AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene83345

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83345.t1 MTR_2g054380 97.794 272 4 1 1 272 1 270 0.0 542
MS.gene83345.t1 MTR_2g055990 56.391 266 104 4 9 272 4 259 3.42e-92 273
MS.gene83345.t1 MTR_4g112370 52.727 275 97 7 5 272 12 260 1.02e-90 269
MS.gene83345.t1 MTR_1g053130 56.111 180 69 3 101 272 107 284 1.09e-57 186
MS.gene83345.t1 MTR_3g094830 45.087 173 91 3 101 272 90 259 1.49e-52 172
MS.gene83345.t1 MTR_8g040690 49.701 167 79 3 107 272 85 247 1.63e-51 169
MS.gene83345.t1 MTR_8g040680 40.611 229 102 5 70 272 37 257 1.39e-49 164
MS.gene83345.t1 MTR_3g101300 49.701 167 75 3 111 271 72 235 4.41e-49 162
MS.gene83345.t1 MTR_7g064810 45.399 163 83 4 110 271 65 222 2.00e-39 137
MS.gene83345.t1 MTR_3g086740 35.111 225 132 5 55 271 24 242 8.98e-38 133
MS.gene83345.t1 MTR_8g089865 38.415 164 95 5 112 271 59 220 1.60e-32 119
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83345.t1 AT3G25640 49.660 294 96 7 1 272 4 267 1.15e-80 244
MS.gene83345.t1 AT3G25640 49.660 294 96 7 1 272 30 293 1.21e-80 245
MS.gene83345.t1 AT5G23100 49.609 256 100 5 46 272 22 277 1.88e-72 223
MS.gene83345.t1 AT2G41660 52.809 178 72 4 104 272 123 297 1.97e-60 193
MS.gene83345.t1 AT2G21990 49.123 171 78 4 105 272 88 252 2.10e-53 174
MS.gene83345.t1 AT4G39610 47.093 172 82 2 108 272 95 264 1.01e-51 170
MS.gene83345.t1 AT5G06990 48.315 178 82 2 103 272 86 261 2.24e-51 169
MS.gene83345.t1 AT5G42680 53.988 163 69 4 111 271 78 236 1.59e-48 161
MS.gene83345.t1 AT5G42680 53.988 163 69 4 111 271 78 236 1.59e-48 161
MS.gene83345.t1 AT2G37880 48.235 170 82 4 106 271 77 244 2.20e-45 153
MS.gene83345.t1 AT1G21050 45.399 163 79 4 112 271 89 244 1.32e-41 143
MS.gene83345.t1 AT1G21050 45.399 163 79 4 112 271 125 280 1.35e-41 144
MS.gene83345.t1 AT5G65340 43.353 173 81 5 110 271 83 249 2.29e-38 135
MS.gene83345.t1 AT1G76610 43.452 168 79 4 106 271 72 225 2.64e-37 132
MS.gene83345.t1 AT2G22460 37.037 162 96 3 110 270 85 241 1.97e-32 119

Find 63 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 2.2:+29686799 MS.gene83345:CDS
TTGGTTAGGGAAATGGCTTC+TGG 0.285014 2.2:+29686526 MS.gene83345:CDS
AGTCATCTTGGAAAGCAAAA+TGG 0.301808 2.2:-29686453 None:intergenic
