AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004500.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004500.01.T01 MTR_1g081260 99.670 303 1 0 1 303 1 303 0.0 620
MsG0180004500.01.T01 MTR_7g114790 72.026 311 72 7 1 302 1 305 1.59e-156 439
MsG0180004500.01.T01 MTR_7g095100 64.725 309 101 4 1 303 1 307 2.85e-144 408
MsG0180004500.01.T01 MTR_3g076610 35.507 276 152 3 4 257 7 278 2.00e-61 198
MsG0180004500.01.T01 MTR_5g069570 37.647 255 155 3 10 260 14 268 2.26e-60 195
MsG0180004500.01.T01 MTR_4g104760 36.122 263 152 6 4 253 7 266 2.71e-59 192
MsG0180004500.01.T01 MTR_3g082430 40.773 233 133 3 26 253 12 244 6.71e-58 188
MsG0180004500.01.T01 MTR_4g055230 36.760 321 166 10 1 301 1 304 1.32e-57 187
MsG0180004500.01.T01 MTR_2g084965 38.433 268 146 7 6 254 8 275 4.47e-50 168
MsG0180004500.01.T01 MTR_7g103900 33.129 326 177 10 1 302 1 309 3.32e-49 166
MsG0180004500.01.T01 MTR_3g106250 36.466 266 142 8 4 253 6 260 3.76e-49 167
MsG0180004500.01.T01 MTR_5g096570 33.910 289 175 5 23 301 1178 1460 1.14e-48 174
MsG0180004500.01.T01 MTR_8g069535 80.488 82 15 1 8 89 9 89 1.18e-32 121
MsG0180004500.01.T01 MTR_8g069535 66.102 59 20 0 176 234 89 147 6.30e-17 79.0
MsG0180004500.01.T01 MTR_1g013100 29.643 280 154 13 4 261 8 266 1.32e-32 123
MsG0180004500.01.T01 MTR_7g103900 30.043 233 138 7 1 212 1 229 2.34e-28 109
MsG0180004500.01.T01 MTR_5g069550 32.143 168 98 2 10 175 14 167 1.58e-24 98.2
MsG0180004500.01.T01 MTR_0716s0040 58.228 79 11 1 195 273 15 71 1.19e-22 89.7
MsG0180004500.01.T01 MTR_0716s0020 71.154 52 11 1 56 107 3 50 3.66e-16 72.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004500.01.T01 AT5G28150 65.789 304 88 4 1 303 1 289 1.72e-139 395
MsG0180004500.01.T01 AT3G04860 64.379 306 89 6 1 303 1 289 4.83e-135 384
MsG0180004500.01.T01 AT2G04220 41.200 250 142 3 14 259 12 260 2.09e-65 207
MsG0180004500.01.T01 AT4G12690 41.975 243 135 4 15 253 9 249 3.24e-64 204
MsG0180004500.01.T01 AT4G12690 41.975 243 135 4 15 253 9 249 3.24e-64 204
MsG0180004500.01.T01 AT5G48270 36.260 262 149 9 5 253 13 269 7.69e-52 173
MsG0180004500.01.T01 AT2G27770 33.433 335 173 10 1 301 1 319 2.06e-49 167
MsG0180004500.01.T01 AT3G13229 34.894 235 142 4 33 256 8 242 3.90e-45 155
MsG0180004500.01.T01 AT5G11000 37.302 252 117 9 31 253 33 272 7.98e-43 151
MsG0180004500.01.T01 AT2G25200 28.571 259 147 8 6 242 16 258 1.36e-30 118
MsG0180004500.01.T01 AT2G36470 26.471 272 145 8 1 241 1 248 9.41e-20 88.2

