AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene037095

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037095.t1 MTR_2g038625 97.209 215 6 0 1 215 1 215 2.88e-152 421
MS.gene037095.t1 MTR_2g038580 97.209 215 6 0 1 215 1 215 2.88e-152 421
MS.gene037095.t1 MTR_8g006705 60.177 113 45 0 82 194 146 258 1.84e-39 137
MS.gene037095.t1 MTR_5g014890 57.937 126 48 2 72 197 117 237 2.30e-39 136
MS.gene037095.t1 MTR_4g100550 43.750 176 99 0 37 212 75 250 2.42e-39 136
MS.gene037095.t1 MTR_5g013010 55.932 118 52 0 82 199 136 253 4.34e-39 136
MS.gene037095.t1 MTR_4g097600 61.739 115 41 2 82 195 127 239 2.03e-38 134
MS.gene037095.t1 MTR_7g093430 57.983 119 49 1 77 195 155 272 5.15e-38 134
MS.gene037095.t1 MTR_1g054285 57.724 123 43 2 77 195 149 266 7.98e-38 133
MS.gene037095.t1 MTR_2g061030 60.000 115 43 2 82 195 200 312 1.77e-36 130
MS.gene037095.t1 MTR_1g017090 49.032 155 75 3 49 199 94 248 1.80e-35 127
MS.gene037095.t1 MTR_4g084750 50.847 118 53 1 82 194 65 182 8.13e-34 120
MS.gene037095.t1 MTR_4g126900 41.346 208 102 5 11 201 7 211 9.21e-33 118
MS.gene037095.t1 MTR_3g103590 55.556 126 53 2 71 195 133 256 7.43e-30 112
MS.gene037095.t1 MTR_5g013010 65.385 52 18 0 82 133 136 187 1.56e-14 69.7
MS.gene037095.t1 MTR_1g061660 42.697 89 51 0 82 170 59 147 2.28e-13 67.0
MS.gene037095.t1 MTR_5g039000 37.273 110 66 1 60 169 58 164 4.69e-13 67.0
MS.gene037095.t1 MTR_7g103340 32.667 150 91 4 27 169 4 150 2.41e-12 64.3
MS.gene037095.t1 MTR_6g007647 42.045 88 51 0 82 169 33 120 2.73e-12 64.3
MS.gene037095.t1 MTR_7g010020 36.667 120 70 2 56 171 56 173 2.92e-12 64.7
MS.gene037095.t1 MTR_6g007647 42.045 88 51 0 82 169 67 154 3.88e-12 64.3
MS.gene037095.t1 MTR_5g038280 40.000 95 50 1 81 168 86 180 6.49e-12 63.9
MS.gene037095.t1 MTR_3g080100 42.105 95 48 1 82 169 20 114 9.60e-12 62.4
MS.gene037095.t1 MTR_8g468210 36.697 109 65 2 60 168 59 163 9.65e-12 63.2
MS.gene037095.t1 MTR_3g080100 42.105 95 48 1 82 169 59 153 1.38e-11 62.4
MS.gene037095.t1 MTR_8g089895 40.351 114 60 3 76 181 48 161 4.48e-11 61.6
MS.gene037095.t1 MTR_8g469430 41.053 95 49 1 81 168 88 182 5.87e-11 60.8
MS.gene037095.t1 MTR_4g107650 40.909 88 52 0 82 169 95 182 7.01e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037095.t1 AT4G16780 47.742 155 81 0 55 209 102 256 1.10e-40 140
MS.gene037095.t1 AT4G17460 49.664 149 69 1 51 199 110 252 2.15e-40 139
MS.gene037095.t1 AT5G47370 56.780 118 51 0 82 199 130 247 9.22e-39 135
MS.gene037095.t1 AT3G60390 54.918 122 55 0 73 194 153 274 3.07e-38 134
MS.gene037095.t1 AT5G06710 55.645 124 54 1 72 195 180 302 1.21e-37 134
MS.gene037095.t1 AT2G44910 57.018 114 49 0 82 195 163 276 2.87e-37 132
MS.gene037095.t1 AT4G37790 58.772 114 46 1 82 195 126 238 5.51e-37 130
