AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005880.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005880.01.T01 MTR_1g108740 88.218 348 36 2 1 347 1 344 0.0 632
MsG0180005880.01.T01 MTR_1g016150 81.006 179 29 1 1 174 1 179 1.75e-103 304
MsG0180005880.01.T01 MTR_1g016150 84.127 63 10 0 245 307 175 237 3.09e-27 107
MsG0180005880.01.T01 MTR_5g038260 44.041 386 167 11 3 347 4 381 3.39e-96 291
MsG0180005880.01.T01 MTR_7g077650 44.681 376 173 15 1 347 1 370 9.98e-85 261
MsG0180005880.01.T01 MTR_7g077620 45.378 357 162 12 1 332 1 349 2.90e-83 258
MsG0180005880.01.T01 MTR_5g038230 40.674 386 154 13 3 347 2 353 5.50e-83 256
MsG0180005880.01.T01 MTR_7g077660 43.316 374 177 14 1 347 1 366 2.90e-80 249
MsG0180005880.01.T01 MTR_5g082770 48.026 304 123 10 5 292 4 288 4.31e-80 246
MsG0180005880.01.T01 MTR_1g064570 41.439 403 164 13 7 347 6 398 1.63e-79 248
MsG0180005880.01.T01 MTR_5g082780 44.091 220 102 5 112 319 2 212 1.10e-47 161
MsG0180005880.01.T01 MTR_7g076110 40.550 291 142 12 86 347 23 311 1.08e-45 158
MsG0180005880.01.T01 MTR_7g076100 43.515 239 104 8 134 347 66 298 1.55e-45 157
MsG0180005880.01.T01 MTR_7g076100 66.667 48 16 0 5 52 6 53 9.54e-17 80.1
MsG0180005880.01.T01 MTR_1g108750 49.673 153 47 3 3 155 2 124 7.16e-36 127
MsG0180005880.01.T01 MTR_3g114970 22.564 390 204 17 6 339 5 352 2.73e-13 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 54 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATATTGGGATAGTCCTTAT+TGG 0.201013 1:+97101959 MsG0180005880.01.T01:CDS
AAGATCGTATCCTTTAATTT+TGG 0.210117 1:+97101562 MsG0180005880.01.T01:CDS
CTTGTTGAAACTTGAGAGTT+TGG 0.232269 1:+97101789 MsG0180005880.01.T01:CDS
ATCTGAATAACCAAAATTAA+AGG 0.257469 1:-97101572 None:intergenic
TTGGAAGAGGTCAGCAAAAT+TGG 0.270339 1:+97101458 MsG0180005880.01.T01:CDS
ATAGAATGAAGAGACGAAAT+TGG 0.272589 1:+97100954 None:intergenic
TATCCTTAAAAGGACTCATT+AGG 0.272862 1:-97101312 None:intergenic
ATGCAAGGTATATCCTTAAA+AGG 0.293423 1:-97101322 None:intergenic
GTGTTCAAGCTTCTCACTTT+TGG 0.309739 1:-97101767 None:intergenic
GACTCAATTTACTTTGCTAA+TGG 0.321675 1:+97101889 MsG0180005880.01.T01:CDS
AGGACTCATTAGGGTTATAA+TGG 0.356886 1:-97101302 None:intergenic
CAATAAGGACTATCCCAATA+TGG 0.359462 1:-97101958 None:intergenic
GTTCTTCTATAGAGGAGAAT+TGG 0.365324 1:+97101155 MsG0180005880.01.T01:CDS
CACATAGATCATGTTTCGTT+TGG 0.369870 1:+97101028 MsG0180005880.01.T01:CDS