Find 42 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTCTCTCAAGATAAAATT+TGG 0.088174 1:-78929356 MsG0180004500.01.T01:CDS
AAACAAATGGTTCTTCTTCT+TGG 0.224208 1:-78929738 MsG0180004500.01.T01:CDS
TTTATTGGGATGTTTATAAT+TGG 0.245969 1:-78929425 MsG0180004500.01.T01:CDS
GTCTTGAAGTTGAGGTTTAT+TGG 0.251621 1:-78929440 MsG0180004500.01.T01:CDS
AACACCTTGTTGCTGCAATT+TGG 0.305444 1:+78929269 None:intergenic
GATCTTTCTTCAGCTAGATT+TGG 0.328970 1:-78929810 MsG0180004500.01.T01:CDS
GTTTACCAGTGTTCAATTAG+AGG 0.364536 1:-78930014 MsG0180004500.01.T01:CDS
AGGTTGAAGTGGAAGTTTAG+AGG 0.371290 1:-78929486 MsG0180004500.01.T01:CDS
TCTTGAAGTTGAGGTTTATT+GGG 0.375109 1:-78929439 MsG0180004500.01.T01:CDS
AAAACATTTGCATCAGAAAC+AGG 0.388646 1:+78929324 None:intergenic
TTTCTCTCAAGATAAAATTT+GGG 0.389101 1:-78929355 MsG0180004500.01.T01:CDS
TTCAAGACCATCCACAAGTA+TGG 0.397921 1:+78929455 None:intergenic
GTTGTAAGATTGATGTGTAT+TGG 0.407371 1:-78929833 MsG0180004500.01.T01:CDS
CTTGCTTGATTACTATTACA+TGG 0.414580 1:-78929986 MsG0180004500.01.T01:CDS
GTGATCCTTGTCTTATAGTT+CGG 0.427025 1:-78929539 MsG0180004500.01.T01:CDS
TTGTAAGATTGATGTGTATT+GGG 0.428969 1:-78929832 MsG0180004500.01.T01:CDS
AAGCAAAACAGCTCAGAATC+TGG 0.430535 1:-78930045 MsG0180004500.01.T01:CDS
TCTTGGTGATTTAAGAAAAG+AGG 0.454695 1:-78929721 MsG0180004500.01.T01:CDS
TAAAGTTGATATAAAACCTT+GGG 0.481774 1:-78929898 MsG0180004500.01.T01:CDS
TACATGGAGTAAGAGTTTGA+TGG 0.485899 1:-78929970 MsG0180004500.01.T01:CDS
TCTTCAGCTAGATTTGGTGT+TGG 0.510529 1:-78929804 MsG0180004500.01.T01:CDS
AGTAGTAGTTGATAAACAAA+TGG 0.512418 1:-78929751 MsG0180004500.01.T01:CDS
TGTGGATGGTCTTGAAGTTG+AGG 0.522288 1:-78929448 MsG0180004500.01.T01:CDS
AAAACAGCATTCAAAGGTAA+AGG 0.522755 1:+78929675 None:intergenic
CGATAGCAAAACTGTGATGC+AGG 0.523931 1:-78929514 MsG0180004500.01.T01:CDS
AGTAAGAGTTTGATGGGTCA+AGG 0.525556 1:-78929963 MsG0180004500.01.T01:CDS
ACATGGAGTAAGAGTTTGAT+GGG 0.527449 1:-78929969 MsG0180004500.01.T01:CDS
TGCAGTGGTCTTTCTCTCAG+AGG 0.536201 1:-78929302 MsG0180004500.01.T01:CDS
TGCAGGTGAAGAGGTTGAAG+TGG 0.541978 1:-78929497 MsG0180004500.01.T01:CDS
TGTTGGACCTGAACCATTGG+AGG 0.554106 1:-78929787 MsG0180004500.01.T01:CDS
TGGTGTTGGACCTGAACCAT+TGG 0.554528 1:-78929790 MsG0180004500.01.T01:CDS
GTAAAGTTGATATAAAACCT+TGG 0.555894 1:-78929899 MsG0180004500.01.T01:CDS
AAATTGCAGCAACAAGGTGT+TGG 0.560217 1:-78929267 MsG0180004500.01.T01:CDS