MS.gene037095.t1 AT2G22800 57.018 114 48 1 82 195 113 225 7.79e-36 127
MS.gene037095.t1 AT2G01430 54.386 114 49 1 82 195 139 249 9.35e-35 124
MS.gene037095.t1 AT1G70920 50.000 124 54 2 72 195 59 174 1.05e-28 107
MS.gene037095.t1 AT1G70920 50.000 124 54 2 72 195 29 144 1.38e-28 106
MS.gene037095.t1 AT5G06710 59.677 62 25 0 72 133 180 241 1.68e-16 76.3
MS.gene037095.t1 AT5G03790 42.574 101 58 0 70 170 65 165 1.16e-14 70.9
MS.gene037095.t1 AT2G01430 58.182 55 23 0 82 136 139 193 5.30e-14 68.6
MS.gene037095.t1 AT3G01220 32.738 168 101 3 52 212 57 219 3.50e-13 67.4
MS.gene037095.t1 AT4G36740 37.374 99 62 0 70 168 44 142 3.78e-12 63.5
MS.gene037095.t1 AT4G36740 37.374 99 62 0 70 168 43 141 4.00e-12 63.5
MS.gene037095.t1 AT3G01470 47.222 72 38 0 82 153 68 139 6.14e-12 63.5
MS.gene037095.t1 AT5G03790 41.053 95 56 0 70 164 65 159 7.95e-12 62.4
MS.gene037095.t1 AT2G18550 33.333 144 89 2 69 211 48 185 1.23e-11 62.0
MS.gene037095.t1 AT1G26960 37.500 104 62 1 66 169 58 158 1.50e-11 62.4

Find 37 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATACCTTGCTCTTCTGTTC+TGG 0.227517 2.1:+52028791 None:intergenic
GTTCATCATGCAAGAAAATA+TGG 0.268795 2.1:-52027975 MS.gene037095:CDS
GATGATTGAGTTGTGTTTGA+TGG 0.272598 2.1:+52028021 None:intergenic
TAGCCTTTAATCTAACTCTA+TGG 0.303061 2.1:+52027909 None:intergenic
AATCATCTAAAGCTGCAAAT+TGG 0.315157 2.1:-52028005 MS.gene037095:CDS
CTTAATCTTAAACTTGGATT+AGG 0.319965 2.1:-52029339 MS.gene037095:CDS
CCATTGATTTGAACCATGAT+AGG 0.325695 2.1:-52029260 MS.gene037095:CDS
GCACCATAGAGTTAGATTAA+AGG 0.328032 2.1:-52027912 None:intergenic
GGTTGATTCAAAAGAAGAAT+TGG 0.345182 2.1:-52029283 MS.gene037095:CDS
AACTAAGTGAGGAGAATCTT+AGG 0.353207 2.1:-52028086 MS.gene037095:CDS
AGCAAAGACAGGTTGAAGTT+TGG 0.373329 2.1:-52028816 MS.gene037095:CDS
AATAACAACATCCTCCTCAT+TGG 0.419038 2.1:+52027948 None:intergenic
TCAATTCATTTGCCCTATCA+TGG 0.421387 2.1:+52029247 None:intergenic
AATTGTGCTGCGACGCTTGA+AGG 0.434813 2.1:+52029092 None:intergenic
TTTCTTGCATGATGAACAAA+TGG 0.440678 2.1:+52027981 None:intergenic
ATAACAACATCCTCCTCATT+GGG 0.441004 2.1:+52027949 None:intergenic
TTGGATCTTAATCTTAAACT+TGG 0.447542 2.1:-52029345 MS.gene037095:CDS
AAACAATGTGAACAAACCTT+TGG 0.458446 2.1:-52029304 MS.gene037095:CDS
ACACCACCAATGTCAACAAC+GGG 0.477693 2.1:-52029167 MS.gene037095:CDS
ATTGAATTTAAAGCAAAGAC+AGG 0.478696 2.1:-52028827 MS.gene037095:CDS
CCTATCATGGTTCAAATCAA+TGG 0.487751 2.1:+52029260 None:intergenic
GGAGAATCTTAGGTTGAAGA+AGG 0.518622 2.1:-52028076 MS.gene037095:CDS
GAACTGCGTGCATTAAAAGT+TGG 0.525263 2.1:-52028045 MS.gene037095:CDS
CATTGATTTGAACCATGATA+GGG 0.530963 2.1:-52029259 MS.gene037095:CDS
GCACCCGTTGTTGACATTGG+TGG 0.553536 2.1:+52029164 None:intergenic