CAGCAATTTCTAATGGCATT+TGG 0.314688 2.2:-29686297 None:intergenic
TTACAATAAGTCCTCCAAAT+TGG 0.317520 2.2:-29686619 None:intergenic
AGTTGCTTGAGGAACCAATT+TGG 0.324910 2.2:+29686605 MS.gene83345:CDS
CTTCTTTCTCCTTCTCTAGA+AGG 0.332135 2.2:+29686113 MS.gene83345:CDS
ACACCAGCACCCATTGAAAT+AGG 0.337206 2.2:-29686715 None:intergenic
TCCCTAACCAAAACACTTGT+TGG 0.338137 2.2:-29686514 None:intergenic
AGCAACACCAACAAGTGTTT+TGG 0.352527 2.2:+29686507 MS.gene83345:CDS
TCAAGAGCAGCAATTTCTAA+TGG 0.388276 2.2:-29686304 None:intergenic
CTAAGTATGAGAGGGTTATT+GGG 0.402385 2.2:+29686800 MS.gene83345:CDS
GGCTCAACTTTGAGTCATCT+TGG 0.402943 2.2:-29686465 None:intergenic
GAAAATGTGGTTATGCATAT+AGG 0.413946 2.2:+29686647 MS.gene83345:CDS
GTCCACGACGGTATCCGAAA+AGG 0.435618 2.2:-29686426 None:intergenic
GCTAGCTCAATTAAGAATGT+AGG 0.445992 2.2:-29686487 None:intergenic
TCTCTAGAAGGTATTTCCAT+TGG 0.449753 2.2:+29686125 MS.gene83345:CDS
TCAGGACCACCACTACCAAC+AGG 0.456710 2.2:-29686856 None:intergenic
AGCAAGTAAAGGCTGAGTTC+AGG 0.459421 2.2:-29686874 None:intergenic
GAGTGTGAGAAGAAAGGAGG+AGG 0.465242 2.2:+29686568 MS.gene83345:CDS
TCACCTCCATTCCCACTACT+TGG 0.485738 2.2:-29686748 None:intergenic
ATTTGGAGGACTTATTGTAA+TGG 0.487129 2.2:+29686622 MS.gene83345:CDS
GGCTTTGGATGAAGATGATG+AGG 0.491809 2.2:+29686156 MS.gene83345:CDS
TATTGTAATGGAAGAAAATG+TGG 0.509766 2.2:+29686634 MS.gene83345:CDS
CTAGCTCAATTAAGAATGTA+GGG 0.510058 2.2:-29686486 None:intergenic
GTTAAACTCTAAGCAAGTAA+AGG 0.515924 2.2:-29686885 None:intergenic
TGCTTGAGGAACCAATTTGG+AGG 0.517349 2.2:+29686608 MS.gene83345:CDS
TTCTAGTGGCACACGTATGG+TGG 0.520065 2.2:+29686399 MS.gene83345:CDS
AGCTGTGGAACCTATTTCAA+TGG 0.524917 2.2:+29686705 MS.gene83345:CDS
TCCACGACGGTATCCGAAAA+GGG 0.528553 2.2:-29686425 None:intergenic
CCATTCCCACTACTTGGCAT+TGG 0.536474 2.2:-29686742 None:intergenic
GAACCTATTTCAATGGGTGC+TGG 0.538761 2.2:+29686712 MS.gene83345:CDS
TTGGAGTGTGAGAAGAAAGG+AGG 0.541372 2.2:+29686565 MS.gene83345:CDS
GCTGTGGAACCTATTTCAAT+GGG 0.541783 2.2:+29686706 MS.gene83345:CDS
TGGAGTGGTGAGGATTGCAT+TGG 0.543210 2.2:+29686546 MS.gene83345:CDS
AGTGTGAGAAGAAAGGAGGA+GGG 0.546560 2.2:+29686569 MS.gene83345:CDS
CAGTTCTAGTGGCACACGTA+TGG 0.547741 2.2:+29686396 MS.gene83345:CDS
