AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580028517.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028517.01.T01 MTR_5g075210 89.429 350 8 2 1 322 1 349 0.0 625
MsG0580028517.01.T01 MTR_7g072630 36.340 388 135 14 1 318 1 346 3.45e-55 183
MsG0580028517.01.T01 MTR_7g072875 37.500 264 117 5 100 318 24 284 1.69e-42 148
MsG0580028517.01.T01 MTR_4g028930 57.143 105 42 1 218 319 276 380 1.27e-31 122
MsG0580028517.01.T01 MTR_8g087530 42.143 140 63 4 197 319 186 324 2.78e-24 101
MsG0580028517.01.T01 MTR_2g018030 52.941 68 32 0 252 319 276 343 1.74e-21 94.0
MsG0580028517.01.T01 MTR_0907s0020 51.613 62 30 0 253 314 102 163 3.18e-16 75.9
MsG0580028517.01.T01 MTR_8g103520 56.452 62 27 0 253 314 224 285 4.84e-16 77.4
MsG0580028517.01.T01 MTR_4g052040 57.377 61 26 0 256 316 102 162 7.20e-15 72.0
MsG0580028517.01.T01 MTR_7g105790 48.485 66 34 0 256 321 113 178 1.24e-14 72.0
MsG0580028517.01.T01 MTR_3g111780 43.000 100 57 0 218 317 163 262 1.69e-13 70.1
MsG0580028517.01.T01 MTR_4g132740 35.165 91 56 1 230 317 55 145 5.71e-13 65.9
MsG0580028517.01.T01 MTR_5g079710 43.284 67 38 0 244 310 82 148 6.15e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028517.01.T01 AT5G58360 39.091 330 146 13 1 319 5 290 9.27e-49 165
MsG0580028517.01.T01 AT1G06920 36.628 344 154 13 1 317 1 307 1.90e-46 159
MsG0580028517.01.T01 AT2G30400 34.648 355 163 15 1 321 1 320 9.03e-40 142
MsG0580028517.01.T01 AT5G01840 32.399 321 154 10 1 317 1 262 8.92e-34 125
MsG0580028517.01.T01 AT2G18500 53.623 69 32 0 249 317 222 290 1.07e-17 82.8
MsG0580028517.01.T01 AT4G18830 47.126 87 42 2 234 316 259 345 1.78e-17 82.4
MsG0580028517.01.T01 AT5G19650 51.515 66 32 0 252 317 153 218 1.33e-15 75.1
MsG0580028517.01.T01 AT3G52525 52.459 61 29 0 256 316 69 129 1.02e-14 71.2
MsG0580028517.01.T01 AT2G36026 50.000 56 28 0 259 314 92 147 2.11e-13 68.2
MsG0580028517.01.T01 AT4G04025 47.619 63 33 0 251 313 111 173 2.12e-11 62.4

Find 38 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTCTTTGAAATCACTTAT+TGG 0.184540 5:-81721250 None:intergenic
AGCTTTATACCTTGAGAATT+AGG 0.222952 5:-81721109 None:intergenic
CTTCTCTTTGAAGACCTTCT+TGG 0.239723 5:-81720639 None:intergenic
TAATGGAATGTTCAAATCTT+TGG 0.240864 5:-81720604 None:intergenic
TATAAGGGAATCAAAGGATT+TGG 0.325148 5:+81721300 MsG0580028517.01.T01:CDS
CTTGGTGAATCATTAAATAA+TGG 0.325243 5:-81720621 None:intergenic
ATTTCTCAAATGAACCAAAA+AGG 0.337952 5:+81720550 MsG0580028517.01.T01:CDS
TGATTGTGGAGAATAATATA+AGG 0.350640 5:+81721284 MsG0580028517.01.T01:CDS
AATGATGCAGGGTTTGTAGA+TGG 0.356794 5:+81721199 MsG0580028517.01.T01:CDS