AGGAAATCATACCATACTTG+TGG 0.576851 1:-78929466 MsG0180004500.01.T01:CDS
GCATTCTCACCAAAACAAGA+TGG 0.592596 1:+78930107 None:intergenic
GTTGGACCTGAACCATTGGA+GGG 0.614502 1:-78929786 MsG0180004500.01.T01:CDS
AATCATACCATACTTGTGGA+TGG 0.616419 1:-78929462 MsG0180004500.01.T01:CDS
ATCTACCTCTAATTGAACAC+TGG 0.618529 1:+78930009 None:intergenic
GAGACCAAATTGCAGCAACA+AGG 0.620010 1:-78929273 MsG0180004500.01.T01:CDS
TTTCTCTTAGAAAACACCCA+AGG 0.637931 1:+78929882 None:intergenic
AAACTGTGATGCAGGTGAAG+AGG 0.662598 1:-78929506 MsG0180004500.01.T01:CDS
TCGATCCGAACTATAAGACA+AGG 0.676375 1:+78929534 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTATTGGGATGTTTATAAT+TGG - Chr1:78929924-78929943 MsG0180004500.01.T01:CDS 20.0%
!! TTTCTCTCAAGATAAAATTT+GGG - Chr1:78929994-78930013 MsG0180004500.01.T01:CDS 20.0%
!!! TAAAGTTGATATAAAACCTT+GGG - Chr1:78929451-78929470 MsG0180004500.01.T01:CDS 20.0%
! GTTTCTCTCAAGATAAAATT+TGG - Chr1:78929993-78930012 MsG0180004500.01.T01:CDS 25.0%
! TTGTAAGATTGATGTGTATT+GGG - Chr1:78929517-78929536 MsG0180004500.01.T01:CDS 25.0%
!!! AGTAGTAGTTGATAAACAAA+TGG - Chr1:78929598-78929617 MsG0180004500.01.T01:CDS 25.0%
!!! GATGTTTATAATTGGCTTTT+TGG - Chr1:78929932-78929951 MsG0180004500.01.T01:CDS 25.0%
!!! GTAAAGTTGATATAAAACCT+TGG - Chr1:78929450-78929469 MsG0180004500.01.T01:CDS 25.0%
!!! GTTTTTGGTAAGAAGTTTTT+TGG - Chr1:78929716-78929735 MsG0180004500.01.T01:CDS 25.0%
!!! TAAGAAGTTTTTTGGTAACA+AGG - Chr1:78929724-78929743 MsG0180004500.01.T01:CDS 25.0%
AAAACAGCATTCAAAGGTAA+AGG + Chr1:78929677-78929696 None:intergenic 30.0%
AAAACATTTGCATCAGAAAC+AGG + Chr1:78930028-78930047 None:intergenic 30.0%
AAACAAATGGTTCTTCTTCT+TGG - Chr1:78929611-78929630 MsG0180004500.01.T01:CDS 30.0%
CTTGCTTGATTACTATTACA+TGG - Chr1:78929363-78929382 MsG0180004500.01.T01:CDS 30.0%
GTTGTAAGATTGATGTGTAT+TGG - Chr1:78929516-78929535 MsG0180004500.01.T01:CDS 30.0%
TCTTGAAGTTGAGGTTTATT+GGG - Chr1:78929910-78929929 MsG0180004500.01.T01:CDS 30.0%
! GCTAAGAAAGAACATGTTTT+TGG - Chr1:78929701-78929720 MsG0180004500.01.T01:CDS 30.0%
! TCTTGGTGATTTAAGAAAAG+AGG - Chr1:78929628-78929647 MsG0180004500.01.T01:CDS 30.0%
!! AAGGATTTTCCATCTTGTTT+TGG - Chr1:78929233-78929252 MsG0180004500.01.T01:CDS 30.0%
AATCATACCATACTTGTGGA+TGG - Chr1:78929887-78929906 MsG0180004500.01.T01:CDS 35.0%
ACATGGAGTAAGAGTTTGAT+GGG - Chr1:78929380-78929399 MsG0180004500.01.T01:CDS 35.0%
