AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038998.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038998.01.T01 MTR_7g066280 86.207 87 12 0 1 87 327 413 3.40e-45 149
MsG0780038998.01.T01 MTR_7g066310 86.207 87 12 0 1 87 320 406 6.34e-45 149
MsG0780038998.01.T01 MTR_7g066340 83.908 87 14 0 1 87 390 476 3.33e-43 145
MsG0780038998.01.T01 MTR_7g066260 76.596 94 15 1 1 87 399 492 7.77e-38 132
MsG0780038998.01.T01 MTR_7g066390 73.333 90 20 1 1 86 59 148 2.23e-36 120
MsG0780038998.01.T01 MTR_7g066360 69.892 93 21 1 1 86 386 478 1.78e-35 125
MsG0780038998.01.T01 MTR_7g066290 87.692 65 8 0 1 65 370 434 3.30e-32 115
MsG0780038998.01.T01 MTR_7g066400 73.611 72 19 0 1 72 374 445 3.64e-26 99.8
MsG0780038998.01.T01 MTR_7g066570 65.823 79 25 1 1 79 417 493 3.96e-23 91.7
MsG0780038998.01.T01 MTR_1g014060 70.312 64 19 0 1 64 321 384 1.00e-21 87.0
MsG0780038998.01.T01 MTR_7g066480 62.121 66 25 0 1 66 358 423 2.76e-21 86.3
MsG0780038998.01.T01 MTR_7g066350 85.000 60 9 0 1 60 386 445 7.48e-21 85.1
MsG0780038998.01.T01 MTR_7g066490 62.121 66 25 0 1 66 344 409 7.59e-21 85.1
MsG0780038998.01.T01 MTR_7g066430 64.062 64 23 0 1 64 422 485 1.70e-19 81.3
MsG0780038998.01.T01 MTR_7g062280 63.333 60 22 0 1 60 422 481 6.87e-18 76.6
MsG0780038998.01.T01 MTR_7g012680 61.429 70 27 0 1 70 382 451 9.80e-18 76.3
MsG0780038998.01.T01 MTR_7g058710 60.938 64 25 0 1 64 414 477 1.78e-17 75.5
MsG0780038998.01.T01 MTR_7g066410 60.938 64 25 0 1 64 449 512 2.05e-17 75.5
MsG0780038998.01.T01 MTR_7g066680 47.573 103 19 2 1 72 244 342 5.19e-17 73.9
MsG0780038998.01.T01 MTR_7g062300 62.295 61 22 1 1 60 409 469 1.34e-16 73.2
MsG0780038998.01.T01 MTR_7g066580 66.667 57 19 0 1 57 382 438 1.61e-16 72.8
MsG0780038998.01.T01 MTR_7g063760 54.098 61 27 1 1 60 3 63 2.57e-16 67.0
MsG0780038998.01.T01 MTR_7g063920 58.333 60 25 0 1 60 367 426 4.83e-16 71.6
MsG0780038998.01.T01 MTR_7g058700 59.375 64 26 0 1 64 858 921 5.00e-16 71.6
MsG0780038998.01.T01 MTR_1g041315 75.000 48 12 0 1 48 404 451 1.64e-15 70.1
MsG0780038998.01.T01 MTR_7g063670 55.738 61 26 1 1 60 387 447 5.18e-15 68.6
MsG0780038998.01.T01 MTR_7g063880 56.667 60 26 0 1 60 399 458 5.36e-15 68.6
MsG0780038998.01.T01 MTR_7g063850 50.794 63 31 0 2 64 220 282 2.17e-14 66.2
MsG0780038998.01.T01 MTR_3g007740 57.377 61 25 1 1 60 378 438 2.60e-14 66.6
MsG0780038998.01.T01 MTR_7g100420 51.562 64 31 0 1 64 334 397 2.92e-14 66.6