CTAGTTTCAATTTGTATACA+TGG 0.383970 1:-97101741 None:intergenic
GGTTATTCAGATGATACTTC+GGG 0.390839 1:+97101583 MsG0180005880.01.T01:CDS
ATCCTTAAAAGGACTCATTA+GGG 0.399472 1:-97101311 None:intergenic
GCTACAATCATATAATCATT+TGG 0.403630 1:-97101406 None:intergenic
TAAAGGATACGATCTTGTTT+CGG 0.413966 1:-97101555 None:intergenic
AACAAATAGTTCTTCTATAG+AGG 0.421005 1:+97101147 MsG0180005880.01.T01:CDS
AAATGTGGCAGAATCCAATA+AGG 0.445291 1:-97101973 None:intergenic
TTGTTGAAACTTGAGAGTTT+GGG 0.445712 1:+97101790 MsG0180005880.01.T01:CDS
CGGCATACCTGATATTGAAA+AGG 0.454768 1:-97101208 None:intergenic
AAGATCTATAATATGAAGAA+TGG 0.455106 1:+97101916 MsG0180005880.01.T01:CDS
AAGAGCTATGGATGGTAAGA+AGG 0.465590 1:+97101695 MsG0180005880.01.T01:CDS
ATAGAGGAGAATTGGTTGTA+TGG 0.471236 1:+97101163 MsG0180005880.01.T01:CDS
TAGAATGAAGAGACGAAATT+GGG 0.472065 1:+97100955 None:intergenic
TCGCTCTGTGGCTCTAGCCA+TGG 0.491261 1:+97101250 MsG0180005880.01.T01:CDS
TGGTTATTCAGATGATACTT+CGG 0.502123 1:+97101582 MsG0180005880.01.T01:CDS
TTGTCAAGAATCAAACTAAG+AGG 0.512709 1:-97100995 None:intergenic
TGTGGTAATCTTGCTTATGT+TGG 0.520193 1:+97101439 MsG0180005880.01.T01:CDS
AATCTTGCTTATGTTGGAAG+AGG 0.526277 1:+97101445 MsG0180005880.01.T01:CDS
CAAGAATCAAACTAAGAGGA+AGG 0.538427 1:-97100991 None:intergenic
CATTAGCATTGGTAGTGCAA+TGG 0.541084 1:-97101113 None:intergenic
TATAAATCTCATTGAAAATG+TGG 0.541531 1:-97101988 None:intergenic
TCTGTGGCTCTAGCCATGGT+TGG 0.545055 1:+97101254 MsG0180005880.01.T01:CDS
CGACACGGAAATTGAATCTC+CGG 0.546457 1:-97101836 None:intergenic
GGCATACCTGATATTGAAAA+GGG 0.548895 1:-97101207 None:intergenic
AAAGTTTACGATTATTAGCA+CGG 0.557209 1:-97101228 None:intergenic
TTGGTGCTGTGTGCAAGACT+TGG 0.560056 1:+97101047 MsG0180005880.01.T01:CDS
ACCTCTCAATTCTGTTAACA+AGG 0.561179 1:+97101354 MsG0180005880.01.T01:CDS
AATCACTAGAAGAAGAGCTA+TGG 0.566646 1:+97101683 MsG0180005880.01.T01:CDS
ATTGTAGCAATTTATGATTG+TGG 0.568571 1:+97101421 MsG0180005880.01.T01:CDS
CTTCTTCTAGTGATTTCACA+AGG 0.577230 1:-97101675 None:intergenic
CGGAGATTCAATTTCCGTGT+CGG 0.586695 1:+97101837 MsG0180005880.01.T01:CDS
AAGAATCAAACTAAGAGGAA+GGG 0.607697 1:-97100990 None:intergenic
CTACAAATGCAAACCAACCA+TGG 0.610070 1:-97101267 None:intergenic
TTGTTAACAGAATTGAGAGG+TGG 0.610311 1:-97101352 None:intergenic
AATCGTAAACTTTCGCTCTG+TGG 0.619251 1:+97101238 MsG0180005880.01.T01:CDS
