AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007970.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007970.01.T01 MTR_2g437020 87.179 117 15 0 1 117 199 315 2.27e-68 211
MsG0280007970.01.T01 MTR_2g437060 71.795 117 31 1 1 117 215 329 6.66e-53 172
MsG0280007970.01.T01 MTR_2g436400 72.549 102 28 0 15 116 219 320 2.61e-49 162
MsG0280007970.01.T01 MTR_2g437030 68.468 111 33 1 6 116 291 399 1.08e-47 160
MsG0280007970.01.T01 MTR_2g437080 69.524 105 32 0 13 117 210 314 2.79e-47 157
MsG0280007970.01.T01 MTR_2g437090 69.307 101 31 0 16 116 1 101 2.68e-46 148
MsG0280007970.01.T01 MTR_2g436440 70.103 97 29 0 13 109 216 312 5.73e-44 149
MsG0280007970.01.T01 MTR_2g437040 68.041 97 31 0 13 109 210 306 8.00e-42 143
MsG0280007970.01.T01 MTR_2g438010 58.772 114 47 0 4 117 234 347 1.03e-40 140
MsG0280007970.01.T01 MTR_2g437200 63.107 103 38 0 15 117 240 342 6.93e-40 138
MsG0280007970.01.T01 MTR_2g437160 51.095 137 67 0 4 140 135 271 8.33e-40 136
MsG0280007970.01.T01 MTR_2g437160 51.095 137 67 0 4 140 226 362 3.21e-39 137
MsG0280007970.01.T01 MTR_2g437130 51.587 126 61 0 15 140 213 338 3.61e-39 136
MsG0280007970.01.T01 MTR_2g437240 51.095 137 67 0 4 140 229 365 1.20e-38 135
MsG0280007970.01.T01 MTR_2g437170 56.637 113 49 0 4 116 221 333 1.33e-38 135
MsG0280007970.01.T01 MTR_2g437150 56.140 114 50 0 4 117 221 334 1.73e-38 134
MsG0280007970.01.T01 MTR_2g438020 61.765 102 39 0 15 116 279 380 3.30e-38 135
MsG0280007970.01.T01 MTR_2g437960 64.583 96 34 0 15 110 228 323 7.69e-38 133
MsG0280007970.01.T01 MTR_2g437960 64.583 96 34 0 15 110 228 323 9.74e-38 133
MsG0280007970.01.T01 MTR_2g076320 53.509 114 53 0 4 117 214 327 2.07e-37 132
MsG0280007970.01.T01 MTR_2g437940 61.765 102 39 0 15 116 196 297 2.50e-37 131
MsG0280007970.01.T01 MTR_2g437990 53.982 113 52 0 4 116 213 325 6.29e-36 128
MsG0280007970.01.T01 MTR_4g119550 50.877 114 56 0 4 117 211 324 2.17e-35 126
MsG0280007970.01.T01 MTR_2g437180 61.458 96 37 0 15 110 224 319 1.69e-34 124
MsG0280007970.01.T01 MTR_2g437120 56.140 114 49 1 4 117 215 327 2.99e-34 124
MsG0280007970.01.T01 MTR_2g437260 48.113 106 55 0 20 125 213 318 9.91e-33 119
MsG0280007970.01.T01 MTR_2g437100 54.386 114 52 0 4 117 226 339 1.38e-32 119
MsG0280007970.01.T01 MTR_2g436460 52.475 101 47 1 13 112 215 315 8.72e-29 108
MsG0280007970.01.T01 MTR_4g120380 47.788 113 59 0 4 116 203 315 4.65e-28 106
MsG0280007970.01.T01 MTR_4g120380 41.606 137 80 0 4 140 203 339 1.54e-27 105
MsG0280007970.01.T01 MTR_2g019840 48.485 99 50 1 18 116 218 315 4.25e-26 101