TGGTTGAGAAGGCTTGTAAA+TGG 0.361373 5:-81720676 None:intergenic
TTCAAATCTTTGGTCTGAAT+TGG 0.372756 5:-81720594 None:intergenic
AAGATCTTTACATTCTAAGT+TGG 0.393025 5:-81721414 None:intergenic
AGCTTGTAAAACCAAGCATT+TGG 0.394500 5:-81720414 None:intergenic
CAACTGCAGTTAAGCAAATC+AGG 0.411925 5:-81720816 None:intergenic
AGATCTTTACATTCTAAGTT+GGG 0.428724 5:-81721413 None:intergenic
AGTATTTCAAAGAATGATGC+AGG 0.439556 5:+81721187 MsG0580028517.01.T01:CDS
TCTCCTTCTTTGACTAACTT+TGG 0.440086 5:-81721056 None:intergenic
TGTGATTGAACTTGATCAAA+TGG 0.456333 5:-81720696 None:intergenic
CAGATATGATACCAAATGCT+TGG 0.463165 5:+81720403 MsG0580028517.01.T01:CDS
TATCTCTTATGGGAAACAAC+AGG 0.478460 5:+81720370 None:intergenic
CTACCAAAGTTAGTCAAAGA+AGG 0.488982 5:+81721053 MsG0580028517.01.T01:CDS
AAATCATCAAGGAAGAGAAA+TGG 0.497520 5:+81720450 MsG0580028517.01.T01:CDS
AAGGGAATCAAAGGATTTGG+AGG 0.497577 5:+81721303 MsG0580028517.01.T01:CDS
TGAGACCTTTGAGATGTTGT+TGG 0.501197 5:-81720510 None:intergenic
GATTGTGGAGAATAATATAA+GGG 0.505867 5:+81721285 MsG0580028517.01.T01:CDS
AAGTGATTTCAAAGAATCAA+TGG 0.507334 5:+81721255 MsG0580028517.01.T01:CDS
ACTTGATCAAATGGTTGAGA+AGG 0.519734 5:-81720687 None:intergenic
ATCAATGGTGGAAATGATTG+TGG 0.520915 5:+81721270 MsG0580028517.01.T01:CDS
GAATAATATAAGGGAATCAA+AGG 0.538128 5:+81721294 MsG0580028517.01.T01:CDS
TATTTAATGATTCACCAAGA+AGG 0.540531 5:+81720625 MsG0580028517.01.T01:CDS
AAAACTTCTCCTAATTCTCA+AGG 0.546162 5:+81721100 MsG0580028517.01.T01:CDS
CAAGAAGGTCTTCAAAGAGA+AGG 0.551446 5:+81720640 MsG0580028517.01.T01:CDS
AAGATATGAGCAAATCATCA+AGG 0.573800 5:+81720439 MsG0580028517.01.T01:CDS
AAGAAGGTCTTCAAAGAGAA+GGG 0.575024 5:+81720641 MsG0580028517.01.T01:CDS
TGAGCAAATTTGGTATGACA+TGG 0.588029 5:+81721390 MsG0580028517.01.T01:CDS
CTTCACCAACAACATCTCAA+AGG 0.609838 5:+81720505 MsG0580028517.01.T01:CDS
GTATTTCAAAGAATGATGCA+GGG 0.644805 5:+81721188 MsG0580028517.01.T01:CDS
TGATTTCAAAGAATCAATGG+TGG 0.678321 5:+81721258 MsG0580028517.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTTTTGCTAACAAGTTT+TGG - Chr5:81721148-81721167 None:intergenic 20.0%
! AAGTGATTTCAAAGAATCAA+TGG + Chr5:81721255-81721274 MsG0580028517.01.T01:CDS 25.0%
! ATTTCTCAAATGAACCAAAA+AGG + Chr5:81720550-81720569 MsG0580028517.01.T01:CDS 25.0%
! CTTGGTGAATCATTAAATAA+TGG - Chr5:81720624-81720643 None:intergenic 25.0%
! GAATAATATAAGGGAATCAA+AGG + Chr5:81721294-81721313 MsG0580028517.01.T01:CDS 25.0%
! GATTGTGGAGAATAATATAA+GGG + Chr5:81721285-81721304 MsG0580028517.01.T01:CDS 25.0%
! TAATGGAATGTTCAAATCTT+TGG - Chr5:81720607-81720626 None:intergenic 25.0%
