AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene060476


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060476.t1 MTR_8g024210 96.216 185 5 1 1 183 181 365 3.23e-126 359
MS.gene060476.t1 MTR_3g099620 50.254 197 80 2 1 179 116 312 5.63e-62 194
MS.gene060476.t1 MTR_7g113830 51.282 195 83 2 1 183 116 310 6.59e-61 192
MS.gene060476.t1 MTR_1g082480 51.282 195 79 4 1 179 136 330 3.93e-59 188
MS.gene060476.t1 MTR_8g066770 49.741 193 80 3 1 179 114 303 1.14e-58 186
MS.gene060476.t1 MTR_0194s0050 52.239 201 73 4 1 180 184 382 2.57e-58 187
MS.gene060476.t1 MTR_5g064950 44.845 194 83 4 1 175 100 288 2.44e-51 167
MS.gene060476.t1 MTR_1g082480 50.581 172 69 4 1 156 136 307 5.78e-48 159
MS.gene060476.t1 MTR_5g064950 45.143 175 72 4 1 156 100 269 7.21e-45 150
MS.gene060476.t1 MTR_2g022280 44.920 187 92 3 1 177 1 186 2.10e-43 143
MS.gene060476.t1 MTR_3g090850 38.428 229 87 5 1 176 101 328 1.09e-39 137
MS.gene060476.t1 MTR_1g028470 36.232 207 100 3 1 176 87 292 1.96e-36 128
MS.gene060476.t1 MTR_3g030700 29.268 164 104 5 4 161 198 355 2.66e-14 70.1
MS.gene060476.t1 MTR_1g072320 26.596 188 122 4 3 178 471 654 7.24e-14 69.3
MS.gene060476.t1 MTR_3g498695 30.233 172 102 7 3 163 299 463 4.70e-12 63.9
MS.gene060476.t1 MTR_7g083900 27.568 185 93 7 3 163 287 454 5.60e-12 63.5
MS.gene060476.t1 MTR_3g498695 30.233 172 101 7 3 163 299 462 1.93e-11 62.0
MS.gene060476.t1 MTR_5g014520 28.188 149 100 3 3 149 158 301 2.27e-11 61.6
MS.gene060476.t1 MTR_7g083900 27.568 185 92 7 3 163 287 453 3.99e-11 61.2
MS.gene060476.t1 MTR_4g009110 25.926 189 114 7 1 176 173 348 4.02e-11 60.8
MS.gene060476.t1 MTR_2g038040 27.957 186 112 6 3 172 53 232 4.41e-11 60.1
MS.gene060476.t1 MTR_2g104550 26.630 184 117 6 1 176 137 310 6.94e-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.gene060476.t1 AT2G46810 56.667 180 71 4 1 176 121 297 1.67e-63 198
MS.gene060476.t1 AT2G46810 56.667 180 71 4 1 176 181 357 9.13e-63 198
MS.gene060476.t1 AT2G46810 56.667 180 71 4 1 176 193 369 1.02e-62 198
MS.gene060476.t1 AT4G01460 54.167 192 74 4 1 180 115 304 2.72e-62 195
MS.gene060476.t1 AT4G01460 54.167 192 74 4 1 180 115 304 2.72e-62 195
MS.gene060476.t1 AT2G46810 49.038 208 71 5 1 176 121 325 1.70e-57 183
MS.gene060476.t1 AT3G24140 51.244 201 75 3 1 179 197 396 2.25e-55 180
MS.gene060476.t1 AT3G24140 50.990 202 76 3 1 180 197 397 2.38e-55 180
MS.gene060476.t1 AT3G61950 51.955 179 80 3 1 176 127 302 2.24e-54 175
MS.gene060476.t1 AT1G22490 49.479 192 78 4 1 179 115 300 6.16e-54 174