MsG0280007970.01.T01 MTR_4g119580 55.000 80 36 0 20 99 219 298 3.26e-25 99.0
MsG0280007970.01.T01 MTR_2g436380 70.492 61 18 0 16 76 1 61 1.90e-23 92.8
MsG0280007970.01.T01 MTR_2g019810 46.392 97 51 1 20 116 208 303 3.63e-22 90.9
MsG0280007970.01.T01 MTR_3g450500 32.558 129 87 0 17 145 216 344 5.75e-19 82.0
MsG0280007970.01.T01 MTR_4g119570 48.684 76 39 0 4 79 95 170 2.14e-16 73.2
MsG0280007970.01.T01 MTR_4g007490 29.688 128 90 0 20 147 217 344 1.89e-12 63.5
MsG0280007970.01.T01 MTR_3g085240 48.276 58 30 0 75 132 176 233 3.81e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007970.01.T01 AT5G07900 35.238 105 65 2 14 116 242 345 2.81e-21 88.6

Find 37 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAATTTAGTGATGAACTTT+TGG 0.234643 2:-23831467 MsG0280007970.01.T01:CDS
GAAATTGGTGGAGGAATTAA+AGG 0.238950 2:-23831670 MsG0280007970.01.T01:CDS
GGTGGAGGAATTAAAGGATT+TGG 0.242361 2:-23831664 MsG0280007970.01.T01:CDS
GTGGAGGAATTAAAGGATTT+GGG 0.314616 2:-23831663 MsG0280007970.01.T01:CDS
AGACCAACCCCACTTCTTAA+AGG 0.324708 2:+23831554 None:intergenic
TTAAAAGAATGCTTTGGTTA+AGG 0.353006 2:-23831728 None:intergenic
GACACATGACATGCTGAAAT+TGG 0.353711 2:-23831685 MsG0280007970.01.T01:CDS
ATGTTCTACAAGCATTTAGA+AGG 0.400394 2:-23831524 MsG0280007970.01.T01:CDS
TTGCAATATCTTCTGAAGAA+AGG 0.412458 2:-23831347 MsG0280007970.01.T01:CDS
CAAACATTAAAAGAATGCTT+TGG 0.436839 2:-23831734 None:intergenic
TTGGGTCAATCAGTTAGGTT+GGG 0.447898 2:-23831448 MsG0280007970.01.T01:CDS
TTTCTTTAAGTTTCGAAAAG+AGG 0.455763 2:-23831391 MsG0280007970.01.T01:CDS
TTTGGGTCAATCAGTTAGGT+TGG 0.464253 2:-23831449 MsG0280007970.01.T01:CDS
AATGCTTTGGTTAAGGAGTC+GGG 0.471203 2:-23831721 MsG0280007970.01.T01:CDS
GAATGCTTTGGTTAAGGAGT+CGG 0.487572 2:-23831722 MsG0280007970.01.T01:CDS
ATCTGTAAGGAAAACATTGT+GGG 0.488825 2:-23831592 MsG0280007970.01.T01:CDS
TTCTTTAAGTTTCGAAAAGA+GGG 0.495393 2:-23831390 MsG0280007970.01.T01:CDS
TGCATGCCAAACTATCTGTA+AGG 0.519763 2:-23831605 MsG0280007970.01.T01:CDS
TCGAAAAGAGGGTCCTTCCA+AGG 0.522254 2:-23831379 MsG0280007970.01.T01:CDS
AAACTGATGGTCCTTTGGCA+AGG 0.541181 2:+23831415 None:intergenic
AGTCGATGCCTTTAAGAAGT+GGG 0.559365 2:-23831562 MsG0280007970.01.T01:CDS
GATGCACTTGCCCTTGCCAA+AGG 0.563336 2:-23831426 MsG0280007970.01.T01:CDS
TATTGCAATACAGAGGCCCT+TGG 0.565124 2:+23831362 None:intergenic
AACTGATGGTCCTTTGGCAA+GGG 0.571808 2:+23831416 None:intergenic
CGAAAAGAGGGTCCTTCCAA+GGG 0.576545 2:-23831378 MsG0280007970.01.T01:CDS
AAGTCGATGCCTTTAAGAAG+TGG 0.577016 2:-23831563 MsG0280007970.01.T01:CDS
TATCTGTAAGGAAAACATTG+TGG 0.577111 2:-23831593 MsG0280007970.01.T01:CDS
