AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067353

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067353.t1 MTR_2g054380 97.059 272 6 1 1 272 1 270 0.0 540
MS.gene067353.t1 MTR_2g055990 55.762 269 101 5 9 272 4 259 1.21e-92 274
MS.gene067353.t1 MTR_4g112370 53.455 275 95 7 5 272 12 260 6.73e-91 270
MS.gene067353.t1 MTR_1g053130 55.556 180 70 3 101 272 107 284 7.96e-57 184
MS.gene067353.t1 MTR_3g094830 45.665 173 90 3 101 272 90 259 2.55e-52 171
MS.gene067353.t1 MTR_8g040690 48.503 167 81 3 107 272 85 247 1.23e-50 167
MS.gene067353.t1 MTR_3g101300 49.701 167 75 3 111 271 72 235 1.02e-48 161
MS.gene067353.t1 MTR_8g040680 39.738 229 104 5 70 272 37 257 1.13e-48 162
MS.gene067353.t1 MTR_7g064810 44.785 163 84 4 110 271 65 222 1.81e-38 135
MS.gene067353.t1 MTR_3g086740 34.667 225 133 5 55 271 24 242 6.18e-37 131
MS.gene067353.t1 MTR_8g089865 37.805 164 96 5 112 271 59 220 1.36e-31 117
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067353.t1 AT3G25640 49.320 294 97 7 1 272 4 267 6.16e-80 242
MS.gene067353.t1 AT3G25640 48.475 295 98 8 1 272 30 293 6.41e-80 243
MS.gene067353.t1 AT5G23100 45.775 284 106 7 18 272 13 277 2.16e-70 218
MS.gene067353.t1 AT2G41660 52.247 178 73 4 104 272 123 297 1.11e-59 191
MS.gene067353.t1 AT2G21990 48.538 171 79 4 105 272 88 252 1.05e-52 172
MS.gene067353.t1 AT4G39610 46.512 172 83 2 108 272 95 264 6.22e-51 168
MS.gene067353.t1 AT5G06990 47.191 178 84 2 103 272 86 261 1.91e-50 167
MS.gene067353.t1 AT5G42680 53.988 163 69 4 111 271 78 236 5.14e-48 160
MS.gene067353.t1 AT5G42680 53.988 163 69 4 111 271 78 236 5.14e-48 160
MS.gene067353.t1 AT2G37880 48.235 170 82 4 106 271 77 244 1.06e-44 151
MS.gene067353.t1 AT1G21050 45.399 163 79 4 112 271 89 244 6.56e-41 142
MS.gene067353.t1 AT1G21050 45.399 163 79 4 112 271 125 280 8.10e-41 142
MS.gene067353.t1 AT5G65340 42.775 173 82 5 110 271 83 249 1.43e-37 133
MS.gene067353.t1 AT1G76610 43.452 168 79 4 106 271 72 225 1.06e-36 130
MS.gene067353.t1 AT2G22460 37.037 162 96 3 110 270 85 241 9.93e-32 117

Find 64 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTAAGTATGAGAGGGTTAT+TGG 0.220635 2.3:+36231834 MS.gene067353:CDS
TTGGTTAGGGAAATGGCTTC+TGG 0.285014 2.3:+36231561 MS.gene067353:CDS