TGTTAACAGAATTGAGAGGT+GGG 0.631633 1:-97101351 None:intergenic
AGAGGTGGGAGAGTAATGCA+AGG 0.635075 1:-97101337 None:intergenic
AGAGAAATATGACGCCGACA+CGG 0.636199 1:-97101851 None:intergenic
ACTAGAAGAAGAGCTATGGA+TGG 0.645211 1:+97101687 MsG0180005880.01.T01:CDS
ACCTTGTTAACAGAATTGAG+AGG 0.720165 1:-97101355 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGATGTCATATTTTATAA+AGG + Chr1:97101511-97101530 MsG0180005880.01.T01:CDS 15.0%
!! AAGATCTATAATATGAAGAA+TGG + Chr1:97101916-97101935 MsG0180005880.01.T01:CDS 20.0%
!! ATCTGAATAACCAAAATTAA+AGG - Chr1:97101575-97101594 None:intergenic 20.0%
!!! ATGGTATTTTAAACAAAAGA+TGG + Chr1:97101182-97101201 MsG0180005880.01.T01:CDS 20.0%
!!! GGAGATAACATTTTATTTTT+AGG + Chr1:97101811-97101830 MsG0180005880.01.T01:CDS 20.0%
!!! TAATCATTTGGACTTTTTAT+TGG - Chr1:97101397-97101416 None:intergenic 20.0%
!!! TTTTGAATTGATGATTTTGA+TGG - Chr1:97101093-97101112 None:intergenic 20.0%
!!! TTTTTAGATATCATTAGCAT+TGG - Chr1:97101127-97101146 None:intergenic 20.0%
! AAAGTTTACGATTATTAGCA+CGG - Chr1:97101231-97101250 None:intergenic 25.0%
! AACAAATAGTTCTTCTATAG+AGG + Chr1:97101147-97101166 MsG0180005880.01.T01:CDS 25.0%
! ATTGTAGCAATTTATGATTG+TGG + Chr1:97101421-97101440 MsG0180005880.01.T01:CDS 25.0%
! CTAGTTTCAATTTGTATACA+TGG - Chr1:97101744-97101763 None:intergenic 25.0%
! GCTACAATCATATAATCATT+TGG - Chr1:97101409-97101428 None:intergenic 25.0%
!! TAGTTATCGTTTTCCATATT+GGG + Chr1:97101945-97101964 MsG0180005880.01.T01:CDS 25.0%
!!! AACATTTTATTTTTAGGAGC+CGG + Chr1:97101817-97101836 MsG0180005880.01.T01:CDS 25.0%
!!! AAGATCGTATCCTTTAATTT+TGG + Chr1:97101562-97101581 MsG0180005880.01.T01:CDS 25.0%
AAGAATCAAACTAAGAGGAA+GGG - Chr1:97100993-97101012 None:intergenic 30.0%
ATCCTTAAAAGGACTCATTA+GGG - Chr1:97101314-97101333 None:intergenic 30.0%
ATGCAAGGTATATCCTTAAA+AGG - Chr1:97101325-97101344 None:intergenic 30.0%
GACTCAATTTACTTTGCTAA+TGG + Chr1:97101889-97101908 MsG0180005880.01.T01:CDS 30.0%
TATCCTTAAAAGGACTCATT+AGG - Chr1:97101315-97101334 None:intergenic 30.0%
TGGTTATTCAGATGATACTT+CGG + Chr1:97101582-97101601 MsG0180005880.01.T01:CDS 30.0%
TTGTCAAGAATCAAACTAAG+AGG - Chr1:97100998-97101017 None:intergenic 30.0%
TTGTTGAAACTTGAGAGTTT+GGG + Chr1:97101790-97101809 MsG0180005880.01.T01:CDS 30.0%
! CTAGTTATCGTTTTCCATAT+TGG + Chr1:97101944-97101963 MsG0180005880.01.T01:CDS 30.0%
! TAAAGGATACGATCTTGTTT+CGG - Chr1:97101558-97101577 None:intergenic 30.0%