! TATTTAATGATTCACCAAGA+AGG + Chr5:81720625-81720644 MsG0580028517.01.T01:CDS 25.0%
! TGATTGTGGAGAATAATATA+AGG + Chr5:81721284-81721303 MsG0580028517.01.T01:CDS 25.0%
!! AATAACTTACCATTCCTTTT+TGG - Chr5:81720567-81720586 None:intergenic 25.0%
!! ATGAACAATGAATCTTTTCA+AGG + Chr5:81720876-81720895 MsG0580028517.01.T01:CDS 25.0%
!! TTAAAGCTTTTGAGCAAATT+TGG + Chr5:81721380-81721399 MsG0580028517.01.T01:CDS 25.0%
!!! GATTCTTTGAAATCACTTAT+TGG - Chr5:81721253-81721272 None:intergenic 25.0%
AAAACTTCTCCTAATTCTCA+AGG + Chr5:81721100-81721119 MsG0580028517.01.T01:CDS 30.0%
AAATCATCAAGGAAGAGAAA+TGG + Chr5:81720450-81720469 MsG0580028517.01.T01:CDS 30.0%
AAGATATGAGCAAATCATCA+AGG + Chr5:81720439-81720458 MsG0580028517.01.T01:CDS 30.0%
AGTATTTCAAAGAATGATGC+AGG + Chr5:81721187-81721206 MsG0580028517.01.T01:CDS 30.0%
ATTTGAAGAAAAGATTGCCA+AGG + Chr5:81720973-81720992 MsG0580028517.01.T01:intron 30.0%
GAAGAAAAAGTCAAATAGCT+AGG + Chr5:81721077-81721096 MsG0580028517.01.T01:CDS 30.0%
GTATTTCAAAGAATGATGCA+GGG + Chr5:81721188-81721207 MsG0580028517.01.T01:CDS 30.0%
TATAAGGGAATCAAAGGATT+TGG + Chr5:81721300-81721319 MsG0580028517.01.T01:CDS 30.0%
TCAAATGAACCAAAAAGGAA+TGG + Chr5:81720555-81720574 MsG0580028517.01.T01:CDS 30.0%
TGATTTCAAAGAATCAATGG+TGG + Chr5:81721258-81721277 MsG0580028517.01.T01:CDS 30.0%
TGTGATTGAACTTGATCAAA+TGG - Chr5:81720699-81720718 None:intergenic 30.0%
TTCAAATCTTTGGTCTGAAT+TGG - Chr5:81720597-81720616 None:intergenic 30.0%
TTCACTTGCTTTGTCAATAT+TGG - Chr5:81720953-81720972 None:intergenic 30.0%
! AGCTTTATACCTTGAGAATT+AGG - Chr5:81721112-81721131 None:intergenic 30.0%
! GGCAATTCTAAAAACTTAGA+TGG + Chr5:81720897-81720916 MsG0580028517.01.T01:CDS 30.0%
! TTTGATGCATTTTCACAACT+TGG + Chr5:81720921-81720940 MsG0580028517.01.T01:CDS 30.0%
AAGAAGGTCTTCAAAGAGAA+GGG + Chr5:81720641-81720660 MsG0580028517.01.T01:CDS 35.0%
ACTTGATCAAATGGTTGAGA+AGG - Chr5:81720690-81720709 None:intergenic 35.0%
AGCTTGTAAAACCAAGCATT+TGG - Chr5:81720417-81720436 None:intergenic 35.0%
CAGATATGATACCAAATGCT+TGG + Chr5:81720403-81720422 MsG0580028517.01.T01:CDS 35.0%
CTACCAAAGTTAGTCAAAGA+AGG + Chr5:81721053-81721072 MsG0580028517.01.T01:CDS 35.0%
TCTCCTTCTTTGACTAACTT+TGG - Chr5:81721059-81721078 None:intergenic 35.0%
TGAGCAAATTTGGTATGACA+TGG + Chr5:81721390-81721409 MsG0580028517.01.T01:CDS 35.0%
! ATCAATGGTGGAAATGATTG+TGG + Chr5:81721270-81721289 MsG0580028517.01.T01:CDS 35.0%
AAGGGAATCAAAGGATTTGG+AGG + Chr5:81721303-81721322 MsG0580028517.01.T01:CDS 40.0%
AATGATGCAGGGTTTGTAGA+TGG + Chr5:81721199-81721218 MsG0580028517.01.T01:CDS 40.0%
CAACTGCAGTTAAGCAAATC+AGG - Chr5:81720819-81720838 None:intergenic 40.0%