GGGAATGGAGGTGAGTTTGA+AGG 0.549280 2.2:+29686757 MS.gene83345:CDS
GCATTGGAGTGTGAGAAGAA+AGG 0.552731 2.2:+29686562 MS.gene83345:CDS
AAAGAGTTTGAAGTTGCTTG+AGG 0.555693 2.2:+29686594 MS.gene83345:CDS
CCAATGCCAAGTAGTGGGAA+TGG 0.559271 2.2:+29686742 MS.gene83345:CDS
ATGAACCCTGTTGGTAGTGG+TGG 0.559559 2.2:+29686850 MS.gene83345:CDS
AGAAGAGTCATGTGGTGACT+TGG 0.563167 2.2:-29686095 None:intergenic
TATGAGAGCTAAGTATGAGA+GGG 0.565675 2.2:+29686792 MS.gene83345:CDS
CGTTCACTTCACAGTTCTAG+TGG 0.569271 2.2:+29686385 MS.gene83345:CDS
ATGGAAATACCTTCTAGAGA+AGG 0.577098 2.2:-29686122 None:intergenic
ATATGAGAGCTAAGTATGAG+AGG 0.585257 2.2:+29686791 MS.gene83345:CDS
ATGATGAACCCTGTTGGTAG+TGG 0.586626 2.2:+29686847 MS.gene83345:CDS
TTCTACATGATGAACCCTGT+TGG 0.588457 2.2:+29686841 MS.gene83345:CDS
ATGGAAGATATTGAAAGCTG+TGG 0.589180 2.2:+29686690 MS.gene83345:CDS
TAGGGAAATGGCTTCTGGAG+TGG 0.612183 2.2:+29686531 MS.gene83345:CDS
ATGAATGTGGATCAGAGGAA+TGG 0.616115 2.2:+29686671 MS.gene83345:CDS
TAGGCATGAATGTGGATCAG+AGG 0.616854 2.2:+29686666 MS.gene83345:CDS
TCTAGTGGCACACGTATGGT+GGG 0.631207 2.2:+29686400 MS.gene83345:CDS
AAGGAGAAAGAAGAGTCATG+TGG 0.646233 2.2:-29686103 None:intergenic
ATGCCAAGTAGTGGGAATGG+AGG 0.656575 2.2:+29686745 MS.gene83345:CDS
TGTTGCCAATGCCAAGTAGT+GGG 0.657243 2.2:+29686737 MS.gene83345:CDS
CAGGACCACCACTACCAACA+GGG 0.658555 2.2:-29686855 None:intergenic
AAATGGCTTCTGGAGTGGTG+AGG 0.662532 2.2:+29686536 MS.gene83345:CDS
GTGTTGCCAATGCCAAGTAG+TGG 0.663696 2.2:+29686736 MS.gene83345:CDS
TATGCATATAGGCATGAATG+TGG 0.680421 2.2:+29686658 MS.gene83345:CDS
TGTTGGTGGTGAGAAAGAAG+AGG 0.693894 2.2:+29686237 MS.gene83345:CDS
CAAAATGGACATGTCCACGA+CGG 0.712176 2.2:-29686438 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTGTAATGGAAGAAAATG+TGG + chr2.2:29686634-29686653 MS.gene83345:CDS 25.0%
ATTTGGAGGACTTATTGTAA+TGG + chr2.2:29686622-29686641 MS.gene83345:CDS 30.0%
CTAGCTCAATTAAGAATGTA+GGG - chr2.2:29686489-29686508 None:intergenic 30.0%
GAAAATGTGGTTATGCATAT+AGG + chr2.2:29686647-29686666 MS.gene83345:CDS 30.0%
GTATTTCCATTGGAAAAAGA+AGG + chr2.2:29686135-29686154 MS.gene83345:CDS 30.0%
TTACAATAAGTCCTCCAAAT+TGG - chr2.2:29686622-29686641 None:intergenic 30.0%