MsG0780038998.01.T01 MTR_7g063720 56.667 60 26 0 1 60 163 222 9.09e-14 64.3
MsG0780038998.01.T01 MTR_7g063660 50.000 60 30 0 1 60 408 467 2.79e-13 63.5
MsG0780038998.01.T01 MTR_7g063840 53.333 60 28 0 1 60 404 463 3.74e-13 63.5
MsG0780038998.01.T01 MTR_2g029400 59.259 54 22 0 1 54 352 405 5.12e-13 62.8
MsG0780038998.01.T01 MTR_4g017830 47.297 74 39 0 2 75 439 512 6.71e-13 62.8
MsG0780038998.01.T01 MTR_7g063820 56.452 62 26 1 1 61 414 475 7.13e-13 62.4
MsG0780038998.01.T01 MTR_4g019310 54.098 61 27 1 1 60 426 486 1.56e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 23 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTACCTTTGGCTTCTTT+AGG 0.164499 7:+56596654 None:intergenic
TTCTACCTTTGGCTTCTTTA+GGG 0.200899 7:+56596655 None:intergenic
TGTCATCAGTATTGGTGTTA+AGG 0.392824 7:-56597366 MsG0780038998.01.T01:CDS
GGCAGGAAGTAGACCTGTTC+AGG 0.399180 7:-56596702 MsG0780038998.01.T01:intron
ATTTCCTCCACGTCATTAAG+TGG 0.427105 7:+56597389 None:intergenic
GATGACAAATTAGCCTGAAC+AGG 0.442567 7:+56596689 None:intergenic
TAGATATGAAATACCATCAA+TGG 0.443061 7:+56597427 None:intergenic
CTACCTTTGGCTTCTTTAGG+GGG 0.462976 7:+56596657 None:intergenic
ATACTTTACTAACCTATGTA+CGG 0.469112 7:+56597173 None:intergenic
CATTATGGTTACAGACGACT+TGG 0.472618 7:-56597468 None:intergenic
ACTCCAATGTCATCCATTGA+TGG 0.495461 7:-56597440 MsG0780038998.01.T01:CDS
TCAACATCTGCATTGACAAA+CGG 0.506678 7:-56597203 MsG0780038998.01.T01:CDS
TACTTTACTAACCTATGTAC+GGG 0.511198 7:+56597174 None:intergenic
TTCATATCTAGAAAGAATGA+AGG 0.515892 7:-56597414 MsG0780038998.01.T01:CDS
GAGGAAATTGTCATCAGTAT+TGG 0.518303 7:-56597374 MsG0780038998.01.T01:CDS
TCTACCTTTGGCTTCTTTAG+GGG 0.532812 7:+56596656 None:intergenic
ACTAACCTATGTACGGGTTG+AGG 0.537932 7:+56597180 None:intergenic
GTTTGTCAATGCAGATGTTG+AGG 0.593841 7:+56597205 None:intergenic
CATCAGTATTGGTGTTAAGG+AGG 0.594946 7:-56597363 MsG0780038998.01.T01:intron
AACGGCCTCAACCCGTACAT+AGG 0.595947 7:-56597185 MsG0780038998.01.T01:intron
ATACCATCAATGGATGACAT+TGG 0.606080 7:+56597437 None:intergenic
GAAGGTTCCACTTAATGACG+TGG 0.687519 7:-56597396 MsG0780038998.01.T01:CDS
GGTTCCACTTAATGACGTGG+AGG 0.698921 7:-56597393 MsG0780038998.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAGTTTTTAAAGATTAACTC+TGG + Chr7:56597163-56597182 None:intergenic 20.0%
! AGAATTAAAGGAAGAAAGAA+TGG - Chr7:56597265-56597284 MsG0780038998.01.T01:intron 25.0%
! AGCAAACTTTAGTAATTTAG+TGG + Chr7:56597192-56597211 None:intergenic 25.0%
