AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380011808.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380011808.01.T01 MTR_3g010920 73.684 76 20 0 1 76 307 382 1.74e-30 110
MsG0380011808.01.T01 MTR_3g023930 68.421 76 22 1 1 76 295 368 1.40e-27 102
MsG0380011808.01.T01 MTR_3g010520 68.421 76 22 1 1 76 287 360 4.08e-27 100
MsG0380011808.01.T01 MTR_3g010970 65.789 76 26 0 1 76 317 392 7.85e-26 97.8
MsG0380011808.01.T01 MTR_3g010880 63.158 76 26 1 1 76 268 341 9.18e-26 97.1
MsG0380011808.01.T01 MTR_3g030250 64.474 76 25 1 1 76 307 380 1.56e-25 97.1
MsG0380011808.01.T01 MTR_3g030240 63.158 76 26 1 1 76 305 378 1.15e-24 94.7
MsG0380011808.01.T01 MTR_3g023940 67.105 76 17 1 1 76 317 384 2.75e-24 93.6
MsG0380011808.01.T01 MTR_3g010620 59.783 92 21 3 1 76 302 393 7.04e-24 92.4
MsG0380011808.01.T01 MTR_3g010870 62.162 74 26 1 3 76 246 317 3.20e-23 89.7
MsG0380011808.01.T01 MTR_3g010870 62.162 74 26 1 3 76 314 385 5.91e-23 90.1
MsG0380011808.01.T01 MTR_3g006500 61.842 76 27 1 1 76 297 370 1.20e-22 89.0
MsG0380011808.01.T01 MTR_3g010590 59.756 82 25 2 1 76 307 386 2.72e-20 82.8
MsG0380011808.01.T01 MTR_0044s0300 53.247 77 33 2 1 76 316 390 2.57e-18 77.4
MsG0380011808.01.T01 MTR_3g024150 53.947 76 33 1 1 76 313 386 4.90e-18 76.6
MsG0380011808.01.T01 MTR_3g006550 51.948 77 34 2 1 76 64 138 1.18e-16 69.3
MsG0380011808.01.T01 MTR_3g006570 50.649 77 36 2 1 76 302 377 2.29e-15 68.9
MsG0380011808.01.T01 MTR_2g078850 58.333 60 22 2 1 59 310 367 4.65e-14 65.5
MsG0380011808.01.T01 MTR_3g036430 48.052 77 36 2 1 76 270 343 7.35e-14 64.7
MsG0380011808.01.T01 MTR_3g010430 48.052 77 37 2 1 76 319 393 9.76e-14 64.3
MsG0380011808.01.T01 MTR_3g030330 47.619 84 32 3 1 76 293 372 1.99e-13 63.5
MsG0380011808.01.T01 MTR_2g078870 48.718 78 36 2 1 76 233 308 7.16e-13 61.6
MsG0380011808.01.T01 MTR_3g024110 45.455 77 39 2 1 76 374 448 1.80e-12 60.8
MsG0380011808.01.T01 MTR_1g113900 42.857 77 39 2 1 76 174 246 2.55e-12 59.7
MsG0380011808.01.T01 MTR_6g065980 48.101 79 36 3 1 76 283 359 6.52e-12 59.3
MsG0380011808.01.T01 MTR_3g083660 45.946 74 37 2 1 73 207 278 1.15e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 14 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTATTCAAAGTGCCGGTTT+TGG 0.309738 3:+5594693 None:intergenic
GTTGTTTATGATTCCAAAAC+CGG 0.388464 3:-5594706 MsG0380011808.01.T01:CDS
TTCTGAGGATGACCAACTAT+TGG 0.399299 3:-5594773 MsG0380011808.01.T01:CDS
AAACCCCGATCTTGCAGATT+AGG 0.404322 3:+5594820 None:intergenic
TATTCCTAATCTGCAAGATC+GGG 0.444344 3:-5594824 MsG0380011808.01.T01:CDS
CTATTCCTAATCTGCAAGAT+CGG 0.454737 3:-5594825 MsG0380011808.01.T01:CDS