AAATGTGGCAGAATCCAATA+AGG - Chr1:97101976-97101995 None:intergenic 35.0%
AATCACTAGAAGAAGAGCTA+TGG + Chr1:97101683-97101702 MsG0180005880.01.T01:CDS 35.0%
AATCTTGCTTATGTTGGAAG+AGG + Chr1:97101445-97101464 MsG0180005880.01.T01:CDS 35.0%
ACCTCTCAATTCTGTTAACA+AGG + Chr1:97101354-97101373 MsG0180005880.01.T01:CDS 35.0%
ACCTTGTTAACAGAATTGAG+AGG - Chr1:97101358-97101377 None:intergenic 35.0%
AGGACTCATTAGGGTTATAA+TGG - Chr1:97101305-97101324 None:intergenic 35.0%
ATAGAGGAGAATTGGTTGTA+TGG + Chr1:97101163-97101182 MsG0180005880.01.T01:CDS 35.0%
CAAGAATCAAACTAAGAGGA+AGG - Chr1:97100994-97101013 None:intergenic 35.0%
CAATAAGGACTATCCCAATA+TGG - Chr1:97101961-97101980 None:intergenic 35.0%
CACATAGATCATGTTTCGTT+TGG + Chr1:97101028-97101047 MsG0180005880.01.T01:CDS 35.0%
CATATTGGGATAGTCCTTAT+TGG + Chr1:97101959-97101978 MsG0180005880.01.T01:CDS 35.0%
CTTCTTCTAGTGATTTCACA+AGG - Chr1:97101678-97101697 None:intergenic 35.0%
CTTGTTGAAACTTGAGAGTT+TGG + Chr1:97101789-97101808 MsG0180005880.01.T01:CDS 35.0%
GGCATACCTGATATTGAAAA+GGG - Chr1:97101210-97101229 None:intergenic 35.0%
GGTTATTCAGATGATACTTC+GGG + Chr1:97101583-97101602 MsG0180005880.01.T01:CDS 35.0%
GTTCTTCTATAGAGGAGAAT+TGG + Chr1:97101155-97101174 MsG0180005880.01.T01:CDS 35.0%
TGTGGTAATCTTGCTTATGT+TGG + Chr1:97101439-97101458 MsG0180005880.01.T01:CDS 35.0%
TGTTAACAGAATTGAGAGGT+GGG - Chr1:97101354-97101373 None:intergenic 35.0%
TTGTTAACAGAATTGAGAGG+TGG - Chr1:97101355-97101374 None:intergenic 35.0%
! AACCCTAATGAGTCCTTTTA+AGG + Chr1:97101309-97101328 MsG0180005880.01.T01:CDS 35.0%
AAGAGCTATGGATGGTAAGA+AGG + Chr1:97101695-97101714 MsG0180005880.01.T01:CDS 40.0%
AATCGTAAACTTTCGCTCTG+TGG + Chr1:97101238-97101257 MsG0180005880.01.T01:CDS 40.0%
ACTAGAAGAAGAGCTATGGA+TGG + Chr1:97101687-97101706 MsG0180005880.01.T01:CDS 40.0%
CGGCATACCTGATATTGAAA+AGG - Chr1:97101211-97101230 None:intergenic 40.0%
CTACAAATGCAAACCAACCA+TGG - Chr1:97101270-97101289 None:intergenic 40.0%
TTGGAAGAGGTCAGCAAAAT+TGG + Chr1:97101458-97101477 MsG0180005880.01.T01:CDS 40.0%
! ATGGCACCCTTTTCAATATC+AGG + Chr1:97101201-97101220 MsG0180005880.01.T01:CDS 40.0%
! GTGTTCAAGCTTCTCACTTT+TGG - Chr1:97101770-97101789 None:intergenic 40.0%
!! CATTAGCATTGGTAGTGCAA+TGG - Chr1:97101116-97101135 None:intergenic 40.0%
AGAGAAATATGACGCCGACA+CGG - Chr1:97101854-97101873 None:intergenic 45.0%
CGACACGGAAATTGAATCTC+CGG - Chr1:97101839-97101858 None:intergenic 45.0%