! ATACTTTACTAACCTATGTA+CGG + Chr7:56596943-56596962 None:intergenic 25.0%
! TAGATATGAAATACCATCAA+TGG + Chr7:56596689-56596708 None:intergenic 25.0%
! TCATTATATGTTCATGTACA+TGG - Chr7:56597390-56597409 MsG0780038998.01.T01:CDS 25.0%
! TGGAATAAGAAGAGAATTAA+AGG - Chr7:56597253-56597272 MsG0780038998.01.T01:intron 25.0%
! TTCATATCTAGAAAGAATGA+AGG - Chr7:56596699-56596718 MsG0780038998.01.T01:CDS 25.0%
!! ATGAAAGACTTTTCTAAATG+AGG + Chr7:56596794-56596813 None:intergenic 25.0%
!! TCAAATATTTTTCTCCAAGT+AGG - Chr7:56597093-56597112 MsG0780038998.01.T01:intron 25.0%
!! TTACAAAAACCATTCAAGTT+GGG - Chr7:56597211-56597230 MsG0780038998.01.T01:CDS 25.0%
!!! ATGTACAAAGAAGTTTTGTT+TGG + Chr7:56596970-56596989 None:intergenic 25.0%
!!! CGTATTACCAAAATTTTGAT+TGG - Chr7:56597048-56597067 MsG0780038998.01.T01:intron 25.0%
!!! GAGAATTAGTTTTAAATCAG+AGG - Chr7:56597136-56597155 MsG0780038998.01.T01:intron 25.0%
CTTACAAAAACCATTCAAGT+TGG - Chr7:56597210-56597229 MsG0780038998.01.T01:CDS 30.0%
GGGGTAATTAAAAATGAACA+TGG - Chr7:56597233-56597252 MsG0780038998.01.T01:CDS 30.0%
TACTTTACTAACCTATGTAC+GGG + Chr7:56596942-56596961 None:intergenic 30.0%
! AGCACAACCAATCAAAATTT+TGG + Chr7:56597058-56597077 None:intergenic 30.0%
!! TACAAAAACCATTCAAGTTG+GGG - Chr7:56597212-56597231 MsG0780038998.01.T01:CDS 30.0%
ATACCATCAATGGATGACAT+TGG + Chr7:56596679-56596698 None:intergenic 35.0%
GAGGAAATTGTCATCAGTAT+TGG - Chr7:56596739-56596758 MsG0780038998.01.T01:intron 35.0%
TATATGTTCATGTACATGGC+AGG - Chr7:56597394-56597413 MsG0780038998.01.T01:CDS 35.0%
TCATGAAGGTTGTGTAATCA+TGG - Chr7:56597316-56597335 MsG0780038998.01.T01:intron 35.0%
! TCAACATCTGCATTGACAAA+CGG - Chr7:56596910-56596929 MsG0780038998.01.T01:intron 35.0%
! TTCTACCTTTGGCTTCTTTA+GGG + Chr7:56597461-56597480 None:intergenic 35.0%
! TTTCTACCTTTGGCTTCTTT+AGG + Chr7:56597462-56597481 None:intergenic 35.0%
!! ACAAAAACCATTCAAGTTGG+GGG - Chr7:56597213-56597232 MsG0780038998.01.T01:CDS 35.0%
!! TGTCATCAGTATTGGTGTTA+AGG - Chr7:56596747-56596766 MsG0780038998.01.T01:intron 35.0%
ACTCCAATGTCATCCATTGA+TGG - Chr7:56596673-56596692 MsG0780038998.01.T01:CDS 40.0%
AGGAAGAAAGAATGGTCGAT+AGG - Chr7:56597273-56597292 MsG0780038998.01.T01:intron 40.0%
ATTTCCTCCACGTCATTAAG+TGG + Chr7:56596727-56596746 None:intergenic 40.0%
CATTAACCAGACTACCTACT+TGG + Chr7:56597110-56597129 None:intergenic 40.0%
GTTTGTCAATGCAGATGTTG+AGG + Chr7:56596911-56596930 None:intergenic 40.0%