CTCAGGACTATTCAAAGTGC+CGG 0.510113 3:+5594687 None:intergenic
TGAGGATGACCAACTATTGG+TGG 0.529555 3:-5594770 MsG0380011808.01.T01:CDS
CACCACACTCCACCAATAGT+TGG 0.540823 3:+5594761 None:intergenic
TACTGCTTTATATATTTCTG+AGG 0.556635 3:-5594788 MsG0380011808.01.T01:CDS
ATTCCTAATCTGCAAGATCG+GGG 0.639836 3:-5594823 MsG0380011808.01.T01:CDS
TGACACTGGCTATATCAAGT+TGG 0.661174 3:-5594728 MsG0380011808.01.T01:CDS
GGTGAGCTTGATGATGACAC+TGG 0.673792 3:-5594742 MsG0380011808.01.T01:CDS
GACCAACTATTGGTGGAGTG+TGG 0.680003 3:-5594763 MsG0380011808.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TACTGCTTTATATATTTCTG+AGG - Chr3:5594668-5594687 MsG0380011808.01.T01:CDS 25.0%
GTTGTTTATGATTCCAAAAC+CGG - Chr3:5594750-5594769 MsG0380011808.01.T01:CDS 30.0%
!!! TCATCATTGTTTTGAAACTC+AGG + Chr3:5594789-5594808 None:intergenic 30.0%
CTATTCCTAATCTGCAAGAT+CGG - Chr3:5594631-5594650 MsG0380011808.01.T01:CDS 35.0%
TATTCCTAATCTGCAAGATC+GGG - Chr3:5594632-5594651 MsG0380011808.01.T01:CDS 35.0%
ATTCCTAATCTGCAAGATCG+GGG - Chr3:5594633-5594652 MsG0380011808.01.T01:CDS 40.0%
! TGACACTGGCTATATCAAGT+TGG - Chr3:5594728-5594747 MsG0380011808.01.T01:CDS 40.0%
! TTCTGAGGATGACCAACTAT+TGG - Chr3:5594683-5594702 MsG0380011808.01.T01:CDS 40.0%
!!! ACTATTCAAAGTGCCGGTTT+TGG + Chr3:5594766-5594785 None:intergenic 40.0%
AAACCCCGATCTTGCAGATT+AGG + Chr3:5594639-5594658 None:intergenic 45.0%
CTCAGGACTATTCAAAGTGC+CGG + Chr3:5594772-5594791 None:intergenic 45.0%
TGAGGATGACCAACTATTGG+TGG - Chr3:5594686-5594705 MsG0380011808.01.T01:CDS 45.0%
CACCACACTCCACCAATAGT+TGG + Chr3:5594698-5594717 None:intergenic 50.0%
GACCAACTATTGGTGGAGTG+TGG - Chr3:5594693-5594712 MsG0380011808.01.T01:CDS 50.0%
!! GGTGAGCTTGATGATGACAC+TGG - Chr3:5594714-5594733 MsG0380011808.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 5594624 5594854 5594624 ID=MsG0380011808.01;Name=MsG0380011808.01
Chr3 mRNA 5594624 5594854 5594624 ID=MsG0380011808.01.T01;Parent=MsG0380011808.01;Name=MsG0380011808.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|76
Chr3 exon 5594624 5594854 5594624 ID=MsG0380011808.01.T01:exon:2515;Parent=MsG0380011808.01.T01
Chr3 CDS 5594624 5594854 5594624 ID=MsG0380011808.01.T01:cds;Parent=MsG0380011808.01.T01
Gene Sequence

>MsG0380011808.01.T01

ATGTACACTATTCCTAATCTGCAAGATCGGGGTTTACATGCTTTTACTGCTTTATATATTTCTGAGGATGACCAACTATTGGTGGAGTGTGGTGAGCTTGATGATGACACTGGCTATATCAAGTTGGTTGTTTATGATTCCAAAACCGGCACTTTGAATAGTCCTGAGTTTCAAAACAATGATGAACATACAAACGTAAAAGTCTACATTGAGAGTCTCATATCACCTTAA
Protein sequence

>MsG0380011808.01.T01

MYTIPNLQDRGLHAFTALYISEDDQLLVECGELDDDTGYIKLVVYDSKTGTLNSPEFQNNDEHTNVKVYIESLISP*