AGTCATCTTGGAAAGCAAAA+TGG 0.301808 2.3:-36231488 None:intergenic
CAGCAATTTCTAATGGCATT+TGG 0.314688 2.3:-36231332 None:intergenic
ACACCCGCACCCATTGAAAT+AGG 0.330382 2.3:-36231750 None:intergenic
CTTCTTTCTCCTTCTCTAGA+AGG 0.332135 2.3:+36231148 MS.gene067353:CDS
TCCCTAACCAAAACACTTGT+TGG 0.338137 2.3:-36231549 None:intergenic
AGCAACACCAACAAGTGTTT+TGG 0.352527 2.3:+36231542 MS.gene067353:CDS
TCAAGAGCAGCAATTTCTAA+TGG 0.388276 2.3:-36231339 None:intergenic
CTAAGTATGAGAGGGTTATT+GGG 0.402385 2.3:+36231835 MS.gene067353:CDS
GGCTCAACTTTGAGTCATCT+TGG 0.402943 2.3:-36231500 None:intergenic
GAAAATGTGGTTATGCATAT+AGG 0.413946 2.3:+36231682 MS.gene067353:CDS
TTACAATAAGTTCTCCAAAC+TGG 0.415841 2.3:-36231654 None:intergenic
AGCAAGTAAAGGCAGAGTTC+AGG 0.432013 2.3:-36231909 None:intergenic
GTCCACGACGGTATCCGAAA+AGG 0.435618 2.3:-36231461 None:intergenic
AGTTGCTTGAGGAACCAGTT+TGG 0.440900 2.3:+36231640 MS.gene067353:CDS
TCTCTAGAAGGTATTTCCAT+TGG 0.449753 2.3:+36231160 MS.gene067353:CDS
TCAGGACCACCACTACCAAC+AGG 0.456710 2.3:-36231891 None:intergenic
GTTTGGAGAACTTATTGTAA+TGG 0.464507 2.3:+36231657 MS.gene067353:CDS
GAGTGTGAGAAGAAAGGAGG+AGG 0.465242 2.3:+36231603 MS.gene067353:CDS
GCTAGCTCAATCAAGAATGT+AGG 0.485048 2.3:-36231522 None:intergenic
TCACCTCCATTCCCACTACT+TGG 0.485738 2.3:-36231783 None:intergenic
GGCTTTGGATGAAGATGATG+AGG 0.491809 2.3:+36231191 MS.gene067353:CDS
TATTGTAATGGAAGAAAATG+TGG 0.509766 2.3:+36231669 MS.gene067353:CDS
GTTAAACTCTAAGCAAGTAA+AGG 0.515924 2.3:-36231920 None:intergenic
TTCTAGTGGCACACGTATGG+TGG 0.520065 2.3:+36231434 MS.gene067353:CDS
AGCTGTGGAACCTATTTCAA+TGG 0.524917 2.3:+36231740 MS.gene067353:CDS
TCCACGACGGTATCCGAAAA+GGG 0.528553 2.3:-36231460 None:intergenic
CTAGCTCAATCAAGAATGTA+GGG 0.535263 2.3:-36231521 None:intergenic
CCATTCCCACTACTTGGCAT+TGG 0.536474 2.3:-36231777 None:intergenic
GGAACCTATTTCAATGGGTG+CGG 0.540745 2.3:+36231746 MS.gene067353:CDS
TTGGAGTGTGAGAAGAAAGG+AGG 0.541372 2.3:+36231600 MS.gene067353:CDS
GCTGTGGAACCTATTTCAAT+GGG 0.541783 2.3:+36231741 MS.gene067353:CDS
TGGAGTGGTGAGGATTGCAT+TGG 0.543210 2.3:+36231581 MS.gene067353:CDS
AGTGTGAGAAGAAAGGAGGA+GGG 0.546560 2.3:+36231604 MS.gene067353:CDS
CAGTTCTAGTGGCACACGTA+TGG 0.547741 2.3:+36231431 MS.gene067353:CDS
GGGAATGGAGGTGAGTTTGA+AGG 0.549280 2.3:+36231792 MS.gene067353:CDS