MS.gene060476.t1 AT3G61950 51.955 179 80 3 1 176 178 353 1.46e-53 174
MS.gene060476.t1 AT1G72210 47.895 190 87 3 1 179 125 313 1.48e-51 168
MS.gene060476.t1 AT1G22490 50.296 169 65 4 1 156 115 277 1.54e-46 155
MS.gene060476.t1 AT3G61950 52.201 159 70 3 1 156 127 282 7.95e-46 152
MS.gene060476.t1 AT3G61950 52.201 159 70 3 1 156 178 333 5.45e-45 152
MS.gene060476.t1 AT1G72210 47.305 167 76 3 1 156 125 290 3.79e-44 149
MS.gene060476.t1 AT5G46690 44.340 212 85 5 1 179 88 299 5.66e-42 143
MS.gene060476.t1 AT3G06120 43.889 180 84 3 1 163 1 180 3.95e-41 137
MS.gene060476.t1 AT5G65320 39.572 187 101 4 1 175 102 288 3.82e-37 130
MS.gene060476.t1 AT5G46690 43.386 189 74 5 1 156 88 276 1.33e-32 118
MS.gene060476.t1 AT5G65320 39.521 167 90 3 1 156 102 268 1.05e-30 113
MS.gene060476.t1 AT5G53210 65.079 63 22 0 1 63 102 164 2.96e-24 97.4
MS.gene060476.t1 AT5G53210 65.079 63 22 0 1 63 102 164 3.37e-24 97.4
MS.gene060476.t1 AT5G53210 40.000 90 53 1 87 176 275 363 1.77e-12 65.1
MS.gene060476.t1 AT1G12860 30.000 160 103 5 3 156 268 424 5.16e-14 69.7
MS.gene060476.t1 AT1G12860 30.769 156 99 5 3 152 268 420 7.90e-14 68.9
MS.gene060476.t1 AT3G26744 31.429 175 96 7 3 163 308 472 3.19e-13 67.4
MS.gene060476.t1 AT3G26744 31.429 175 96 7 3 163 308 472 3.19e-13 67.4
MS.gene060476.t1 AT3G26744 31.429 175 96 7 3 163 308 472 3.19e-13 67.4
MS.gene060476.t1 AT3G26744 30.952 168 95 6 3 156 308 468 3.89e-13 67.0
MS.gene060476.t1 AT4G29930 28.931 159 101 5 3 159 55 203 2.29e-11 60.8
MS.gene060476.t1 AT5G57150 26.667 165 111 4 3 159 55 217 5.08e-11 60.1
MS.gene060476.t1 AT1G01260 25.316 158 93 3 1 158 432 564 9.06e-11 60.1
MS.gene060476.t1 AT1G01260 25.316 158 93 3 1 158 432 564 9.06e-11 60.1
MS.gene060476.t1 AT1G01260 25.316 158 93 3 1 158 432 564 9.06e-11 60.1

Find 26 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTGCTTTGGAAAATCTT+AGG 0.306717 8.1:+76065527 MS.gene060476:CDS
ATAACTAGGTGGTGATGATA+TGG 0.319968 8.1:-76065359 None:intergenic
GATAAAGGTTATTGTTGCTT+TGG 0.325174 8.1:+76065516 MS.gene060476:CDS
GGTGACCAAGCATCAATAAT+TGG 0.351169 8.1:+76065247 MS.gene060476:CDS
ACTCAAAAGATGTGATGTTT+AGG 0.363568 8.1:-76065564 None:intergenic
ATGATCATCTCAGTGTTCTT+AGG 0.389808 8.1:+76064807 MS.gene060476:CDS
CACTGAGATGATCATTCATT+TGG 0.393015 8.1:-76064799 None:intergenic
CTCCTCCAATTATTGATGCT+TGG 0.405749 8.1:-76065252 None:intergenic
AAAGGCTGGTCAATTGATAA+AGG 0.417902 8.1:+76065501 MS.gene060476:CDS
