AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95950

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95950.t1 MTR_4g051538 80.833 240 36 5 1 236 1 234 1.55e-126 358
MS.gene95950.t1 MTR_3g104630 48.921 139 46 5 106 228 16 145 1.55e-31 113
MS.gene95950.t1 MTR_1g108510 29.560 159 98 3 5 149 5 163 1.41e-16 76.3
MS.gene95950.t1 MTR_8g043650 34.307 137 80 3 1 127 1 137 3.31e-16 75.5
MS.gene95950.t1 MTR_1g106070 34.559 136 79 3 1 126 1 136 3.93e-16 73.9
MS.gene95950.t1 MTR_3g030770 29.560 159 98 3 5 149 5 163 4.23e-16 75.1
MS.gene95950.t1 MTR_3g052920 35.338 133 76 3 5 127 5 137 5.93e-16 74.7
MS.gene95950.t1 MTR_1g105910 35.338 133 76 3 5 127 5 137 6.20e-16 74.7
MS.gene95950.t1 MTR_1g108580 32.117 137 83 2 1 127 1 137 9.83e-16 73.9
MS.gene95950.t1 MTR_1g012570 45.588 68 37 0 5 72 5 72 1.13e-15 73.9
MS.gene95950.t1 MTR_2g085250 38.462 91 53 1 1 88 1 91 2.38e-15 73.2
MS.gene95950.t1 MTR_2g085280 38.462 91 53 1 1 88 1 91 2.53e-15 73.2
MS.gene95950.t1 MTR_3g052870 45.588 68 37 0 5 72 5 72 2.56e-15 72.8
MS.gene95950.t1 MTR_1g105920 45.588 68 37 0 5 72 5 72 3.72e-15 72.4
MS.gene95950.t1 MTR_3g080940 43.590 78 44 0 1 78 1 78 5.72e-15 71.6
MS.gene95950.t1 MTR_2g030740 45.588 68 37 0 5 72 5 72 6.28e-15 72.0
MS.gene95950.t1 MTR_1g077360 42.466 73 42 0 5 77 5 77 6.35e-15 72.0
MS.gene95950.t1 MTR_4g094632 35.294 102 62 1 9 106 2 103 7.88e-15 70.1
MS.gene95950.t1 MTR_5g055100 27.273 198 110 6 5 187 5 183 9.79e-15 71.2
MS.gene95950.t1 MTR_5g053390 26.829 205 108 6 5 191 5 185 1.10e-14 71.2
MS.gene95950.t1 MTR_8g086290 28.916 166 101 3 4 159 7 165 2.69e-14 68.9
MS.gene95950.t1 MTR_5g045560 41.667 72 42 0 1 72 1 72 5.68e-14 69.3
MS.gene95950.t1 MTR_0121s0100 36.364 77 49 0 1 77 1 77 7.34e-14 66.6
MS.gene95950.t1 MTR_4g094638 38.571 70 43 0 9 78 2 71 1.23e-13 67.4
MS.gene95950.t1 MTR_2g093190 40.278 72 43 0 1 72 1 72 1.30e-13 68.2
MS.gene95950.t1 MTR_3g030780 37.079 89 52 1 1 85 1 89 3.52e-13 65.1
MS.gene95950.t1 MTR_1g075600 38.356 73 45 0 5 77 5 77 4.72e-13 66.6
MS.gene95950.t1 MTR_2g105290 25.625 160 112 2 4 158 7 164 4.89e-13 65.5
MS.gene95950.t1 MTR_0121s0080 24.390 164 114 2 5 158 5 168 9.87e-12 63.2
MS.gene95950.t1 MTR_8g079502 33.333 72 48 0 9 80 2 73 2.58e-11 60.8
MS.gene95950.t1 MTR_1g047550 33.333 72 48 0 9 80 2 73 5.14e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95950.t1 AT4G36590 34.132 167 93 5 5 156 3 167 5.15e-18 80.5