GCATTGGAGTGTGAGAAGAA+AGG 0.552731 2.3:+36231597 MS.gene067353:CDS
AAAGAGTTTGAAGTTGCTTG+AGG 0.555693 2.3:+36231629 MS.gene067353:CDS
CCAATGCCAAGTAGTGGGAA+TGG 0.559271 2.3:+36231777 MS.gene067353:CDS
ATGAACCCTGTTGGTAGTGG+TGG 0.559559 2.3:+36231885 MS.gene067353:CDS
AGAAGAGTCATGTGGTGACT+TGG 0.563167 2.3:-36231130 None:intergenic
TATGAGAGCTAAGTATGAGA+GGG 0.565675 2.3:+36231827 MS.gene067353:CDS
CGTTCACTTCACAGTTCTAG+TGG 0.569271 2.3:+36231420 MS.gene067353:CDS
ATGGAAATACCTTCTAGAGA+AGG 0.577098 2.3:-36231157 None:intergenic
ATATGAGAGCTAAGTATGAG+AGG 0.585257 2.3:+36231826 MS.gene067353:CDS
ATGATGAACCCTGTTGGTAG+TGG 0.586626 2.3:+36231882 MS.gene067353:CDS
GAACCTATTTCAATGGGTGC+GGG 0.588156 2.3:+36231747 MS.gene067353:CDS
TTCTACATGATGAACCCTGT+TGG 0.588457 2.3:+36231876 MS.gene067353:CDS
ATGGAAGATATTGAAAGCTG+TGG 0.589180 2.3:+36231725 MS.gene067353:CDS
GATGATGATGATGTTGTTGG+TGG 0.607402 2.3:+36231258 MS.gene067353:CDS
TAGGGAAATGGCTTCTGGAG+TGG 0.612183 2.3:+36231566 MS.gene067353:CDS
ATGAATGTGGATCAGAGGAA+TGG 0.616115 2.3:+36231706 MS.gene067353:CDS
TAGGCATGAATGTGGATCAG+AGG 0.616854 2.3:+36231701 MS.gene067353:CDS
TCTAGTGGCACACGTATGGT+GGG 0.631207 2.3:+36231435 MS.gene067353:CDS
AAGGAGAAAGAAGAGTCATG+TGG 0.646233 2.3:-36231138 None:intergenic
GTGTTGCCAATGCCAAGTAG+TGG 0.650856 2.3:+36231771 MS.gene067353:CDS
ATGCCAAGTAGTGGGAATGG+AGG 0.656575 2.3:+36231780 MS.gene067353:CDS
TGTTGCCAATGCCAAGTAGT+GGG 0.657243 2.3:+36231772 MS.gene067353:CDS
CAGGACCACCACTACCAACA+GGG 0.658555 2.3:-36231890 None:intergenic
AAATGGCTTCTGGAGTGGTG+AGG 0.662532 2.3:+36231571 MS.gene067353:CDS
TGTTGGTGGTGAGAAAGAAG+AGG 0.666671 2.3:+36231272 MS.gene067353:CDS
TATGCATATAGGCATGAATG+TGG 0.680421 2.3:+36231693 MS.gene067353:CDS
CAAAATGGACATGTCCACGA+CGG 0.712176 2.3:-36231473 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTGTAATGGAAGAAAATG+TGG + chr2.3:36231669-36231688 MS.gene067353:CDS 25.0%
GAAAATGTGGTTATGCATAT+AGG + chr2.3:36231682-36231701 MS.gene067353:CDS 30.0%
GTATTTCCATTGGAAAAAGA+AGG + chr2.3:36231170-36231189 MS.gene067353:CDS 30.0%
GTTTGGAGAACTTATTGTAA+TGG + chr2.3:36231657-36231676 MS.gene067353:CDS 30.0%
TTACAATAAGTTCTCCAAAC+TGG - chr2.3:36231657-36231676 None:intergenic 30.0%
AGTCATCTTGGAAAGCAAAA+TGG - chr2.3:36231491-36231510 None:intergenic 35.0%