AGGAAATCATACCATACTTG+TGG - Chr1:78929883-78929902 MsG0180004500.01.T01:CDS 35.0%
ATCTACCTCTAATTGAACAC+TGG + Chr1:78929343-78929362 None:intergenic 35.0%
GATCTTTCTTCAGCTAGATT+TGG - Chr1:78929539-78929558 MsG0180004500.01.T01:CDS 35.0%
GCAACAAAAACAGCATTCAA+AGG + Chr1:78929683-78929702 None:intergenic 35.0%
GTCTTGAAGTTGAGGTTTAT+TGG - Chr1:78929909-78929928 MsG0180004500.01.T01:CDS 35.0%
GTGATCCTTGTCTTATAGTT+CGG - Chr1:78929810-78929829 MsG0180004500.01.T01:CDS 35.0%
GTTTACCAGTGTTCAATTAG+AGG - Chr1:78929335-78929354 MsG0180004500.01.T01:CDS 35.0%
TACATGGAGTAAGAGTTTGA+TGG - Chr1:78929379-78929398 MsG0180004500.01.T01:CDS 35.0%
TTTCTCTTAGAAAACACCCA+AGG + Chr1:78929470-78929489 None:intergenic 35.0%
! AAGGTTGTGTTTTGTGACAA+TGG - Chr1:78929743-78929762 MsG0180004500.01.T01:CDS 35.0%
! TCTCACATGTTTTGTATGCT+TGG - Chr1:78930107-78930126 MsG0180004500.01.T01:CDS 35.0%
!! TGGCTTTTTGGTACATCTTT+TGG - Chr1:78929944-78929963 MsG0180004500.01.T01:CDS 35.0%
!! TGGGTGTTTTCTAAGAGAAA+GGG - Chr1:78929470-78929489 MsG0180004500.01.T01:CDS 35.0%
!! TTGGGTGTTTTCTAAGAGAA+AGG - Chr1:78929469-78929488 MsG0180004500.01.T01:CDS 35.0%
AAAAAACCCTCCAATGGTTC+AGG + Chr1:78929572-78929591 None:intergenic 40.0%
AAATTGCAGCAACAAGGTGT+TGG - Chr1:78930082-78930101 MsG0180004500.01.T01:CDS 40.0%
AACACCTTGTTGCTGCAATT+TGG + Chr1:78930083-78930102 None:intergenic 40.0%
AAGCAAAACAGCTCAGAATC+TGG - Chr1:78929304-78929323 MsG0180004500.01.T01:CDS 40.0%
AGGTTGAAGTGGAAGTTTAG+AGG - Chr1:78929863-78929882 MsG0180004500.01.T01:CDS 40.0%
CCTACAAAAAAACCCTCCAA+TGG + Chr1:78929578-78929597 None:intergenic 40.0%
GCATTCTCACCAAAACAAGA+TGG + Chr1:78929245-78929264 None:intergenic 40.0%
TCGATCCGAACTATAAGACA+AGG + Chr1:78929818-78929837 None:intergenic 40.0%
TTCAAGACCATCCACAAGTA+TGG + Chr1:78929897-78929916 None:intergenic 40.0%
! AGTAAGAGTTTGATGGGTCA+AGG - Chr1:78929386-78929405 MsG0180004500.01.T01:CDS 40.0%
! CTGATGCAAATGTTTTGCAG+TGG - Chr1:78930032-78930051 MsG0180004500.01.T01:CDS 40.0%
! TTTTGGTGAGAATGCAGTTC+AGG - Chr1:78929250-78929269 MsG0180004500.01.T01:CDS 40.0%
!! ATGGGTCAAGGTTTTAGTGT+TGG - Chr1:78929398-78929417 MsG0180004500.01.T01:CDS 40.0%
!! TCTTCAGCTAGATTTGGTGT+TGG - Chr1:78929545-78929564 MsG0180004500.01.T01:CDS 40.0%
!!! CCATTGGAGGGTTTTTTTGT+AGG - Chr1:78929575-78929594 MsG0180004500.01.T01:CDS 40.0%
AAACTGTGATGCAGGTGAAG+AGG - Chr1:78929843-78929862 MsG0180004500.01.T01:CDS 45.0%
