
GTGTGATTGCAGAAAGGATT+TGG 0.354377 4:-31000742 None:intergenic
GACACGCCAGTTTGCAAGCT+TGG 0.365577 4:-31000251 None:intergenic
TTCTCTTGGTATTAGTGGAT+TGG 0.370396 4:+31000768 MsG0480019971.01.T01:CDS
TTCTTGACAACCAAAGAAAA+TGG 0.378899 4:-31000468 None:intergenic
TGCAATCACACTGTTTCTCT+TGG 0.395141 4:+31000754 MsG0480019971.01.T01:CDS
GAATGACACAGTGGACAAAT+TGG 0.413926 4:+31000168 MsG0480019971.01.T01:CDS
GCTTTCTAATTCAGGAGAAA+TGG 0.428114 4:+31000429 MsG0480019971.01.T01:CDS
TGATAGAATAATGAGGCTTA+TGG 0.438357 4:+31000669 MsG0480019971.01.T01:CDS
TGGAACTGTGGATGCAAACT+TGG 0.446439 4:+31000492 MsG0480019971.01.T01:CDS
ATGTTTCCAAGCTTGCAAAC+TGG 0.447747 4:+31000245 MsG0480019971.01.T01:CDS
GGAATTAATTGACTTTATGA+AGG 0.456415 4:-31000823 None:intergenic
AGCAGAAAAGCATTCAGAAC+TGG 0.460756 4:+31000334 MsG0480019971.01.T01:CDS
TGGTTTCTGCATGGGCTGGT+TGG 0.463961 4:+31000788 MsG0480019971.01.T01:CDS
TAGTGGATTGGTTTCTGCAT+GGG 0.486842 4:+31000780 MsG0480019971.01.T01:CDS
TGCAGATTTGATTATAGCAT+TGG 0.487810 4:+31000708 MsG0480019971.01.T01:CDS
GGATTGGTTTCTGCATGGGC+TGG 0.505965 4:+31000784 MsG0480019971.01.T01:CDS
TTAGTGGATTGGTTTCTGCA+TGG 0.506709 4:+31000779 MsG0480019971.01.T01:CDS
TTTGTTGAATGAAGGGTTGA+AGG 0.511768 4:+31000588 MsG0480019971.01.T01:CDS
AATGCTCTTAGAAGAAATCC+TGG 0.530140 4:+31000376 MsG0480019971.01.T01:CDS
TGAACCTCTTGGATATATCA+GGG 0.540246 4:-31000285 None:intergenic
CTTAAAGTGAGAGTAGAACC+AGG 0.591365 4:-31000394 None:intergenic
GAAACAGTGTGATTGCAGAA+AGG 0.592768 4:-31000748 None:intergenic
GAAAAGCATTCAGAACTGGA+AGG 0.628321 4:+31000338 MsG0480019971.01.T01:CDS
GTTGTCAAGAATTGGAACTG+TGG 0.656125 4:+31000480 MsG0480019971.01.T01:CDS
CTCACCCTGATATATCCAAG+AGG 0.704550 4:+31000281 MsG0480019971.01.T01:CDS
TTCTACCATGAATGACACAG+TGG 0.746124 4:+31000159 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAAAGTGATAGAATAATG+AGG + Chr4:31000662-31000681 MsG0480019971.01.T01:CDS 20.0%
!!! ATTTCATTTTGTTGAATGAA+GGG + Chr4:31000581-31000600 MsG0480019971.01.T01:CDS 20.0%
!! GATTTCATTTTGTTGAATGA+AGG + Chr4:31000580-31000599 MsG0480019971.01.T01:CDS 25.0%
ATCCAAGAGGTTCAAAAATT+GGG + Chr4:31000294-31000313 MsG0480019971.01.T01:CDS 30.0%
TATCCAAGAGGTTCAAAAAT+TGG + Chr4:31000293-31000312 MsG0480019971.01.T01:CDS 30.0%
TGATAGAATAATGAGGCTTA+TGG + Chr4:31000669-31000688 MsG0480019971.01.T01:CDS 30.0%
TGCAGATTTGATTATAGCAT+TGG + Chr4:31000708-31000727 MsG0480019971.01.T01:CDS 30.0%
TTCTTGACAACCAAAGAAAA+TGG - Chr4:31000471-31000490 None:intergenic 30.0%
TTTCTTTGGTTGTCAAGAAT+TGG + Chr4:31000472-31000491 MsG0480019971.01.T01:CDS 30.0%
! ATGAGTTTCATATCTGCTTT+TGG + Chr4:31000523-31000542 MsG0480019971.01.T01:CDS 30.0%
! TCTTCTTTGACCATTTTCTT+TGG + Chr4:31000458-31000477 MsG0480019971.01.T01:CDS 30.0%
AAAAATTGGGAAGTAGCTTC+TGG + Chr4:31000307-31000326 MsG0480019971.01.T01:CDS 35.0%
AATGCTCTTAGAAGAAATCC+TGG + Chr4:31000376-31000395 MsG0480019971.01.T01:CDS 35.0%
ATCTTCCTAGCAAAAAGAGA+TGG + Chr4:31000193-31000212 MsG0480019971.01.T01:CDS 35.0%
GAAAAAGCTTAGAAGTTCAG+AGG + Chr4:31000615-31000634 MsG0480019971.01.T01:CDS 35.0%