CAAGAAGGTCTTCAAAGAGA+AGG + Chr5:81720640-81720659 MsG0580028517.01.T01:CDS 40.0%
CTTCACCAACAACATCTCAA+AGG + Chr5:81720505-81720524 MsG0580028517.01.T01:CDS 40.0%
TGGTTGAGAAGGCTTGTAAA+TGG - Chr5:81720679-81720698 None:intergenic 40.0%
TTCAGTTGAACTTCGCGATT+CGG - Chr5:81721002-81721021 None:intergenic 40.0%
! CTTCTCTTTGAAGACCTTCT+TGG - Chr5:81720642-81720661 None:intergenic 40.0%
!! TGAGACCTTTGAGATGTTGT+TGG - Chr5:81720513-81720532 None:intergenic 40.0%
!! ACTTCGCGATTCGGTCACCT+TGG - Chr5:81720993-81721012 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 81720378 81721429 81720378 ID=MsG0580028517.01;Name=MsG0580028517.01
Chr5 mRNA 81720378 81721429 81720378 ID=MsG0580028517.01.T01;Parent=MsG0580028517.01;Name=MsG0580028517.01.T01;_AED=0.20;_eAED=0.21;_QI=0|0|0|1|1|1|2|0|322
Chr5 exon 81720378 81720942 81720378 ID=MsG0580028517.01.T01:exon:11071;Parent=MsG0580028517.01.T01
Chr5 exon 81721026 81721429 81721026 ID=MsG0580028517.01.T01:exon:11072;Parent=MsG0580028517.01.T01
Chr5 CDS 81720378 81720942 81720378 ID=MsG0580028517.01.T01:cds;Parent=MsG0580028517.01.T01
Chr5 CDS 81721026 81721429 81721026 ID=MsG0580028517.01.T01:cds;Parent=MsG0580028517.01.T01
Gene Sequence

>MsG0580028517.01.T01

ATGGGAAACAACAGGTTCAAATTTTCAGATATGATACCAAATGCTTGGTTTTACAAGCTAAAAGATATGAGCAAATCATCAAGGAAGAGAAATGGTTCTCATCATGTTATGAAGAACAAAGTTACATCTTCACCAACAACATCTCAAAGGTCTCATTCAAGCTATTCACAATATTTCTCAAATGAACCAAAAAGGAATGGTAAGTTATTCAACACACCAATTCAGACCAAAGATTTGAACATTCCATTATTTAATGATTCACCAAGAAGGTCTTCAAAGAGAAGGGCTAAAAGAAAAACCATTTACAAGCCTTCTCAACCATTTGATCAAGTTCAATCACAAGAACATGATTTGTCTTCAATTGAAAATTCTTCTTCTGAGTCTTATCATAATCAATGTGTTTCTTCTGAATCTGAATTTTGTGATAGCTTTTCTGTTCCTGATTTGCTTAACTGCAGTTGTAGAGTTAGTTCTTCTACTAATGATATCATCATAGATATGAACAATGAATCTTTTCAAGGCAATTCTAAAAACTTAGATGGTTTTGATGCATTTTCACAACTTGACGAGCGAAAAATCGATCATTCATTCTCTACCAAAGTTAGTCAAAGAAGGAGAAGAAAAAGTCAAATAGCTAGGAAAACTTCTCCTAATTCTCAAGGTATAAAGCTTAGAGTGAATTCTCCAAAACTTGTTAGCAAAAAAATTCAAGCTAGTGCAAGAAAGAGTATTTCAAAGAATGATGCAGGGTTTGTAGATGGATTTGCTGTTGTTAAGTCTTCAATTGATCCAATAAGTGATTTCAAAGAATCAATGGTGGAAATGATTGTGGAGAATAATATAAGGGAATCAAAGGATTTGGAGGATTTACTTGCTTGCTATCTTTCTCTTAATTCAAGTGAATATCATGATGTTATAGTTAAAGCTTTTGAGCAAATTTGGTATGACATGGCCCAACTTAGAATGTAA

Protein sequence

>MsG0580028517.01.T01

MGNNRFKFSDMIPNAWFYKLKDMSKSSRKRNGSHHVMKNKVTSSPTTSQRSHSSYSQYFSNEPKRNGKLFNTPIQTKDLNIPLFNDSPRRSSKRRAKRKTIYKPSQPFDQVQSQEHDLSSIENSSSESYHNQCVSSESEFCDSFSVPDLLNCSCRVSSSTNDIIIDMNNESFQGNSKNLDGFDAFSQLDERKIDHSFSTKVSQRRRRKSQIARKTSPNSQGIKLRVNSPKLVSKKIQASARKSISKNDAGFVDGFAVVKSSIDPISDFKESMVEMIVENNIRESKDLEDLLACYLSLNSSEYHDVIVKAFEQIWYDMAQLRM*