ATATTCAGCTACATCAATAA+TGG 0.454301 8.1:+76066593 MS.gene060476:CDS
CAATTGCTTGAATCTCTTGA+AGG 0.462699 8.1:+76065301 MS.gene060476:CDS
ATATCATCACCACCTAGTTA+TGG 0.475955 8.1:+76065361 MS.gene060476:CDS
TGCCCTCTTCATATGTTCAA+AGG 0.475976 8.1:+76064837 MS.gene060476:CDS
GAATAATACCTTGAGATTGA+AGG 0.480462 8.1:-76065602 None:intergenic
ATATTGCTGTTGAACGCAAT+AGG 0.480469 8.1:+76064771 MS.gene060476:CDS
GCCCTCTTCATATGTTCAAA+GGG 0.481563 8.1:+76064838 MS.gene060476:CDS
GATAATTTCATTCCATAACT+AGG 0.511449 8.1:-76065373 None:intergenic
TAACTAGGTGGTGATGATAT+GGG 0.530885 8.1:-76065358 None:intergenic
ATCACCTTGTGAAGAAAATG+AGG 0.546176 8.1:+76065393 MS.gene060476:CDS
ATTGAAGAAGACTGTAAGCT+AGG 0.552236 8.1:+76066536 MS.gene060476:CDS
TTGTGAAGAAAATGAGGTGA+AGG 0.575224 8.1:+76065399 MS.gene060476:CDS
ACTCTACTCCTTCAATCTCA+AGG 0.617899 8.1:+76065594 MS.gene060476:CDS
TACCCTTTGAACATATGAAG+AGG 0.623125 8.1:-76064840 None:intergenic
ACCCTTTGAACATATGAAGA+GGG 0.636065 8.1:-76064839 None:intergenic
GACCAAGCATCAATAATTGG+AGG 0.640978 8.1:+76065250 MS.gene060476:CDS
AATTTCATTCCATAACTAGG+TGG 0.671528 8.1:-76065370 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTATAATGATAAACAATGT+TGG - chr8.1:76065765-76065784 None:intergenic 15.0%
!!! ATTTTTTTCATTTATGTGTA+TGG - chr8.1:76066095-76066114 None:intergenic 15.0%
!!! TAAAAAAGAATGAAGATTTT+GGG + chr8.1:76065335-76065354 MS.gene060476:CDS 15.0%
!!! TTATGTTTTAAAAATCACTT+AGG + chr8.1:76065184-76065203 MS.gene060476:intron 15.0%
!! AACAAATTGAAAAAATCACT+AGG - chr8.1:76065078-76065097 None:intergenic 20.0%
!! TATACAAAACCAAAAAAGAT+TGG - chr8.1:76064959-76064978 None:intergenic 20.0%
!! TTTAAAAGAAAACACTATGA+TGG - chr8.1:76065638-76065657 None:intergenic 20.0%
!!! GTAAAAAAGAATGAAGATTT+TGG + chr8.1:76065334-76065353 MS.gene060476:CDS 20.0%
!!! GTTAAAAATCCAATCTTTTT+TGG + chr8.1:76064947-76064966 MS.gene060476:intron 20.0%
!!! TTTTTTGGTTTTGTATACAA+GGG + chr8.1:76064962-76064981 MS.gene060476:intron 20.0%
! AAATAACGAGCTGTATATAT+GGG + chr8.1:76066505-76066524 MS.gene060476:intron 25.0%
! AAGATTAGAGAAATAAGAAG+TGG - chr8.1:76065976-76065995 None:intergenic 25.0%
! ACATGAAAATCTCAAAAGAA+AGG - chr8.1:76064929-76064948 None:intergenic 25.0%
! ATAGAACACACTATTTGAAA+GGG + chr8.1:76066009-76066028 MS.gene060476:intron 25.0%
! ATATTCAGCTACATCAATAA+TGG + chr8.1:76066593-76066612 MS.gene060476:CDS 25.0%
! GAAAATTGAGTGCAAAAAAA+AGG + chr8.1:76065483-76065502 MS.gene060476:CDS 25.0%
! GATAATTTCATTCCATAACT+AGG - chr8.1:76065376-76065395 None:intergenic 25.0%