TAATTACCCCCCAACTTGAA+TGG + Chr7:56597223-56597242 None:intergenic 40.0%
! GATGACAAATTAGCCTGAAC+AGG + Chr7:56597427-56597446 None:intergenic 40.0%
! TCTACCTTTGGCTTCTTTAG+GGG + Chr7:56597460-56597479 None:intergenic 40.0%
! TTTTCTCCAAGTAGGTAGTC+TGG - Chr7:56597101-56597120 MsG0780038998.01.T01:intron 40.0%
!! CAAAAACCATTCAAGTTGGG+GGG - Chr7:56597214-56597233 MsG0780038998.01.T01:CDS 40.0%
!! CATCAGTATTGGTGTTAAGG+AGG - Chr7:56596750-56596769 MsG0780038998.01.T01:intron 40.0%
!! GAGAATAGAGAGTGTCATGA+AGG - Chr7:56597302-56597321 MsG0780038998.01.T01:intron 40.0%
GAAGGTTCCACTTAATGACG+TGG - Chr7:56596717-56596736 MsG0780038998.01.T01:intron 45.0%
! ACTAACCTATGTACGGGTTG+AGG + Chr7:56596936-56596955 None:intergenic 45.0%
! CTACCTTTGGCTTCTTTAGG+GGG + Chr7:56597459-56597478 None:intergenic 45.0%
GGTTCCACTTAATGACGTGG+AGG - Chr7:56596720-56596739 MsG0780038998.01.T01:intron 50.0%
TAGCCCCCTAAAGAAGCCAA+AGG - Chr7:56597453-56597472 MsG0780038998.01.T01:CDS 50.0%
AACGGCCTCAACCCGTACAT+AGG - Chr7:56596928-56596947 MsG0780038998.01.T01:intron 55.0%
GGCAGGAAGTAGACCTGTTC+AGG - Chr7:56597411-56597430 MsG0780038998.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 56596649 56597486 56596649 ID=MsG0780038998.01;Name=MsG0780038998.01
Chr7 mRNA 56596649 56597486 56596649 ID=MsG0780038998.01.T01;Parent=MsG0780038998.01;Name=MsG0780038998.01.T01;_AED=0.50;_eAED=0.51;_QI=0|0|0|1|0|0|3|0|87
Chr7 exon 56597364 56597486 56597364 ID=MsG0780038998.01.T01:exon:8445;Parent=MsG0780038998.01.T01
Chr7 exon 56597186 56597255 56597186 ID=MsG0780038998.01.T01:exon:8444;Parent=MsG0780038998.01.T01
Chr7 exon 56596649 56596719 56596649 ID=MsG0780038998.01.T01:exon:8443;Parent=MsG0780038998.01.T01
Chr7 CDS 56597364 56597486 56597364 ID=MsG0780038998.01.T01:cds;Parent=MsG0780038998.01.T01
Chr7 CDS 56597186 56597255 56597186 ID=MsG0780038998.01.T01:cds;Parent=MsG0780038998.01.T01
Chr7 CDS 56596649 56596719 56596649 ID=MsG0780038998.01.T01:cds;Parent=MsG0780038998.01.T01
Gene Sequence

>MsG0780038998.01.T01

ATGGTTACAGACGACTTGGTTGTAACTCCAATGTCATCCATTGATGGTATTTCATATCTAGAAAGAATGAAGGTTCCACTTAATGACGTGGAGGAAATTGTCATCAGTATTGGTGTTAAGGAGCGTCTCAGCATACTTAAAGCTTCATTGACCTCAACATCTGCATTGACAAACGGCCTCAACCCGTACATAGGAAGTAGACCTGTTCAGGCTAATTTGTCATCTAATGCTAGCCCCCTAAAGAAGCCAAAGGTAGAAAAATGA
Protein sequence

>MsG0780038998.01.T01

MVTDDLVVTPMSSIDGISYLERMKVPLNDVEEIVISIGVKERLSILKASLTSTSALTNGLNPYIGSRPVQANLSSNASPLKKPKVEK*