MS.gene95950.t1 AT2G34440 31.646 158 99 5 9 159 2 157 2.70e-16 74.3
MS.gene95950.t1 AT1G29962 43.750 80 44 1 1 80 1 79 3.86e-16 74.3
MS.gene95950.t1 AT2G24840 40.000 80 48 0 7 86 61 140 1.52e-14 71.2
MS.gene95950.t1 AT5G60440 41.333 75 44 0 5 79 3 77 2.34e-14 71.2
MS.gene95950.t1 AT1G28460 29.605 152 88 3 1 137 1 148 1.29e-13 67.4
MS.gene95950.t1 AT1G01530 33.645 107 67 1 5 107 3 109 3.14e-13 67.4
MS.gene95950.t1 AT1G28450 38.750 80 48 1 1 80 1 79 1.69e-11 61.6
MS.gene95950.t1 AT3G66656 40.000 65 39 0 9 73 2 66 1.74e-11 61.6
MS.gene95950.t1 AT3G04100 36.232 69 44 0 5 73 10 78 1.99e-11 61.6
MS.gene95950.t1 AT1G65360 39.683 63 38 0 5 67 3 65 8.05e-11 60.5

Find 31 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAAGATGTTGGAAAGTTC+TGG 0.270990 6.2:+76509388 MS.gene95950:CDS
TCTGAGTTAACAACACTTTC+AGG 0.273550 6.2:+76509157 MS.gene95950:CDS
TTTCCTCTTGATGACCTCTT+TGG 0.311240 6.2:-76509046 None:intergenic
ACACAAGGAGTCAACCTTAT+TGG 0.323352 6.2:+76510073 MS.gene95950:CDS
AACAGCAAAGATCATGAAAT+TGG 0.350136 6.2:+76509729 MS.gene95950:CDS
ATCCTCCGCTTGCACCAATA+AGG 0.357163 6.2:-76510087 None:intergenic
TGTTGGAAAGTTCTGGATAT+TGG 0.391346 6.2:+76509395 MS.gene95950:CDS
TTTATTTGTGACAGCAACTA+AGG 0.402905 6.2:-76509479 None:intergenic
ATTCTCATGCTTTCTCCAAC+GGG 0.403336 6.2:+76509193 MS.gene95950:CDS
TTTCTTTCACTTGATCATAC+TGG 0.408170 6.2:-76509447 None:intergenic
TTTGTTATAGATTCAGAAGA+TGG 0.410640 6.2:-76509238 None:intergenic
CCTCTTGATGACCTCTTTGG+CGG 0.444165 6.2:-76509043 None:intergenic
GCATTTACAACGAGAAAGTC+TGG 0.455029 6.2:+76509118 MS.gene95950:CDS
TCTACCATCGAGGAATTGAA+TGG 0.492108 6.2:+76509672 MS.gene95950:CDS
TATTCTCATGCTTTCTCCAA+CGG 0.502164 6.2:+76509192 MS.gene95950:CDS
TGATCCAAAAGGTAAAGGTA+TGG 0.511773 6.2:+76510024 MS.gene95950:intron
TGAAAATTCTTCAATAGAAG+AGG 0.523022 6.2:+76509276 MS.gene95950:CDS
GACTCCATTCAATTCCTCGA+TGG 0.577452 6.2:-76509676 None:intergenic
GTCAACCTTATTGGTGCAAG+CGG 0.586884 6.2:+76510082 MS.gene95950:CDS
AACCTTATTGGTGCAAGCGG+AGG 0.596051 6.2:+76510085 MS.gene95950:CDS
GAGTAAGAATGCCGCCAAAG+AGG 0.607370 6.2:+76509032 None:intergenic
TTTGGATGAAAAGCATGTTG+CGG 0.629913 6.2:+76509348 MS.gene95950:CDS
TGTAGTAATTTCTACCATCG+AGG 0.649957 6.2:+76509662 MS.gene95950:intron
CCGCCAAAGAGGTCATCAAG+AGG 0.664394 6.2:+76509043 MS.gene95950:CDS
TGAAAGTGTTGTTAACTCAG+AGG 0.669188 6.2:-76509155 None:intergenic