AAGGCAACCACATTGTATGT+TGG 0.594814 2:-23831505 MsG0280007970.01.T01:CDS
GCAATACAGAGGCCCTTGGA+AGG 0.596897 2:+23831366 None:intergenic
ATGCCTTTAAGAAGTGGGGT+TGG 0.598873 2:-23831557 MsG0280007970.01.T01:CDS
GTCGATGCCTTTAAGAAGTG+GGG 0.602513 2:-23831561 MsG0280007970.01.T01:CDS
GGCATGCAATGCTACACCAA+AGG 0.603475 2:+23831620 None:intergenic
ACATGACATGCTGAAATTGG+TGG 0.610610 2:-23831682 MsG0280007970.01.T01:CDS
TGACATGCTGAAATTGGTGG+AGG 0.631062 2:-23831679 MsG0280007970.01.T01:CDS
AATTTCAGCATGTCATGTGT+CGG 0.639746 2:+23831687 None:intergenic
CAGAAGATATTGCAATACAG+AGG 0.669772 2:+23831355 None:intergenic
ATGGATACCAACATACAATG+TGG 0.711327 2:+23831498 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CACTAAATTAATTTTATCAA+TGG + Chr2:23831543-23831562 None:intergenic 15.0%
!! AACTTAAAGAAAAAAACTGA+TGG + Chr2:23831620-23831639 None:intergenic 20.0%
!!! TAATTTAGTGATGAACTTTT+GGG - Chr2:23831553-23831572 MsG0280007970.01.T01:CDS 20.0%
!!! TTAATTTAGTGATGAACTTT+TGG - Chr2:23831552-23831571 MsG0280007970.01.T01:CDS 20.0%
!! TTCTTTAAGTTTCGAAAAGA+GGG - Chr2:23831629-23831648 MsG0280007970.01.T01:CDS 25.0%
!! TTTCTTTAAGTTTCGAAAAG+AGG - Chr2:23831628-23831647 MsG0280007970.01.T01:CDS 25.0%
ATCTGTAAGGAAAACATTGT+GGG - Chr2:23831427-23831446 MsG0280007970.01.T01:CDS 30.0%
ATGTTCTACAAGCATTTAGA+AGG - Chr2:23831495-23831514 MsG0280007970.01.T01:CDS 30.0%
TATCTGTAAGGAAAACATTG+TGG - Chr2:23831426-23831445 MsG0280007970.01.T01:CDS 30.0%
! TGTTTTCCTTACAGATAGTT+TGG + Chr2:23831423-23831442 None:intergenic 30.0%
! TTGCAATATCTTCTGAAGAA+AGG - Chr2:23831672-23831691 MsG0280007970.01.T01:CDS 30.0%
AATTTCAGCATGTCATGTGT+CGG + Chr2:23831335-23831354 None:intergenic 35.0%
ATGGATACCAACATACAATG+TGG + Chr2:23831524-23831543 None:intergenic 35.0%
CAGAAGATATTGCAATACAG+AGG + Chr2:23831667-23831686 None:intergenic 35.0%
GAAAAAAACTGATGGTCCTT+TGG + Chr2:23831612-23831631 None:intergenic 35.0%
GAAATTGGTGGAGGAATTAA+AGG - Chr2:23831349-23831368 MsG0280007970.01.T01:CDS 35.0%
GAAGAAAGGTTTGCGAAAAA+AGG - Chr2:23831686-23831705 MsG0280007970.01.T01:CDS 35.0%
GCTACTTCAAAAACAACCTT+TGG - Chr2:23831383-23831402 MsG0280007970.01.T01:CDS 35.0%
GTGGAGGAATTAAAGGATTT+GGG - Chr2:23831356-23831375 MsG0280007970.01.T01:CDS 35.0%
!! AACTTTTGGGTCAATCAGTT+AGG - Chr2:23831566-23831585 MsG0280007970.01.T01:CDS 35.0%
AAGGCAACCACATTGTATGT+TGG - Chr2:23831514-23831533 MsG0280007970.01.T01:CDS 40.0%
ACATGACATGCTGAAATTGG+TGG - Chr2:23831337-23831356 MsG0280007970.01.T01:CDS 40.0%
GACACATGACATGCTGAAAT+TGG - Chr2:23831334-23831353 MsG0280007970.01.T01:CDS 40.0%