CGATAGCAAAACTGTGATGC+AGG - Chr1:78929835-78929854 MsG0180004500.01.T01:CDS 45.0%
GAGACCAAATTGCAGCAACA+AGG - Chr1:78930076-78930095 MsG0180004500.01.T01:CDS 45.0%
! TGTGGATGGTCTTGAAGTTG+AGG - Chr1:78929901-78929920 MsG0180004500.01.T01:CDS 45.0%
GTTGGACCTGAACCATTGGA+GGG - Chr1:78929563-78929582 MsG0180004500.01.T01:CDS 50.0%
TGCAGGTGAAGAGGTTGAAG+TGG - Chr1:78929852-78929871 MsG0180004500.01.T01:CDS 50.0%
TGCAGTGGTCTTTCTCTCAG+AGG - Chr1:78930047-78930066 MsG0180004500.01.T01:CDS 50.0%
TGTTGGACCTGAACCATTGG+AGG - Chr1:78929562-78929581 MsG0180004500.01.T01:CDS 50.0%
! TGGTGTTGGACCTGAACCAT+TGG - Chr1:78929559-78929578 MsG0180004500.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 78929230 78930141 78929230 ID=MsG0180004500.01;Name=MsG0180004500.01
Chr1 mRNA 78929230 78930141 78929230 ID=MsG0180004500.01.T01;Parent=MsG0180004500.01;Name=MsG0180004500.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|303
Chr1 exon 78929230 78930141 78929230 ID=MsG0180004500.01.T01:exon:15274;Parent=MsG0180004500.01.T01
Chr1 CDS 78929230 78930141 78929230 ID=MsG0180004500.01.T01:cds;Parent=MsG0180004500.01.T01
Gene Sequence

>MsG0180004500.01.T01

ATGAAGGATTTTCCATCTTGTTTTGGTGAGAATGCAGTTCAGGTAGCAGATTCATCATCATCATCTTCAAGCTCAAGCAAAACAGCTCAGAATCTGGTTATTTGTGTTTACCAGTGTTCAATTAGAGGTAGATCTTGCTTGATTACTATTACATGGAGTAAGAGTTTGATGGGTCAAGGTTTTAGTGTTGGAATCGATGATGCTTCAAATCAGTGTTTATGTAAAGTTGATATAAAACCTTGGGTGTTTTCTAAGAGAAAGGGTTGCAAGAGTTTAGAAGCTTATAGTTGTAAGATTGATGTGTATTGGGATCTTTCTTCAGCTAGATTTGGTGTTGGACCTGAACCATTGGAGGGTTTTTTTGTAGGAGTAGTAGTTGATAAACAAATGGTTCTTCTTCTTGGTGATTTAAGAAAAGAGGCTTTTAAGAAATCTAATGCAGTTCCTTTACCTTTGAATGCTGTTTTTGTTGCTAAGAAAGAACATGTTTTTGGTAAGAAGTTTTTTGGTAACAAGGTTGTGTTTTGTGACAATGGTAAAATTCATGATCTTGTTATTGAGTGTGATACTTCTGTTGCAAGTGATCCTTGTCTTATAGTTCGGATCGATAGCAAAACTGTGATGCAGGTGAAGAGGTTGAAGTGGAAGTTTAGAGGAAATCATACCATACTTGTGGATGGTCTTGAAGTTGAGGTTTATTGGGATGTTTATAATTGGCTTTTTGGTACATCTTTTGGAAATGCTGTTTTCATGTTTAGAACATGTTTCTCTCAAGATAAAATTTGGGATGCTCAACCTGTTTCTGATGCAAATGTTTTGCAGTGGTCTTTCTCTCAGAGGTTTTCTGAGACCAAATTGCAGCAACAAGGTGTTGGTTTCTCACATGTTTTGTATGCTTGGAAGAATGAATAG

Protein sequence

>MsG0180004500.01.T01

MKDFPSCFGENAVQVADSSSSSSSSSKTAQNLVICVYQCSIRGRSCLITITWSKSLMGQGFSVGIDDASNQCLCKVDIKPWVFSKRKGCKSLEAYSCKIDVYWDLSSARFGVGPEPLEGFFVGVVVDKQMVLLLGDLRKEAFKKSNAVPLPLNAVFVAKKEHVFGKKFFGNKVVFCDNGKIHDLVIECDTSVASDPCLIVRIDSKTVMQVKRLKWKFRGNHTILVDGLEVEVYWDVYNWLFGTSFGNAVFMFRTCFSQDKIWDAQPVSDANVLQWSFSQRFSETKLQQQGVGFSHVLYAWKNE*