GGAGGAGATCTTAACCCTCG+TGG 0.672202 6.2:+76509526 MS.gene95950:CDS
GCAAGCGGAGGATATGAAAG+TGG 0.676676 6.2:+76510097 MS.gene95950:CDS
AAGCATGAGAATATCAACTG+AGG 0.702546 6.2:-76509182 None:intergenic
TCTCGTGATATAGAAACACA+AGG 0.706006 6.2:+76510058 MS.gene95950:CDS
AAGATGTACACATACCACGA+GGG 0.757349 6.2:-76509540 None:intergenic
AAAGTCTGGAATTTACAACA+AGG 0.757794 6.2:+76509132 MS.gene95950:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTAAAATAATTAGACAAAA+AGG - chr6.2:76509623-76509642 None:intergenic 10.0%
!! AAAAACAAAAAATTAAACAC+AGG - chr6.2:76509775-76509794 None:intergenic 15.0%
!! ATAAATAAAGTCTTGAAAAA+TGG + chr6.2:76509505-76509524 MS.gene95950:CDS 15.0%
!!! CTAATTATTTTAAATGAATC+TGG + chr6.2:76509629-76509648 MS.gene95950:intron 15.0%
!! AAAAAATTAAACACAGGAAT+GGG - chr6.2:76509769-76509788 None:intergenic 20.0%
!! AATATTAAATGGTAAAAGCT+GGG - chr6.2:76509869-76509888 None:intergenic 20.0%
!! ACCATTTAATATTCACTTAT+GGG + chr6.2:76509876-76509895 MS.gene95950:intron 20.0%
!! TACCATTTAATATTCACTTA+TGG + chr6.2:76509875-76509894 MS.gene95950:intron 20.0%
!! TCTTCTTAATTTCTATTACT+AGG + chr6.2:76509917-76509936 MS.gene95950:intron 20.0%
!!! TCATTTTGCTGTATAATATT+CGG - chr6.2:76509313-76509332 None:intergenic 20.0%
!!! TGAAAAAAATGATGATCTTT+TGG + chr6.2:76509330-76509349 MS.gene95950:CDS 20.0%
! AAAAAGATTGAATCCATGAA+AGG - chr6.2:76510005-76510024 None:intergenic 25.0%
! AATAAAGTCTTGAAAAATGG+AGG + chr6.2:76509508-76509527 MS.gene95950:CDS 25.0%
! ACGTAAAAATTTGAAGATGT+TGG + chr6.2:76509378-76509397 MS.gene95950:CDS 25.0%
! CAAAAAATTAAACACAGGAA+TGG - chr6.2:76509770-76509789 None:intergenic 25.0%
! GAATATTAAATGGTAAAAGC+TGG - chr6.2:76509870-76509889 None:intergenic 25.0%
! TCCCATAAGTGAATATTAAA+TGG - chr6.2:76509880-76509899 None:intergenic 25.0%
! TGAAAATTCTTCAATAGAAG+AGG + chr6.2:76509276-76509295 MS.gene95950:CDS 25.0%
!! TTCAATCTTTTTGATCCAAA+AGG + chr6.2:76510013-76510032 MS.gene95950:intron 25.0%
!! TTTGTTATAGATTCAGAAGA+TGG - chr6.2:76509241-76509260 None:intergenic 25.0%
!! TTTTGCTTGAAATATTCTAG+CGG + chr6.2:76509791-76509810 MS.gene95950:intron 25.0%
!!! AAATCCTACTTATGTTTTTG+AGG + chr6.2:76509704-76509723 MS.gene95950:CDS 25.0%
AACAGCAAAGATCATGAAAT+TGG + chr6.2:76509729-76509748 MS.gene95950:CDS 30.0%
ATCAAGAGGAAAACAAAAAG+TGG + chr6.2:76509057-76509076 MS.gene95950:CDS 30.0%
TATGTATTGTCTTCCTTTCA+TGG + chr6.2:76509989-76510008 MS.gene95950:intron 30.0%