AGTCATCTTGGAAAGCAAAA+TGG - chr2.2:29686456-29686475 None:intergenic 35.0%
ATATGAGAGCTAAGTATGAG+AGG + chr2.2:29686791-29686810 MS.gene83345:CDS 35.0%
ATGGAAGATATTGAAAGCTG+TGG + chr2.2:29686690-29686709 MS.gene83345:CDS 35.0%
CAGCAATTTCTAATGGCATT+TGG - chr2.2:29686300-29686319 None:intergenic 35.0%
CTAAGTATGAGAGGGTTATT+GGG + chr2.2:29686800-29686819 MS.gene83345:CDS 35.0%
GCTAGCTCAATTAAGAATGT+AGG - chr2.2:29686490-29686509 None:intergenic 35.0%
TATGAGAGCTAAGTATGAGA+GGG + chr2.2:29686792-29686811 MS.gene83345:CDS 35.0%
TATGCATATAGGCATGAATG+TGG + chr2.2:29686658-29686677 MS.gene83345:CDS 35.0%
TCAAGAGCAGCAATTTCTAA+TGG - chr2.2:29686307-29686326 None:intergenic 35.0%
! AAAGAGTTTGAAGTTGCTTG+AGG + chr2.2:29686594-29686613 MS.gene83345:CDS 35.0%
! ATGGAAATACCTTCTAGAGA+AGG - chr2.2:29686125-29686144 None:intergenic 35.0%
! GATGATGATGATGATGATGT+TGG + chr2.2:29686220-29686239 MS.gene83345:CDS 35.0%
! TTCATCATCACATTTTCCTG+AGG + chr2.2:29686198-29686217 MS.gene83345:CDS 35.0%
!! TCTCTAGAAGGTATTTCCAT+TGG + chr2.2:29686125-29686144 MS.gene83345:CDS 35.0%
!!! AAGTGTTTTGGTTAGGGAAA+TGG + chr2.2:29686519-29686538 MS.gene83345:CDS 35.0%
!!! ACCAACAAGTGTTTTGGTTA+GGG + chr2.2:29686513-29686532 MS.gene83345:CDS 35.0%
AAGGAGAAAGAAGAGTCATG+TGG - chr2.2:29686106-29686125 None:intergenic 40.0%
AGCTGTGGAACCTATTTCAA+TGG + chr2.2:29686705-29686724 MS.gene83345:CDS 40.0%
AGTTGCTTGAGGAACCAATT+TGG + chr2.2:29686605-29686624 MS.gene83345:CDS 40.0%
ATGAATGTGGATCAGAGGAA+TGG + chr2.2:29686671-29686690 MS.gene83345:CDS 40.0%
CCATTGGAAAAAGAAGGCTT+TGG + chr2.2:29686141-29686160 MS.gene83345:CDS 40.0%
CTTCTTTCTCCTTCTCTAGA+AGG + chr2.2:29686113-29686132 MS.gene83345:CDS 40.0%
GCTAAGTATGAGAGGGTTAT+TGG + chr2.2:29686799-29686818 MS.gene83345:CDS 40.0%
GCTGTGGAACCTATTTCAAT+GGG + chr2.2:29686706-29686725 MS.gene83345:CDS 40.0%
TCATCATCATCATCATCCTC+AGG - chr2.2:29686217-29686236 None:intergenic 40.0%
TCCCTAACCAAAACACTTGT+TGG - chr2.2:29686517-29686536 None:intergenic 40.0%
TTCTACATGATGAACCCTGT+TGG + chr2.2:29686841-29686860 MS.gene83345:CDS 40.0%
! AGCAACACCAACAAGTGTTT+TGG + chr2.2:29686507-29686526 MS.gene83345:CDS 40.0%
! CCAAAGCCTTCTTTTTCCAA+TGG - chr2.2:29686144-29686163 None:intergenic 40.0%
! GATGATGATGATGATGTTGG+TGG + chr2.2:29686223-29686242 MS.gene83345:CDS 40.0%