! TAAATAACGAGCTGTATATA+TGG + chr8.1:76066482-76066501 MS.gene060476:intron 25.0%
!! AAGAAAGGATTTTGAACAAA+AGG - chr8.1:76064914-76064933 None:intergenic 25.0%
!! AGAAAGGATTTTGAACAAAA+GGG - chr8.1:76064913-76064932 None:intergenic 25.0%
!!! AATTGATTTTGTGAAAGAGT+TGG + chr8.1:76065276-76065295 MS.gene060476:CDS 25.0%
!!! CTTTTTTGGTTTTGTATACA+AGG + chr8.1:76064961-76064980 MS.gene060476:intron 25.0%
!!! TTTGATTTGTTTATGCGATA+GGG + chr8.1:76065226-76065245 MS.gene060476:intron 25.0%
!!! TTTTGATTTGTTTATGCGAT+AGG + chr8.1:76065225-76065244 MS.gene060476:intron 25.0%
AATCTCTTGAAGGACAAAAA+AGG + chr8.1:76065311-76065330 MS.gene060476:CDS 30.0%
AATTTCATTCCATAACTAGG+TGG - chr8.1:76065373-76065392 None:intergenic 30.0%
ACTCAAAAGATGTGATGTTT+AGG - chr8.1:76065567-76065586 None:intergenic 30.0%
ACTCTAATGTTGAGTTTATG+AGG + chr8.1:76066240-76066259 MS.gene060476:intron 30.0%
ATCTCTTGAAGGACAAAAAA+GGG + chr8.1:76065312-76065331 MS.gene060476:CDS 30.0%
CATAGAACACACTATTTGAA+AGG + chr8.1:76066008-76066027 MS.gene060476:intron 30.0%
GAATAATACCTTGAGATTGA+AGG - chr8.1:76065605-76065624 None:intergenic 30.0%
TAGAACACACTATTTGAAAG+GGG + chr8.1:76066010-76066029 MS.gene060476:intron 30.0%
! GATAAAGGTTATTGTTGCTT+TGG + chr8.1:76065516-76065535 MS.gene060476:CDS 30.0%
!! TTCAGCTAGTTTCTAGATTT+TGG + chr8.1:76066310-76066329 MS.gene060476:intron 30.0%
!! TTGTTGCTTTGGAAAATCTT+AGG + chr8.1:76065527-76065546 MS.gene060476:CDS 30.0%
!!! ACTCAATTTTCAAGTTCACA+TGG - chr8.1:76065474-76065493 None:intergenic 30.0%
!!! CTCAATTTTCAAGTTCACAT+GGG - chr8.1:76065473-76065492 None:intergenic 30.0%
ACCCTTTGAACATATGAAGA+GGG - chr8.1:76064842-76064861 None:intergenic 35.0%
AGCTAATGCTATGAGTATGA+GGG + chr8.1:76065886-76065905 MS.gene060476:intron 35.0%
AGCTCATAGATTAACTAAGG+TGG + chr8.1:76066280-76066299 MS.gene060476:intron 35.0%
ATATCATCACCACCTAGTTA+TGG + chr8.1:76065361-76065380 MS.gene060476:CDS 35.0%
ATCACCTTGTGAAGAAAATG+AGG + chr8.1:76065393-76065412 MS.gene060476:CDS 35.0%
ATGATCATCTCAGTGTTCTT+AGG + chr8.1:76064807-76064826 MS.gene060476:CDS 35.0%
ATTGAAGAAGACTGTAAGCT+AGG + chr8.1:76066536-76066555 MS.gene060476:CDS 35.0%
ATTGAGTGCAAAAAAAAGGC+TGG + chr8.1:76065487-76065506 MS.gene060476:CDS 35.0%
CAATTGCTTGAATCTCTTGA+AGG + chr8.1:76065301-76065320 MS.gene060476:CDS 35.0%
CACTGAGATGATCATTCATT+TGG - chr8.1:76064802-76064821 None:intergenic 35.0%
GATAAACAATGTTGGAACCA+AGG - chr8.1:76065757-76065776 None:intergenic 35.0%