TTGTCCTCAAAAACATAAGT+AGG - chr6.2:76509711-76509730 None:intergenic 30.0%
TTTATTTGTGACAGCAACTA+AGG - chr6.2:76509482-76509501 None:intergenic 30.0%
TTTCTTTCACTTGATCATAC+TGG - chr6.2:76509450-76509469 None:intergenic 30.0%
! AAAGTCTGGAATTTACAACA+AGG + chr6.2:76509132-76509151 MS.gene95950:CDS 30.0%
! CTTTTTGATCCAAAAGGTAA+AGG + chr6.2:76510019-76510038 MS.gene95950:intron 30.0%
! GATGGTTTTCCATAACAAAA+TGG - chr6.2:76509223-76509242 None:intergenic 30.0%
AAGCATGAGAATATCAACTG+AGG - chr6.2:76509185-76509204 None:intergenic 35.0%
TATTCTCATGCTTTCTCCAA+CGG + chr6.2:76509192-76509211 MS.gene95950:CDS 35.0%
TCTCGTGATATAGAAACACA+AGG + chr6.2:76510058-76510077 MS.gene95950:CDS 35.0%
TCTGAGTTAACAACACTTTC+AGG + chr6.2:76509157-76509176 MS.gene95950:CDS 35.0%
TGATCCAAAAGGTAAAGGTA+TGG + chr6.2:76510024-76510043 MS.gene95950:intron 35.0%
TGTAGTAATTTCTACCATCG+AGG + chr6.2:76509662-76509681 MS.gene95950:intron 35.0%
TTGAAGATGTTGGAAAGTTC+TGG + chr6.2:76509388-76509407 MS.gene95950:CDS 35.0%
TTGTAGACAAGAGATGTTGT+TGG + chr6.2:76509833-76509852 MS.gene95950:intron 35.0%
! ACGGGAAAACCATTTTGTTA+TGG + chr6.2:76509211-76509230 MS.gene95950:CDS 35.0%
! TAACAAAATGGTTTTCCCGT+TGG - chr6.2:76509211-76509230 None:intergenic 35.0%
! TTTGGATGAAAAGCATGTTG+CGG + chr6.2:76509348-76509367 MS.gene95950:CDS 35.0%
!! TGAAAGTGTTGTTAACTCAG+AGG - chr6.2:76509158-76509177 None:intergenic 35.0%
!! TGTTGGAAAGTTCTGGATAT+TGG + chr6.2:76509395-76509414 MS.gene95950:CDS 35.0%
AAGATGTACACATACCACGA+GGG - chr6.2:76509543-76509562 None:intergenic 40.0%
ACACAAGGAGTCAACCTTAT+TGG + chr6.2:76510073-76510092 MS.gene95950:CDS 40.0%
ATTCTCATGCTTTCTCCAAC+GGG + chr6.2:76509193-76509212 MS.gene95950:CDS 40.0%
GCATTTACAACGAGAAAGTC+TGG + chr6.2:76509118-76509137 MS.gene95950:CDS 40.0%
TCTACCATCGAGGAATTGAA+TGG + chr6.2:76509672-76509691 MS.gene95950:CDS 40.0%
! GCAACCATACCTTTACCTTT+TGG - chr6.2:76510031-76510050 None:intergenic 40.0%
! TTTCCTCTTGATGACCTCTT+TGG - chr6.2:76509049-76509068 None:intergenic 40.0%
GAAGATGTACACATACCACG+AGG - chr6.2:76509544-76509563 None:intergenic 45.0%
GACTCCATTCAATTCCTCGA+TGG - chr6.2:76509679-76509698 None:intergenic 45.0%
GTCAACCTTATTGGTGCAAG+CGG + chr6.2:76510082-76510101 MS.gene95950:CDS 45.0%
AACCTTATTGGTGCAAGCGG+AGG + chr6.2:76510085-76510104 MS.gene95950:CDS 50.0%
ATCCTCCGCTTGCACCAATA+AGG - chr6.2:76510090-76510109 None:intergenic 50.0%
GCAAGCGGAGGATATGAAAG+TGG + chr6.2:76510097-76510116 MS.gene95950:CDS 50.0%