!!! CACCAACAAGTGTTTTGGTT+AGG + chr2.2:29686512-29686531 MS.gene83345:CDS 40.0%
ACACCAGCACCCATTGAAAT+AGG - chr2.2:29686718-29686737 None:intergenic 45.0%
AGAAGAGTCATGTGGTGACT+TGG - chr2.2:29686098-29686117 None:intergenic 45.0%
AGCAAGTAAAGGCTGAGTTC+AGG - chr2.2:29686877-29686896 None:intergenic 45.0%
AGTGTGAGAAGAAAGGAGGA+GGG + chr2.2:29686569-29686588 MS.gene83345:CDS 45.0%
CAAAATGGACATGTCCACGA+CGG - chr2.2:29686441-29686460 None:intergenic 45.0%
GAACCTATTTCAATGGGTGC+TGG + chr2.2:29686712-29686731 MS.gene83345:CDS 45.0%
GCATTGGAGTGTGAGAAGAA+AGG + chr2.2:29686562-29686581 MS.gene83345:CDS 45.0%
GGCTCAACTTTGAGTCATCT+TGG - chr2.2:29686468-29686487 None:intergenic 45.0%
TAGGCATGAATGTGGATCAG+AGG + chr2.2:29686666-29686685 MS.gene83345:CDS 45.0%
TGCTTGAGGAACCAATTTGG+AGG + chr2.2:29686608-29686627 MS.gene83345:CDS 45.0%
TGTTGCCAATGCCAAGTAGT+GGG + chr2.2:29686737-29686756 MS.gene83345:CDS 45.0%
TTGGAGTGTGAGAAGAAAGG+AGG + chr2.2:29686565-29686584 MS.gene83345:CDS 45.0%
TTGGTTAGGGAAATGGCTTC+TGG + chr2.2:29686526-29686545 MS.gene83345:CDS 45.0%
! ATGATGAACCCTGTTGGTAG+TGG + chr2.2:29686847-29686866 MS.gene83345:CDS 45.0%
! CGTTCACTTCACAGTTCTAG+TGG + chr2.2:29686385-29686404 MS.gene83345:CDS 45.0%
!! GGCTTTGGATGAAGATGATG+AGG + chr2.2:29686156-29686175 MS.gene83345:CDS 45.0%
!! TGTTGGTGGTGAGAAAGAAG+AGG + chr2.2:29686237-29686256 MS.gene83345:CDS 45.0%
CCATTCCCACTACTTGGCAT+TGG - chr2.2:29686745-29686764 None:intergenic 50.0%
GAGTGTGAGAAGAAAGGAGG+AGG + chr2.2:29686568-29686587 MS.gene83345:CDS 50.0%
GGGAATGGAGGTGAGTTTGA+AGG + chr2.2:29686757-29686776 MS.gene83345:CDS 50.0%
GTGTTGCCAATGCCAAGTAG+TGG + chr2.2:29686736-29686755 MS.gene83345:CDS 50.0%
TCACCTCCATTCCCACTACT+TGG - chr2.2:29686751-29686770 None:intergenic 50.0%
TCCACGACGGTATCCGAAAA+GGG - chr2.2:29686428-29686447 None:intergenic 50.0%
TCTAGTGGCACACGTATGGT+GGG + chr2.2:29686400-29686419 MS.gene83345:CDS 50.0%
TGGAGTGGTGAGGATTGCAT+TGG + chr2.2:29686546-29686565 MS.gene83345:CDS 50.0%
TTCTAGTGGCACACGTATGG+TGG + chr2.2:29686399-29686418 MS.gene83345:CDS 50.0%
! ATGCCAAGTAGTGGGAATGG+AGG + chr2.2:29686745-29686764 MS.gene83345:CDS 50.0%
! CAGTTCTAGTGGCACACGTA+TGG + chr2.2:29686396-29686415 MS.gene83345:CDS 50.0%