CGGAGATTCAATTTCCGTGT+CGG + Chr1:97101837-97101856 MsG0180005880.01.T01:CDS 45.0%
AGAGGTGGGAGAGTAATGCA+AGG - Chr1:97101340-97101359 None:intergenic 50.0%
!! TTGGTGCTGTGTGCAAGACT+TGG + Chr1:97101047-97101066 MsG0180005880.01.T01:CDS 50.0%
!! TCTGTGGCTCTAGCCATGGT+TGG + Chr1:97101254-97101273 MsG0180005880.01.T01:CDS 55.0%
!! TCGCTCTGTGGCTCTAGCCA+TGG + Chr1:97101250-97101269 MsG0180005880.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 97100959 97102002 97100959 ID=MsG0180005880.01;Name=MsG0180005880.01
Chr1 mRNA 97100959 97102002 97100959 ID=MsG0180005880.01.T01;Parent=MsG0180005880.01;Name=MsG0180005880.01.T01;_AED=0.22;_eAED=0.22;_QI=0|-1|0|1|-1|1|1|0|347
Chr1 exon 97100959 97102002 97100959 ID=MsG0180005880.01.T01:exon:10750;Parent=MsG0180005880.01.T01
Chr1 CDS 97100959 97102002 97100959 ID=MsG0180005880.01.T01:cds;Parent=MsG0180005880.01.T01
Gene Sequence

>MsG0180005880.01.T01

ATGAAGAGACGAAATTGGGCAAATTTAGAAGCCCTTCCTCTTAGTTTGATTCTTGACAACTTAGAAGAACACATAGATCATGTTTCGTTTGGTGCTGTGTGCAAGACTTGGCGATCAATTGCAAAGTTTAGCCATCAAAATCATCAATTCAAAACCATTGCACTACCAATGCTAATGATATCTAAAAAAACAAATAGTTCTTCTATAGAGGAGAATTGGTTGTATGGTATTTTAAACAAAAGATGGCACCCTTTTCAATATCAGGTATGCCGTGCTAATAATCGTAAACTTTCGCTCTGTGGCTCTAGCCATGGTTGGTTTGCATTTGTAGATGATTCTAAGTCCATTATAACCCTAATGAGTCCTTTTAAGGATATACCTTGCATTACTCTCCCACCTCTCAATTCTGTTAACAAGGTTACTTTATCAGCTGATCCAATAAAAAGTCCAAATGATTATATGATTGTAGCAATTTATGATTGTGGTAATCTTGCTTATGTTGGAAGAGGTCAGCAAAATTGGACTTATATAGACACATCAAAATCTTCTTTCATTGATGTCATATTTTATAAAGGTCTATTAGTTGCTTTCAATAACCGAAACAAGATCGTATCCTTTAATTTTGGTTATTCAGATGATACTTCGGGTAAAACAACGATAACTTCAAACGTTGTTTTAGAAGAAAAAGATGAACATTGCTTTGTGCGAGATAAATTCCTTGTGAAATCACTAGAAGAAGAGCTATGGATGGTAAGAAGGTGTGACACGAGTATGTGTACATTCCATGTATACAAATTGAAACTAGATGCCAAAAGTGAGAAGCTTGAACACTTGTTGAAACTTGAGAGTTTGGGAGATAACATTTTATTTTTAGGAGCCGGAGATTCAATTTCCGTGTCGGCGTCATATTTCTCTAAGTCTTTGCAGAGAGACTCAATTTACTTTGCTAATGGATTGAAGATCTATAATATGAAGAATGGAACTGCTAGTTATCGTTTTCCATATTGGGATAGTCCTTATTGGATTCTGCCACATTTTCAATGA
Protein sequence

>MsG0180005880.01.T01

MKRRNWANLEALPLSLILDNLEEHIDHVSFGAVCKTWRSIAKFSHQNHQFKTIALPMLMISKKTNSSSIEENWLYGILNKRWHPFQYQVCRANNRKLSLCGSSHGWFAFVDDSKSIITLMSPFKDIPCITLPPLNSVNKVTLSADPIKSPNDYMIVAIYDCGNLAYVGRGQQNWTYIDTSKSSFIDVIFYKGLLVAFNNRNKIVSFNFGYSDDTSGKTTITSNVVLEEKDEHCFVRDKFLVKSLEEELWMVRRCDTSMCTFHVYKLKLDAKSEKLEHLLKLESLGDNILFLGAGDSISVSASYFSKSLQRDSIYFANGLKIYNMKNGTASYRFPYWDSPYWILPHFQ*