! CCTCTTGATGACCTCTTTGG+CGG - chr6.2:76509046-76509065 None:intergenic 50.0%
CCGCCAAAGAGGTCATCAAG+AGG + chr6.2:76509043-76509062 MS.gene95950:CDS 55.0%
GGAGGAGATCTTAACCCTCG+TGG + chr6.2:76509526-76509545 MS.gene95950:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 76509040 76510147 76509040 ID=MS.gene95950
chr6.2 mRNA 76509040 76510147 76509040 ID=MS.gene95950.t1;Parent=MS.gene95950
chr6.2 exon 76509040 76509547 76509040 ID=MS.gene95950.t1.exon1;Parent=MS.gene95950.t1
chr6.2 CDS 76509040 76509547 76509040 ID=cds.MS.gene95950.t1;Parent=MS.gene95950.t1
chr6.2 exon 76509667 76509756 76509667 ID=MS.gene95950.t1.exon2;Parent=MS.gene95950.t1
chr6.2 CDS 76509667 76509756 76509667 ID=cds.MS.gene95950.t1;Parent=MS.gene95950.t1
chr6.2 exon 76510035 76510147 76510035 ID=MS.gene95950.t1.exon3;Parent=MS.gene95950.t1
chr6.2 CDS 76510035 76510147 76510035 ID=cds.MS.gene95950.t1;Parent=MS.gene95950.t1
Gene Sequence

>MS.gene95950

ATGCCGCCAAAGAGGTCATCAAGAGGAAAACAAAAAGTGGAGCTAAAAAAAATTGAGAGTAAGAATGATCTCTTTGTTGCATTTACAACGAGAAAGTCTGGAATTTACAACAAGGCCTCTGAGTTAACAACACTTTCAGGAGCCTCAGTTGATATTCTCATGCTTTCTCCAACGGGAAAACCATTTTGTTATGGAAAACCATCTTCTGAATCTATAACAAAAACTAGTTTGAATGATGAAAATTCTTCAATAGAAGAGGAAATGATGAAACCGAATATTATACAGCAAAATGAAAAAAATGATGATCTTTTGGATGAAAAGCATGTTGCGGAAGCACAACGTAAAAATTTGAAGATGTTGGAAAGTTCTGGATATTGGTCAATTCAAGAGAAAGATGATAAAAGCTACCAGTATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGCTGTCACAAATAAATTGATAAATAAAGTCTTGAAAAATGGAGGAGATCTTAACCCTCGTGGTATGTGTACATCTTCTAATTAACTATGTGTTATATTTGATCTATTAATGACGTCAAATGATTTCATGTCATCCTTTTTGTCTAATTATTTTAAATGAATCTGGTTATAATTTTTGTAGTAATTTCTACCATCGAGGAATTGAATGGAGTCAAAACAAATCCTACTTATGTTTTTGAGGACAACAGCAAAGATCATGAAATTGGTGCAAGTAAGAATTCCCATTCCTGTGTTTAATTTTTTGTTTTTGCTTGAAATATTCTAGCGGTGACACTCACACATTAAACTTGTAGACAAGAGATGTTGTTGGTTAATCGTGTCCCAGCTTTTACCATTTAATATTCACTTATGGGAAAAATCTCAATTACTTTTCTTCTTAATTTCTATTACTAGGCATGCAAACATTTACTTATAATATTTCATGCGACAAATCTAACATATGTTATGTATTGTCTTCCTTTCATGGATTCAATCTTTTTGATCCAAAAGGTAAAGGTATGGTTGCTAATGCTTCTCGTGATATAGAAACACAAGGAGTCAACCTTATTGGTGCAAGCGGAGGATATGAAAGTGGTGTTGATCATGCTTCTCGAGATATATGA
Protein sequence

>MS.gene95950.t1

MPPKRSSRGKQKVELKKIESKNDLFVAFTTRKSGIYNKASELTTLSGASVDILMLSPTGKPFCYGKPSSESITKTSLNDENSSIEEEMMKPNIIQQNEKNDDLLDEKHVAEAQRKNLKMLESSGYWSIQEKDDKSYQYDQVKEIDKSLVAVTNKLINKVLKNGGDLNPRVISTIEELNGVKTNPTYVFEDNSKDHEIGASKGMVANASRDIETQGVNLIGASGGYESGVDHASRDI