GCTTTCTAATTCAGGAGAAA+TGG + Chr4:31000429-31000448 MsG0480019971.01.T01:CDS 35.0%
TGAACCTCTTGGATATATCA+GGG - Chr4:31000288-31000307 None:intergenic 35.0%
TTGAACCTCTTGGATATATC+AGG - Chr4:31000289-31000308 None:intergenic 35.0%
TTGCAAGCTTGGAAACATAT+TGG - Chr4:31000243-31000262 None:intergenic 35.0%
TTTGTTGAATGAAGGGTTGA+AGG + Chr4:31000588-31000607 MsG0480019971.01.T01:CDS 35.0%
! ACTGTTTCTCTTGGTATTAG+TGG + Chr4:31000763-31000782 MsG0480019971.01.T01:CDS 35.0%
! TTCCCAATTTTTGAACCTCT+TGG - Chr4:31000299-31000318 None:intergenic 35.0%
! TTCTCTTGGTATTAGTGGAT+TGG + Chr4:31000768-31000787 MsG0480019971.01.T01:CDS 35.0%
!! TTTCATATCTGCTTTTGGTG+AGG + Chr4:31000528-31000547 MsG0480019971.01.T01:CDS 35.0%
AGAACTGGAAGGTTTCTTAC+TGG + Chr4:31000349-31000368 MsG0480019971.01.T01:CDS 40.0%
ATGTTTCCAAGCTTGCAAAC+TGG + Chr4:31000245-31000264 MsG0480019971.01.T01:CDS 40.0%
CTAGCAGTGCTTTCTAATTC+AGG + Chr4:31000421-31000440 MsG0480019971.01.T01:CDS 40.0%
CTTAAAGTGAGAGTAGAACC+AGG - Chr4:31000397-31000416 None:intergenic 40.0%
GAAACAGTGTGATTGCAGAA+AGG - Chr4:31000751-31000770 None:intergenic 40.0%
GAATGACACAGTGGACAAAT+TGG + Chr4:31000168-31000187 MsG0480019971.01.T01:CDS 40.0%
GTGTGATTGCAGAAAGGATT+TGG - Chr4:31000745-31000764 None:intergenic 40.0%
GTTGTCAAGAATTGGAACTG+TGG + Chr4:31000480-31000499 MsG0480019971.01.T01:CDS 40.0%
! CTATGCCATCTCTTTTTGCT+AGG - Chr4:31000201-31000220 None:intergenic 40.0%
! TGCAATCACACTGTTTCTCT+TGG + Chr4:31000754-31000773 MsG0480019971.01.T01:CDS 40.0%
!! AGCAGAAAAGCATTCAGAAC+TGG + Chr4:31000334-31000353 MsG0480019971.01.T01:CDS 40.0%
!! CTGGTTCTACTCTCACTTTA+AGG + Chr4:31000395-31000414 MsG0480019971.01.T01:CDS 40.0%
!! GAAAAGCATTCAGAACTGGA+AGG + Chr4:31000338-31000357 MsG0480019971.01.T01:CDS 40.0%
!! TAGTGGATTGGTTTCTGCAT+GGG + Chr4:31000780-31000799 MsG0480019971.01.T01:CDS 40.0%
!! TTAGTGGATTGGTTTCTGCA+TGG + Chr4:31000779-31000798 MsG0480019971.01.T01:CDS 40.0%
CTCACCCTGATATATCCAAG+AGG + Chr4:31000281-31000300 MsG0480019971.01.T01:CDS 45.0%
TGGAACTGTGGATGCAAACT+TGG + Chr4:31000492-31000511 MsG0480019971.01.T01:CDS 45.0%
!! GGGCTGGTTGGTATAGAAAT+TGG + Chr4:31000800-31000819 MsG0480019971.01.T01:CDS 45.0%
!! ATCTGCTTTTGGTGAGGCTG+TGG + Chr4:31000534-31000553 MsG0480019971.01.T01:CDS 50.0%
!! TCTGCTTTTGGTGAGGCTGT+GGG + Chr4:31000535-31000554 MsG0480019971.01.T01:CDS 50.0%
GACACGCCAGTTTGCAAGCT+TGG - Chr4:31000254-31000273 None:intergenic 55.0%
!! GGATTGGTTTCTGCATGGGC+TGG + Chr4:31000784-31000803 MsG0480019971.01.T01:CDS 55.0%
!! TGGTTTCTGCATGGGCTGGT+TGG + Chr4:31000788-31000807 MsG0480019971.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 31000166 31000831 31000166 ID=MsG0480019971.01;Name=MsG0480019971.01
Chr4 mRNA 31000166 31000831 31000166 ID=MsG0480019971.01.T01;Parent=MsG0480019971.01;Name=MsG0480019971.01.T01;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|221
Chr4 exon 31000166 31000831 31000166 ID=MsG0480019971.01.T01:exon:12699;Parent=MsG0480019971.01.T01
Chr4 CDS 31000166 31000831 31000166 ID=MsG0480019971.01.T01:cds;Parent=MsG0480019971.01.T01
Gene Sequence