ATATGAGAGCTAAGTATGAG+AGG + chr2.3:36231826-36231845 MS.gene067353:CDS 35.0%
ATGGAAGATATTGAAAGCTG+TGG + chr2.3:36231725-36231744 MS.gene067353:CDS 35.0%
CAGCAATTTCTAATGGCATT+TGG - chr2.3:36231335-36231354 None:intergenic 35.0%
CTAAGTATGAGAGGGTTATT+GGG + chr2.3:36231835-36231854 MS.gene067353:CDS 35.0%
CTAGCTCAATCAAGAATGTA+GGG - chr2.3:36231524-36231543 None:intergenic 35.0%
TATGAGAGCTAAGTATGAGA+GGG + chr2.3:36231827-36231846 MS.gene067353:CDS 35.0%
TATGCATATAGGCATGAATG+TGG + chr2.3:36231693-36231712 MS.gene067353:CDS 35.0%
TCAAGAGCAGCAATTTCTAA+TGG - chr2.3:36231342-36231361 None:intergenic 35.0%
! AAAGAGTTTGAAGTTGCTTG+AGG + chr2.3:36231629-36231648 MS.gene067353:CDS 35.0%
! ATGGAAATACCTTCTAGAGA+AGG - chr2.3:36231160-36231179 None:intergenic 35.0%
! GATGATGATGATGATGTTGT+TGG + chr2.3:36231255-36231274 MS.gene067353:CDS 35.0%
! TTCATCATCACATTTTCCTG+AGG + chr2.3:36231233-36231252 MS.gene067353:CDS 35.0%
!! TCTCTAGAAGGTATTTCCAT+TGG + chr2.3:36231160-36231179 MS.gene067353:CDS 35.0%
!!! AAGTGTTTTGGTTAGGGAAA+TGG + chr2.3:36231554-36231573 MS.gene067353:CDS 35.0%
!!! ACCAACAAGTGTTTTGGTTA+GGG + chr2.3:36231548-36231567 MS.gene067353:CDS 35.0%
AAGGAGAAAGAAGAGTCATG+TGG - chr2.3:36231141-36231160 None:intergenic 40.0%
ACATCATCATCATCATCCTC+AGG - chr2.3:36231252-36231271 None:intergenic 40.0%
AGCTGTGGAACCTATTTCAA+TGG + chr2.3:36231740-36231759 MS.gene067353:CDS 40.0%
ATGAATGTGGATCAGAGGAA+TGG + chr2.3:36231706-36231725 MS.gene067353:CDS 40.0%
CCATTGGAAAAAGAAGGCTT+TGG + chr2.3:36231176-36231195 MS.gene067353:CDS 40.0%
CTTCTTTCTCCTTCTCTAGA+AGG + chr2.3:36231148-36231167 MS.gene067353:CDS 40.0%
GCTAAGTATGAGAGGGTTAT+TGG + chr2.3:36231834-36231853 MS.gene067353:CDS 40.0%
GCTAGCTCAATCAAGAATGT+AGG - chr2.3:36231525-36231544 None:intergenic 40.0%
GCTGTGGAACCTATTTCAAT+GGG + chr2.3:36231741-36231760 MS.gene067353:CDS 40.0%
TCCCTAACCAAAACACTTGT+TGG - chr2.3:36231552-36231571 None:intergenic 40.0%
TTCTACATGATGAACCCTGT+TGG + chr2.3:36231876-36231895 MS.gene067353:CDS 40.0%
! AGCAACACCAACAAGTGTTT+TGG + chr2.3:36231542-36231561 MS.gene067353:CDS 40.0%
! CCAAAGCCTTCTTTTTCCAA+TGG - chr2.3:36231179-36231198 None:intergenic 40.0%
! GATGATGATGATGTTGTTGG+TGG + chr2.3:36231258-36231277 MS.gene067353:CDS 40.0%