TGAGCACCCGTTGTTGACAT+TGG 0.559597 2.1:+52029161 None:intergenic
AATCTAACTCTATGGTGCTG+TGG 0.578396 2.1:+52027917 None:intergenic
ACGGGTGCTCAAAGAAATTG+AGG 0.587563 2.1:-52029149 MS.gene037095:CDS
TCATCACATGGCATGCACGT+TGG 0.602607 2.1:-52029364 MS.gene037095:CDS
GACACCACCAATGTCAACAA+CGG 0.607067 2.1:-52029168 MS.gene037095:CDS
GAAAATATGGAAGCCCAATG+AGG 0.640653 2.1:-52027962 MS.gene037095:CDS
GGTTCCAGAACAGAAGAGCA+AGG 0.646687 2.1:-52028795 MS.gene037095:intron
AATATGGAAGCCCAATGAGG+AGG 0.651470 2.1:-52027959 MS.gene037095:CDS
ATGATCTTGATCATCATCCA+TGG 0.675243 2.1:+52029383 None:intergenic
ATGTCATGAGAAACTAAGTG+AGG 0.678157 2.1:-52028097 MS.gene037095:CDS
TGATGATCAAGATCATCACA+TGG 0.696569 2.1:-52029376 MS.gene037095:CDS
GACTAAGCTGAAACAAACAG+AGG 0.748545 2.1:-52028142 MS.gene037095:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTATTAATTATTAATTTTA+TGG - chr2.1:52028293-52028312 MS.gene037095:intron 0.0%
!! TTTCATTTATCAAAATTTAA+GGG - chr2.1:52028387-52028406 MS.gene037095:intron 10.0%
!!! TTTTATTATTTTTTCTTTCA+TGG - chr2.1:52028566-52028585 MS.gene037095:intron 10.0%
!!! TTTTCATTTATCAAAATTTA+AGG - chr2.1:52028386-52028405 MS.gene037095:intron 10.0%
!! ATAGTCAACAAATAATAAAT+TGG + chr2.1:52028776-52028795 None:intergenic 15.0%
!! ATTCAAAGAGTAATATATTA+CGG + chr2.1:52028234-52028253 None:intergenic 15.0%
!!! TTTCAAAAAATAATTTGTGT+TGG - chr2.1:52028742-52028761 MS.gene037095:intron 15.0%
!!! AATTATACAATTGACTTTTC+AGG - chr2.1:52029132-52029151 MS.gene037095:CDS 20.0%
!!! ATGAAATTTTATAACTTGAG+TGG + chr2.1:52028881-52028900 None:intergenic 20.0%
!!! ATGAATCATTTGGTTTAATT+GGG - chr2.1:52028525-52028544 MS.gene037095:intron 20.0%
!!! GGAATTGATTTTTTTTGTTT+CGG - chr2.1:52028408-52028427 MS.gene037095:intron 20.0%
!!! TATGAATCATTTGGTTTAAT+TGG - chr2.1:52028524-52028543 MS.gene037095:intron 20.0%
! CTTAATCTTAAACTTGGATT+AGG - chr2.1:52027957-52027976 MS.gene037095:CDS 25.0%
! TTGACAGTTATATGAAATAG+AGG - chr2.1:52029010-52029029 MS.gene037095:intron 25.0%
! TTGGATCTTAATCTTAAACT+TGG - chr2.1:52027951-52027970 MS.gene037095:CDS 25.0%
!! ATTGAATTTAAAGCAAAGAC+AGG - chr2.1:52028469-52028488 MS.gene037095:intron 25.0%
!! TTATGGAAGCTAATTTTGTA+TGG - chr2.1:52028310-52028329 MS.gene037095:intron 25.0%
AAACAATGTGAACAAACCTT+TGG - chr2.1:52027992-52028011 MS.gene037095:CDS 30.0%
GTTCATCATGCAAGAAAATA+TGG - chr2.1:52029321-52029340 MS.gene037095:CDS 30.0%
TTTCTTGCATGATGAACAAA+TGG + chr2.1:52029318-52029337 None:intergenic 30.0%
! AATCATCTAAAGCTGCAAAT+TGG - chr2.1:52029291-52029310 MS.gene037095:CDS 30.0%
! GGTTGATTCAAAAGAAGAAT+TGG - chr2.1:52028013-52028032 MS.gene037095:CDS 30.0%
! TCTTCTTTTGAATCAACCAA+AGG + chr2.1:52028011-52028030 None:intergenic 30.0%