! CCAATGCCAAGTAGTGGGAA+TGG + chr2.2:29686742-29686761 MS.gene83345:CDS 50.0%
! TAGGGAAATGGCTTCTGGAG+TGG + chr2.2:29686531-29686550 MS.gene83345:CDS 50.0%
!! AAATGGCTTCTGGAGTGGTG+AGG + chr2.2:29686536-29686555 MS.gene83345:CDS 50.0%
!! ATGAACCCTGTTGGTAGTGG+TGG + chr2.2:29686850-29686869 MS.gene83345:CDS 50.0%
CAGGACCACCACTACCAACA+GGG - chr2.2:29686858-29686877 None:intergenic 55.0%
GTCCACGACGGTATCCGAAA+AGG - chr2.2:29686429-29686448 None:intergenic 55.0%
TCAGGACCACCACTACCAAC+AGG - chr2.2:29686859-29686878 None:intergenic 55.0%
! ACCCTTTTCGGATACCGTCG+TGG + chr2.2:29686424-29686443 MS.gene83345:CDS 55.0%
!!! CGTATGGTGGGCACCCTTTT+CGG + chr2.2:29686412-29686431 MS.gene83345:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 29686088 29686906 29686088 ID=MS.gene83345
chr2.2 mRNA 29686088 29686906 29686088 ID=MS.gene83345.t1;Parent=MS.gene83345
chr2.2 exon 29686088 29686906 29686088 ID=MS.gene83345.t1.exon1;Parent=MS.gene83345.t1
chr2.2 CDS 29686088 29686906 29686088 ID=cds.MS.gene83345.t1;Parent=MS.gene83345.t1
Gene Sequence

>MS.gene83345

ATGGCAGCCAAGTCACCACATGACTCTTCTTTCTCCTTCTCTAGAAGGTATTTCCATTGGAAAAAGAAGGCTTTGGATGAAGATGATGAGGAAGTAATACTCAACATAAGTTCATCATCACATTTTCCTGAGGATGATGATGATGATGATGTTGGTGGTGAGAAAGAAGAGGTTCATCATCATCGACATCATCATAATCATTTAAGAATCCAAATGCCATTAGAAATTGCTGCTCTTGAAAAGAAGAAGAATTCAAAATCAAAGTTCAAGTCAGCACTAACAATTCTCACAAAGAATCGTTCACTTCACAGTTCTAGTGGCACACGTATGGTGGGCACCCTTTTCGGATACCGTCGTGGACATGTCCATTTTGCTTTCCAAGATGACTCAAAGTTGAGCCCTACATTCTTAATTGAGCTAGCAACACCAACAAGTGTTTTGGTTAGGGAAATGGCTTCTGGAGTGGTGAGGATTGCATTGGAGTGTGAGAAGAAAGGAGGAGGGAGAAAGAGTTTGAAGTTGCTTGAGGAACCAATTTGGAGGACTTATTGTAATGGAAGAAAATGTGGTTATGCATATAGGCATGAATGTGGATCAGAGGAATGGAAGATATTGAAAGCTGTGGAACCTATTTCAATGGGTGCTGGTGTGTTGCCAATGCCAAGTAGTGGGAATGGAGGTGAGTTTGAAGGTGAGCTCATGTATATGAGAGCTAAGTATGAGAGGGTTATTGGGTCTAAAGATTCTGAAGCTTTCTACATGATGAACCCTGTTGGTAGTGGTGGTCCTGAACTCAGCCTTTACTTGCTTAGAGTTTAA
Protein sequence

>MS.gene83345.t1

MAAKSPHDSSFSFSRRYFHWKKKALDEDDEEVILNISSSSHFPEDDDDDDVGGEKEEVHHHRHHHNHLRIQMPLEIAALEKKKNSKSKFKSALTILTKNRSLHSSSGTRMVGTLFGYRRGHVHFAFQDDSKLSPTFLIELATPTSVLVREMASGVVRIALECEKKGGGRKSLKLLEEPIWRTYCNGRKCGYAYRHECGSEEWKILKAVEPISMGAGVLPMPSSGNGGEFEGELMYMRAKYERVIGSKDSEAFYMMNPVGSGGPELSLYLLRV