>MsG0480019971.01.T01

ATGAATGACACAGTGGACAAATTGGTGATCTTCCTAGCAAAAAGAGATGGCATAGACAAGCTTGTGAAGACATTCCAATATGTTTCCAAGCTTGCAAACTGGCGTGTCGAAGTCACTCACCCTGATATATCCAAGAGGTTCAAAAATTGGGAAGTAGCTTCTGGTCTCAGCAGAAAAGCATTCAGAACTGGAAGGTTTCTTACTGGATTCAATGCTCTTAGAAGAAATCCTGGTTCTACTCTCACTTTAAGGCTACTAGCAGTGCTTTCTAATTCAGGAGAAATGGTGTATTTCTTCTTTGACCATTTTCTTTGGTTGTCAAGAATTGGAACTGTGGATGCAAACTTGGCAAAGAAGATGAGTTTCATATCTGCTTTTGGTGAGGCTGTGGGATATGTTTTCTTCATTATAGCTGATTTCATTTTGTTGAATGAAGGGTTGAAGGCTGAGAAAAAGCTTAGAAGTTCAGAGGATAATGAGAAAGAGATTCAGAAATTAAAAAGTGATAGAATAATGAGGCTTATGGCTGTTGCTGCTAATGTTGCAGATTTGATTATAGCATTGGCTGAAATTGAGCCAAATCCTTTCTGCAATCACACTGTTTCTCTTGGTATTAGTGGATTGGTTTCTGCATGGGCTGGTTGGTATAGAAATTGGCCTTCATAA

Protein sequence

>MsG0480019971.01.T01

MNDTVDKLVIFLAKRDGIDKLVKTFQYVSKLANWRVEVTHPDISKRFKNWEVASGLSRKAFRTGRFLTGFNALRRNPGSTLTLRLLAVLSNSGEMVYFFFDHFLWLSRIGTVDANLAKKMSFISAFGEAVGYVFFIIADFILLNEGLKAEKKLRSSEDNEKEIQKLKSDRIMRLMAVAANVADLIIALAEIEPNPFCNHTVSLGISGLVSAWAGWYRNWPS*