!! CATTGATTTGAACCATGATA+GGG - chr2.1:52028037-52028056 MS.gene037095:CDS 30.0%
AACTAAGTGAGGAGAATCTT+AGG - chr2.1:52029210-52029229 MS.gene037095:CDS 35.0%
AATAACAACATCCTCCTCAT+TGG + chr2.1:52029351-52029370 None:intergenic 35.0%
AATTTCTGACGTAGTAGTCA+GGG + chr2.1:52028706-52028725 None:intergenic 35.0%
AGAGCAAGGTATGAATCATT+TGG - chr2.1:52028515-52028534 MS.gene037095:intron 35.0%
ATAACAACATCCTCCTCATT+GGG + chr2.1:52029350-52029369 None:intergenic 35.0%
ATGTCATGAGAAACTAAGTG+AGG - chr2.1:52029199-52029218 MS.gene037095:CDS 35.0%
CCTATCATGGTTCAAATCAA+TGG + chr2.1:52028039-52028058 None:intergenic 35.0%
GACTGTTGAACACTACAATT+TGG - chr2.1:52029057-52029076 MS.gene037095:intron 35.0%
TAGTAGTCAGGGTAAAATGA+TGG + chr2.1:52028695-52028714 None:intergenic 35.0%
TCAATTCATTTGCCCTATCA+TGG + chr2.1:52028052-52028071 None:intergenic 35.0%
TGATCACTTGGATTTCTTCT+TGG - chr2.1:52028644-52028663 MS.gene037095:intron 35.0%
TGATGATCAAGATCATCACA+TGG - chr2.1:52027920-52027939 MS.gene037095:CDS 35.0%
TTTACATGCAGGCTCAAAAA+CGG - chr2.1:52028432-52028451 MS.gene037095:intron 35.0%
! ACTTTTCACTTCTGATCACT+TGG - chr2.1:52028632-52028651 MS.gene037095:intron 35.0%
! GATGATTGAGTTGTGTTTGA+TGG + chr2.1:52029278-52029297 None:intergenic 35.0%
! TTTGTTTCGGTTTTACATGC+AGG - chr2.1:52028421-52028440 MS.gene037095:intron 35.0%
!! CCATTGATTTGAACCATGAT+AGG - chr2.1:52028036-52028055 MS.gene037095:CDS 35.0%
GAAAATATGGAAGCCCAATG+AGG - chr2.1:52029334-52029353 MS.gene037095:CDS 40.0%
GAACTGCGTGCATTAAAAGT+TGG - chr2.1:52029251-52029270 MS.gene037095:CDS 40.0%
GAATTTCTGACGTAGTAGTC+AGG + chr2.1:52028707-52028726 None:intergenic 40.0%
GACTAAGCTGAAACAAACAG+AGG - chr2.1:52029154-52029173 MS.gene037095:CDS 40.0%
TTACATGCAGGCTCAAAAAC+GGG - chr2.1:52028433-52028452 MS.gene037095:intron 40.0%
! AATCTAACTCTATGGTGCTG+TGG + chr2.1:52029382-52029401 None:intergenic 40.0%
! AGCAAAGACAGGTTGAAGTT+TGG - chr2.1:52028480-52028499 MS.gene037095:intron 40.0%
!! GGAGAATCTTAGGTTGAAGA+AGG - chr2.1:52029220-52029239 MS.gene037095:CDS 40.0%
!!! CTTGAAGGCATTTTCAAGCT+TGG + chr2.1:52028192-52028211 None:intergenic 40.0%
AATATGGAAGCCCAATGAGG+AGG - chr2.1:52029337-52029356 MS.gene037095:CDS 45.0%
ACACCACCAATGTCAACAAC+GGG - chr2.1:52028129-52028148 MS.gene037095:CDS 45.0%
ACGGGTGCTCAAAGAAATTG+AGG - chr2.1:52028147-52028166 MS.gene037095:intron 45.0%
CATACCTTGCTCTTCTGTTC+TGG + chr2.1:52028508-52028527 None:intergenic 45.0%
GACACCACCAATGTCAACAA+CGG - chr2.1:52028128-52028147 MS.gene037095:CDS 45.0%
AATTGTGCTGCGACGCTTGA+AGG + chr2.1:52028207-52028226 None:intergenic 50.0%
GGTTCCAGAACAGAAGAGCA+AGG - chr2.1:52028501-52028520 MS.gene037095:intron 50.0%
TCATCACATGGCATGCACGT+TGG - chr2.1:52027932-52027951 MS.gene037095:CDS 50.0%