TAAATGTGGTCAACTCACTA+TGG + chr8.1:76065676-76065695 MS.gene060476:intron 35.0%
TACCCTTTGAACATATGAAG+AGG - chr8.1:76064843-76064862 None:intergenic 35.0%
TTGTGAAGAAAATGAGGTGA+AGG + chr8.1:76065399-76065418 MS.gene060476:CDS 35.0%
! AAAGGCTGGTCAATTGATAA+AGG + chr8.1:76065501-76065520 MS.gene060476:CDS 35.0%
! ATAACTAGGTGGTGATGATA+TGG - chr8.1:76065362-76065381 None:intergenic 35.0%
! ATATTGCTGTTGAACGCAAT+AGG + chr8.1:76064771-76064790 MS.gene060476:CDS 35.0%
! TAACTAGGTGGTGATGATAT+GGG - chr8.1:76065361-76065380 None:intergenic 35.0%
! TTCACCTCATTTTCTTCACA+AGG - chr8.1:76065400-76065419 None:intergenic 35.0%
! TTTGTATACAAGGGCTTGTT+TGG + chr8.1:76064971-76064990 MS.gene060476:intron 35.0%
AAGAGTTGAGTTTGTCCACA+AGG + chr8.1:76065853-76065872 MS.gene060476:intron 40.0%
ACTCTACTCCTTCAATCTCA+AGG + chr8.1:76065594-76065613 MS.gene060476:CDS 40.0%
CTCCTCCAATTATTGATGCT+TGG - chr8.1:76065255-76065274 None:intergenic 40.0%
GACCAAGCATCAATAATTGG+AGG + chr8.1:76065250-76065269 MS.gene060476:CDS 40.0%
GAGCTAATGCTATGAGTATG+AGG + chr8.1:76065885-76065904 MS.gene060476:intron 40.0%
GCCCTCTTCATATGTTCAAA+GGG + chr8.1:76064838-76064857 MS.gene060476:CDS 40.0%
GGCAGCTCATAGATTAACTA+AGG + chr8.1:76066277-76066296 MS.gene060476:intron 40.0%
GGTGACCAAGCATCAATAAT+TGG + chr8.1:76065247-76065266 MS.gene060476:CDS 40.0%
TATGAGGAGACAAGCAAATG+AGG + chr8.1:76066256-76066275 MS.gene060476:intron 40.0%
TGCCCTCTTCATATGTTCAA+AGG + chr8.1:76064837-76064856 MS.gene060476:CDS 40.0%
TTTGTCCACAAGGTAAAAGC+TGG + chr8.1:76065863-76065882 MS.gene060476:intron 40.0%
! CTTGCTATCTAAGCAAAACC+TGG + chr8.1:76065728-76065747 MS.gene060476:intron 40.0%
TAAGCAAAACCTGGCTTCCT+TGG + chr8.1:76065737-76065756 MS.gene060476:intron 45.0%
! TAGCTCCAGCTTTTACCTTG+TGG - chr8.1:76065871-76065890 None:intergenic 45.0%
!! TTAAACTAAAATAATTTAAT+CGG + chr8.1:76066114-76066133 MS.gene060476:intron 5.0%
!!! AAATTTACTAATTTTAAATA+TGG - chr8.1:76065819-76065838 None:intergenic 5.0%
!!! TTATTTTATTTTTTTAAATG+TGG + chr8.1:76065662-76065681 MS.gene060476:intron 5.0%
ATGTTGGAACCAAGGAAGCC+AGG - chr8.1:76065749-76065768 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 76064764 76066622 76064764 ID=MS.gene060476
chr8.1 mRNA 76064764 76066622 76064764 ID=MS.gene060476.t1;Parent=MS.gene060476
chr8.1 exon 76064764 76064859 76064764 ID=MS.gene060476.t1.exon1;Parent=MS.gene060476.t1
chr8.1 CDS 76064764 76064859 76064764 ID=cds.MS.gene060476.t1;Parent=MS.gene060476.t1