!!! CACCAACAAGTGTTTTGGTT+AGG + chr2.3:36231547-36231566 MS.gene067353:CDS 40.0%
AGAAGAGTCATGTGGTGACT+TGG - chr2.3:36231133-36231152 None:intergenic 45.0%
AGCAAGTAAAGGCAGAGTTC+AGG - chr2.3:36231912-36231931 None:intergenic 45.0%
AGTGTGAGAAGAAAGGAGGA+GGG + chr2.3:36231604-36231623 MS.gene067353:CDS 45.0%
AGTTGCTTGAGGAACCAGTT+TGG + chr2.3:36231640-36231659 MS.gene067353:CDS 45.0%
CAAAATGGACATGTCCACGA+CGG - chr2.3:36231476-36231495 None:intergenic 45.0%
GAACCTATTTCAATGGGTGC+GGG + chr2.3:36231747-36231766 MS.gene067353:CDS 45.0%
GCATTGGAGTGTGAGAAGAA+AGG + chr2.3:36231597-36231616 MS.gene067353:CDS 45.0%
GGAACCTATTTCAATGGGTG+CGG + chr2.3:36231746-36231765 MS.gene067353:CDS 45.0%
GGCTCAACTTTGAGTCATCT+TGG - chr2.3:36231503-36231522 None:intergenic 45.0%
TAGGCATGAATGTGGATCAG+AGG + chr2.3:36231701-36231720 MS.gene067353:CDS 45.0%
TGTTGCCAATGCCAAGTAGT+GGG + chr2.3:36231772-36231791 MS.gene067353:CDS 45.0%
TTGGAGTGTGAGAAGAAAGG+AGG + chr2.3:36231600-36231619 MS.gene067353:CDS 45.0%
TTGGTTAGGGAAATGGCTTC+TGG + chr2.3:36231561-36231580 MS.gene067353:CDS 45.0%
! ATGATGAACCCTGTTGGTAG+TGG + chr2.3:36231882-36231901 MS.gene067353:CDS 45.0%
! CGTTCACTTCACAGTTCTAG+TGG + chr2.3:36231420-36231439 MS.gene067353:CDS 45.0%
!! GGCTTTGGATGAAGATGATG+AGG + chr2.3:36231191-36231210 MS.gene067353:CDS 45.0%
!! TGTTGGTGGTGAGAAAGAAG+AGG + chr2.3:36231272-36231291 MS.gene067353:CDS 45.0%
ACACCCGCACCCATTGAAAT+AGG - chr2.3:36231753-36231772 None:intergenic 50.0%
CCATTCCCACTACTTGGCAT+TGG - chr2.3:36231780-36231799 None:intergenic 50.0%
GAGTGTGAGAAGAAAGGAGG+AGG + chr2.3:36231603-36231622 MS.gene067353:CDS 50.0%
GGGAATGGAGGTGAGTTTGA+AGG + chr2.3:36231792-36231811 MS.gene067353:CDS 50.0%
GTGTTGCCAATGCCAAGTAG+TGG + chr2.3:36231771-36231790 MS.gene067353:CDS 50.0%
TCACCTCCATTCCCACTACT+TGG - chr2.3:36231786-36231805 None:intergenic 50.0%
TCCACGACGGTATCCGAAAA+GGG - chr2.3:36231463-36231482 None:intergenic 50.0%
TCTAGTGGCACACGTATGGT+GGG + chr2.3:36231435-36231454 MS.gene067353:CDS 50.0%
TGGAGTGGTGAGGATTGCAT+TGG + chr2.3:36231581-36231600 MS.gene067353:CDS 50.0%
TTCTAGTGGCACACGTATGG+TGG + chr2.3:36231434-36231453 MS.gene067353:CDS 50.0%
! ATGCCAAGTAGTGGGAATGG+AGG + chr2.3:36231780-36231799 MS.gene067353:CDS 50.0%