TGAGCACCCGTTGTTGACAT+TGG + chr2.1:52028138-52028157 None:intergenic 50.0%
! TCAAAAACGGGCACTTGCTG+AGG - chr2.1:52028445-52028464 MS.gene037095:intron 50.0%
GCACCCGTTGTTGACATTGG+TGG + chr2.1:52028135-52028154 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 52027915 52029403 52027915 ID=MS.gene037095
chr2.1 mRNA 52027915 52029403 52027915 ID=MS.gene037095.t1;Parent=MS.gene037095
chr2.1 exon 52029086 52029403 52029086 ID=MS.gene037095.t1.exon1;Parent=MS.gene037095.t1
chr2.1 CDS 52029086 52029403 52029086 ID=cds.MS.gene037095.t1;Parent=MS.gene037095.t1
chr2.1 exon 52028796 52028875 52028796 ID=MS.gene037095.t1.exon2;Parent=MS.gene037095.t1
chr2.1 CDS 52028796 52028875 52028796 ID=cds.MS.gene037095.t1;Parent=MS.gene037095.t1
chr2.1 exon 52027915 52028164 52027915 ID=MS.gene037095.t1.exon3;Parent=MS.gene037095.t1
chr2.1 CDS 52027915 52028164 52027915 ID=cds.MS.gene037095.t1;Parent=MS.gene037095.t1
Gene Sequence

>MS.gene037095

ATGGATGATGATCAAGATCATCACATGGCATGCACGTTGGATCTTAATCTTAAACTTGGATTAGGAAGTTATGTGCAAAACAATGTGAACAAACCTTTGGTTGATTCAAAAGAAGAATTGGCCATTGATTTGAACCATGATAGGGCAAATGAATTGAGTTTGAAGAGAGTGCATGAAGAACAAGCAAACACAGTTGAAGAAGAAATTGCTATTGACACCACCAATGTCAACAACGGGTGCTCAAAGAAATTGAGGCTTACAACTGAGCAATCAACCAAGCTTGAAAATGCCTTCAAGCGTCGCAGCACAATTAACACCGTAATATATTACTCTTTGAATTATCTTTTCATTTTTCATTAGCTTGAAATTTTTTTTTTTTTTATTAATTATTAATTTTATGGAAGCTAATTTTGTATGGTTTATAATTTATCATGTATTTTATTCGTTACTGTTTTATATATCATTGTTAAATTTTCATTTATCAAAATTTAAGGGAATTGATTTTTTTTGTTTCGGTTTTACATGCAGGCTCAAAAACGGGCACTTGCTGAGGAATTGAATTTAAAGCAAAGACAGGTTGAAGTTTGGTTCCAGAACAGAAGAGCAAGGTATGAATCATTTGGTTTAATTGGGTCATTTCAATTTTAAAATTTTTATTATTTTTTCTTTCATGGCTCAATATTTGTTTGATCTTAATCTAACATATTTTCTTCATCAACTTTTCACTTCTGATCACTTGGATTTCTTCTTGGTTTTTTTTTTTTTTTTTAATGTGTTCCATCATTTTACCCTGACTACTACGTCAGAAATTCTTGACAAAATTGTCTTTTCAAAAAATAATTTGTGTTGGTAAATCATCCAATTTATTATTTGTTGACTATTTCAAAGAGATATATCTCGTTTTTGCAAAAATAATTTATCTCAAAAAAGCTAACTTTTAATGTAATTTTAATATTATGTATACCACTCAAGTTATAAAATTTCATTTTGTATTTATGATATTAAAAAATACATCAATAATTAATAATAATATTTTTATAAAATACTATTATCTTTCATTTATCATTTTTCTTATTCTGTGTGAAGTGAACAAAGTTGACAGTTATATGAAATAGAGGATAAAAAATATTTTTTATTGATTAGACTGTTGAACACTACAATTTGGAGACTAAAAATTGAATATTTTTTGTTTGACTTGACTATACTACTTTCTAAGCAATTATACAATTGACTTTTCAGGACTAAGCTGAAACAAACAGAGGTGAACTGTATATATTTGAGAAAATGTCATGAGAAACTAAGTGAGGAGAATCTTAGGTTGAAGAAGGAATTAGAAGAACTGCGTGCATTAAAAGTTGGACCATCAAACACAACTCAATCATCTAAAGCTGCAAATTGGACCATTTGTTCATCATGCAAGAAAATATGGAAGCCCAATGAGGAGGATGTTGTTATTAAGAGCAGCCACAGCACCATAGAGTTAGATTAA
Protein sequence

>MS.gene037095.t1

MDDDQDHHMACTLDLNLKLGLGSYVQNNVNKPLVDSKEELAIDLNHDRANELSLKRVHEEQANTVEEEIAIDTTNVNNGCSKKLRLTTEQSTKLENAFKRRSTINTAQKRALAEELNLKQRQVEVWFQNRRARTKLKQTEVNCIYLRKCHEKLSEENLRLKKELEELRALKVGPSNTTQSSKAANWTICSSCKKIWKPNEEDVVIKSSHSTIELD