GGTGGAGGAATTAAAGGATT+TGG - Chr2:23831355-23831374 MsG0280007970.01.T01:CDS 40.0%
TGCATGCCAAACTATCTGTA+AGG - Chr2:23831414-23831433 MsG0280007970.01.T01:CDS 40.0%
TTGGGTCAATCAGTTAGGTT+GGG - Chr2:23831571-23831590 MsG0280007970.01.T01:CDS 40.0%
TTTGGGTCAATCAGTTAGGT+TGG - Chr2:23831570-23831589 MsG0280007970.01.T01:CDS 40.0%
! AAGTCGATGCCTTTAAGAAG+TGG - Chr2:23831456-23831475 MsG0280007970.01.T01:CDS 40.0%
! AGTCGATGCCTTTAAGAAGT+GGG - Chr2:23831457-23831476 MsG0280007970.01.T01:CDS 40.0%
AAACTGATGGTCCTTTGGCA+AGG + Chr2:23831607-23831626 None:intergenic 45.0%
AACTGATGGTCCTTTGGCAA+GGG + Chr2:23831606-23831625 None:intergenic 45.0%
AGACCAACCCCACTTCTTAA+AGG + Chr2:23831468-23831487 None:intergenic 45.0%
TATTGCAATACAGAGGCCCT+TGG + Chr2:23831660-23831679 None:intergenic 45.0%
TGACATGCTGAAATTGGTGG+AGG - Chr2:23831340-23831359 MsG0280007970.01.T01:CDS 45.0%
! ATGCCTTTAAGAAGTGGGGT+TGG - Chr2:23831462-23831481 MsG0280007970.01.T01:CDS 45.0%
! GTCGATGCCTTTAAGAAGTG+GGG - Chr2:23831458-23831477 MsG0280007970.01.T01:CDS 45.0%
CGAAAAGAGGGTCCTTCCAA+GGG - Chr2:23831641-23831660 MsG0280007970.01.T01:CDS 50.0%
GGCATGCAATGCTACACCAA+AGG + Chr2:23831402-23831421 None:intergenic 50.0%
TCGAAAAGAGGGTCCTTCCA+AGG - Chr2:23831640-23831659 MsG0280007970.01.T01:CDS 50.0%
GATGCACTTGCCCTTGCCAA+AGG - Chr2:23831593-23831612 MsG0280007970.01.T01:CDS 55.0%
GCAATACAGAGGCCCTTGGA+AGG + Chr2:23831656-23831675 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 23831299 23831742 23831299 ID=MsG0280007970.01;Name=MsG0280007970.01
Chr2 mRNA 23831299 23831742 23831299 ID=MsG0280007970.01.T01;Parent=MsG0280007970.01;Name=MsG0280007970.01.T01;_AED=0.43;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|147
Chr2 exon 23831299 23831742 23831299 ID=MsG0280007970.01.T01:exon:3062;Parent=MsG0280007970.01.T01
Chr2 CDS 23831299 23831742 23831299 ID=MsG0280007970.01.T01:cds;Parent=MsG0280007970.01.T01
Gene Sequence

>MsG0280007970.01.T01

ATGCTTTGGTTAAGGAGTCGGGCATTTCAGACACCGACACATGACATGCTGAAATTGGTGGAGGAATTAAAGGATTTGGGTTTTGCTACTTCAAAAACAACCTTTGGTGTAGCATTGCATGCCAAACTATCTGTAAGGAAAACATTGTGGGAAGAGAAAGTCGATGCCTTTAAGAAGTGGGGTTGGTCTGATGAAGATGTTCTACAAGCATTTAGAAGGCAACCACATTGTATGTTGGTATCCATTGATAAAATTAATTTAGTGATGAACTTTTGGGTCAATCAGTTAGGTTGGGATGCACTTGCCCTTGCCAAAGGACCATCAGTTTTTTTCTTTAAGTTTCGAAAAGAGGGTCCTTCCAAGGGCCTCTGTATTGCAATATCTTCTGAAGAAAGGTTTGCGAAAAAAGGATGCAAGCTTAACTTGTCCATTTGTAGTGCCTGA
Protein sequence

>MsG0280007970.01.T01

MLWLRSRAFQTPTHDMLKLVEELKDLGFATSKTTFGVALHAKLSVRKTLWEEKVDAFKKWGWSDEDVLQAFRRQPHCMLVSIDKINLVMNFWVNQLGWDALALAKGPSVFFFKFRKEGPSKGLCIAISSEERFAKKGCKLNLSICSA*