chr8.1 exon 76065247 76065615 76065247 ID=MS.gene060476.t1.exon2;Parent=MS.gene060476.t1
chr8.1 CDS 76065247 76065615 76065247 ID=cds.MS.gene060476.t1;Parent=MS.gene060476.t1
chr8.1 exon 76066536 76066622 76066536 ID=MS.gene060476.t1.exon3;Parent=MS.gene060476.t1
chr8.1 CDS 76066536 76066622 76066536 ID=cds.MS.gene060476.t1;Parent=MS.gene060476.t1
Gene Sequence

>MS.gene060476

ATGACACATATTGCTGTTGAACGCAATAGGAGACGCCAAATGAATGATCATCTCAGTGTTCTTAGGTCTCTTATGCCCTCTTCATATGTTCAAAGGGTATGCACTTTTTAATCATTCTTTATGAAATTTGATGTCTAATTCTTATACCCTTTTGTTCAAAATCCTTTCTTTTGAGATTTTCATGTTAAAAATCCAATCTTTTTTGGTTTTGTATACAAGGGCTTGTTTGGATTTTCTTTGAGTTTGACATAATCACATTATGTTAATGATATTTTAGTAAAAATTAATTTTTTAGCTTCAATAAAATGTTACCTAGTGATTTTTTCAATTTGTTTTTGTGTTAATTTTGTCAAACTCATTTTGTTAAATTTAAACTCTATTTAAATATACACTAAATTTTTTGTTTTTTTATTTATTTTTTTATGTTTTAAAAATCACTTAGGTAAAGATTTTTTTTTTTGTTTTGATTTGTTTATGCGATAGGGTGACCAAGCATCAATAATTGGAGGAGCAATTGATTTTGTGAAAGAGTTGGAACAATTGCTTGAATCTCTTGAAGGACAAAAAAGGGTAAAAAAGAATGAAGATTTTGGGCCCATATCATCACCACCTAGTTATGGAATGAAATTATCACCTTGTGAAGAAAATGAGGTGAAGGCAGAAAACAAATCAGAAGCAGCAGATATAAAAGTAACATTGATTCAAACCCATGTGAACTTGAAAATTGAGTGCAAAAAAAAGGCTGGTCAATTGATAAAGGTTATTGTTGCTTTGGAAAATCTTAGGCTAACTATTCTTCACCTAAACATCACATCTTTTGAGTCTTCTGTACTCTACTCCTTCAATCTCAAGGTATTATTCTGTCTTTTCACCATCATAGTGTTTTCTTTTAAATTTTTTATTTTATTTTTTTAAATGTGGTCAACTCACTATGGTATCAAGTCAGAGTACTGTTCTTTTCTGACTTGCTATCTAAGCAAAACCTGGCTTCCTTGGTTCCAACATTGTTTATCATTATAAAATTAAATAAAATGCATTTTGATAAATTATTACCATATTTAAAATTAGTAAATTTATATATATGTTAAGAAGAGTTGAGTTTGTCCACAAGGTAAAAGCTGGAGCTAATGCTATGAGTATGAGGGCACAGAGTTCAAATTTTCTTAAAAACTAATATTAAATAGTTTTTAATGTTACTTTAATTAATAGCCACTTCTTATTTCTCTAATCTTGTTTCTAGAACACATAGAACACACTATTTGAAAGGGGAACTATGATCATTGTTGCAAGTTTTATTTGCTCACAACACTTGATAAAAAAATATTTAGCCATACACATAAATGAAAAAAATTAAACTAAAATAATTTAATCGGATCATTTAATTATTTGAACTATTTATTCATCTGCACATCAAGATATTACATAATTATGACAATTATTATAATTGTAAAATTATCTTTAAACTATATTATGTCAACTCTAATGTTGAGTTTATGAGGAGACAAGCAAATGAGGCAGCTCATAGATTAACTAAGGTGGTCACATCTTCAGCTAGTTTCTAGATTTTGGTAGAAATATCATATTGTATTAAACACATTTTAAGTAATGAAATGATACAAGCTTCTTTCTTTAAAAAAACTTTTTATAATTTTTTTATTAGTTGTTTTTGACAAATTTTCTAAATTTTTTATTAGTACTATTTATTATCATTTGATAAATAAATAACGAGCTGTATATAAATAAATAACGAGCTGTATATATGGGTGATACAGATTGAAGAAGACTGTAAGCTAGGCACAGCAAATGACATAGCAGAAGCAGTTCATCAAATATTCAGCTACATCAATAATGGTAGCTAA

Protein sequence

>MS.gene060476.t1

MTHIAVERNRRRQMNDHLSVLRSLMPSSYVQRGDQASIIGGAIDFVKELEQLLESLEGQKRVKKNEDFGPISSPPSYGMKLSPCEENEVKAENKSEAADIKVTLIQTHVNLKIECKKKAGQLIKVIVALENLRLTILHLNITSFESSVLYSFNLKIEEDCKLGTANDIAEAVHQIFSYINNGS