! CAGTTCTAGTGGCACACGTA+TGG + chr2.3:36231431-36231450 MS.gene067353:CDS 50.0%
! CCAATGCCAAGTAGTGGGAA+TGG + chr2.3:36231777-36231796 MS.gene067353:CDS 50.0%
! TAGGGAAATGGCTTCTGGAG+TGG + chr2.3:36231566-36231585 MS.gene067353:CDS 50.0%
!! AAATGGCTTCTGGAGTGGTG+AGG + chr2.3:36231571-36231590 MS.gene067353:CDS 50.0%
!! ATGAACCCTGTTGGTAGTGG+TGG + chr2.3:36231885-36231904 MS.gene067353:CDS 50.0%
CAGGACCACCACTACCAACA+GGG - chr2.3:36231893-36231912 None:intergenic 55.0%
GTCCACGACGGTATCCGAAA+AGG - chr2.3:36231464-36231483 None:intergenic 55.0%
TCAGGACCACCACTACCAAC+AGG - chr2.3:36231894-36231913 None:intergenic 55.0%
! ACCCTTTTCGGATACCGTCG+TGG + chr2.3:36231459-36231478 MS.gene067353:CDS 55.0%
!!! CGTATGGTGGGCACCCTTTT+CGG + chr2.3:36231447-36231466 MS.gene067353:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 36231123 36231941 36231123 ID=MS.gene067353
chr2.3 mRNA 36231123 36231941 36231123 ID=MS.gene067353.t1;Parent=MS.gene067353
chr2.3 exon 36231123 36231941 36231123 ID=MS.gene067353.t1.exon1;Parent=MS.gene067353.t1
chr2.3 CDS 36231123 36231941 36231123 ID=cds.MS.gene067353.t1;Parent=MS.gene067353.t1
Gene Sequence

>MS.gene067353

ATGGCAGCCAAGTCACCACATGACTCTTCTTTCTCCTTCTCTAGAAGGTATTTCCATTGGAAAAAGAAGGCTTTGGATGAAGATGATGAGGAAGTAATACTCAACATAAGTTCATCATCACATTTTCCTGAGGATGATGATGATGATGTTGTTGGTGGTGAGAAAGAAGAGGTTCATCATCATCGACATCATCATAATCATTTAAGAATCCAAATGCCATTAGAAATTGCTGCTCTTGAAAAGAAGAAGAATTCAAAATCAAAGTTCAAGTCAGCACTAACAATTCTCACAAAGAATCGTTCACTTCACAGTTCTAGTGGCACACGTATGGTGGGCACCCTTTTCGGATACCGTCGTGGACATGTCCATTTTGCTTTCCAAGATGACTCAAAGTTGAGCCCTACATTCTTGATTGAGCTAGCAACACCAACAAGTGTTTTGGTTAGGGAAATGGCTTCTGGAGTGGTGAGGATTGCATTGGAGTGTGAGAAGAAAGGAGGAGGGAGAAAGAGTTTGAAGTTGCTTGAGGAACCAGTTTGGAGAACTTATTGTAATGGAAGAAAATGTGGTTATGCATATAGGCATGAATGTGGATCAGAGGAATGGAAGATATTGAAAGCTGTGGAACCTATTTCAATGGGTGCGGGTGTGTTGCCAATGCCAAGTAGTGGGAATGGAGGTGAGTTTGAAGGTGAGCTCATGTATATGAGAGCTAAGTATGAGAGGGTTATTGGGTCTAAAGATTCTGAAGCTTTCTACATGATGAACCCTGTTGGTAGTGGTGGTCCTGAACTCTGCCTTTACTTGCTTAGAGTTTAA
Protein sequence

>MS.gene067353.t1

MAAKSPHDSSFSFSRRYFHWKKKALDEDDEEVILNISSSSHFPEDDDDDVVGGEKEEVHHHRHHHNHLRIQMPLEIAALEKKKNSKSKFKSALTILTKNRSLHSSSGTRMVGTLFGYRRGHVHFAFQDDSKLSPTFLIELATPTSVLVREMASGVVRIALECEKKGGGRKSLKLLEEPVWRTYCNGRKCGYAYRHECGSEEWKILKAVEPISMGAGVLPMPSSGNGGEFEGELMYMRAKYERVIGSKDSEAFYMMNPVGSGGPELCLYLLRV