AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene004620

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene004620.t1 MTR_2g437170 78.680 197 40 1 1 195 207 403 7.23e-106 310
MS.gene004620.t1 MTR_2g438020 78.392 199 40 2 1 197 254 451 4.01e-105 311
MS.gene004620.t1 MTR_2g437150 76.382 199 45 1 1 197 207 405 6.38e-105 307
MS.gene004620.t1 MTR_2g437240 79.592 196 38 1 1 194 215 410 3.37e-103 303
MS.gene004620.t1 MTR_2g437180 76.142 197 47 0 1 197 199 395 4.90e-103 302
MS.gene004620.t1 MTR_2g437940 76.382 199 45 1 1 197 171 369 2.82e-101 297
MS.gene004620.t1 MTR_2g437960 76.142 197 45 1 1 195 203 399 6.61e-101 297
MS.gene004620.t1 MTR_2g437960 76.142 197 45 1 1 195 203 399 1.30e-100 297
MS.gene004620.t1 MTR_2g437120 77.778 198 41 2 1 196 201 397 1.50e-99 294
MS.gene004620.t1 MTR_2g437200 78.261 184 38 1 1 182 215 398 5.46e-97 287
MS.gene004620.t1 MTR_2g437160 70.202 198 57 1 1 196 212 409 2.84e-95 283
MS.gene004620.t1 MTR_2g076320 72.362 199 53 1 1 197 200 398 5.10e-95 282
MS.gene004620.t1 MTR_2g437990 71.859 199 54 1 1 197 199 397 6.06e-95 283
MS.gene004620.t1 MTR_2g437100 78.804 184 37 1 1 182 212 395 8.81e-95 282
MS.gene004620.t1 MTR_2g438010 70.854 199 56 1 1 197 220 418 3.88e-94 281
MS.gene004620.t1 MTR_2g437130 67.839 199 62 1 1 197 188 386 5.62e-91 271
MS.gene004620.t1 MTR_2g437160 71.351 185 51 1 14 196 134 318 3.44e-90 267
MS.gene004620.t1 MTR_2g437060 59.043 188 75 1 5 190 206 393 3.53e-73 226
MS.gene004620.t1 MTR_2g436440 56.771 192 81 1 5 194 197 388 3.46e-70 218
MS.gene004620.t1 MTR_2g437020 59.893 187 72 2 5 188 190 376 2.06e-69 216
MS.gene004620.t1 MTR_2g437080 55.208 192 84 1 5 194 191 382 8.63e-69 214
MS.gene004620.t1 MTR_2g436400 56.522 184 78 1 5 186 198 381 1.26e-66 209
MS.gene004620.t1 MTR_2g437040 55.670 194 80 2 5 194 191 382 6.42e-65 204
MS.gene004620.t1 MTR_2g437030 52.041 196 92 1 1 194 273 468 1.55e-63 203
MS.gene004620.t1 MTR_2g437090 53.801 171 77 1 27 195 1 171 2.24e-61 189
MS.gene004620.t1 MTR_4g119550 51.053 190 91 1 3 190 199 388 6.33e-61 194
MS.gene004620.t1 MTR_2g437260 50.000 190 91 3 1 186 181 370 1.54e-57 186
MS.gene004620.t1 MTR_2g436460 53.261 184 83 2 3 183 194 377 1.28e-53 175
MS.gene004620.t1 MTR_4g120380 49.444 180 89 1 3 180 191 370 1.20e-52 172
MS.gene004620.t1 MTR_4g120380 49.133 173 87 1 3 174 191 363 9.77e-49 164
MS.gene004620.t1 MTR_4g120380 38.462 130 61 3 34 149 292 416 8.32e-18 80.9
MS.gene004620.t1 MTR_4g119580 47.222 180 93 1 3 180 191 370 9.44e-47 157
MS.gene004620.t1 MTR_2g019810 50.877 171 75 4 14 182 196 359 8.30e-41 142
MS.gene004620.t1 MTR_2g019840 45.902 183 91 5 5 182 192 371 1.95e-38 136
MS.gene004620.t1 MTR_4g119570 40.556 180 72 2 3 180 83 229 4.09e-35 124
MS.gene004620.t1 MTR_3g085240 57.778 90 19 2 86 173 176 248 5.31e-23 92.8
MS.gene004620.t1 MTR_3g450500 28.402 169 119 1 1 167 187 355 5.07e-18 81.3
MS.gene004620.t1 MTR_4g007490 31.325 166 110 3 5 167 189 353 6.14e-17 78.2
MS.gene004620.t1 MTR_2g436380 56.667 60 26 0 27 86 1 60 2.17e-16 75.9
MS.gene004620.t1 MTR_8g081000 28.947 152 106 1 31 180 234 385 4.19e-14 70.1
MS.gene004620.t1 MTR_8g081000 28.947 152 106 1 31 180 234 385 4.41e-14 70.1
MS.gene004620.t1 MTR_8g081000 28.947 152 106 1 31 180 234 385 4.92e-14 70.1
MS.gene004620.t1 MTR_8g080990 31.690 142 95 1 37 176 227 368 4.17e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene004620.t1 AT5G07900 34.239 184 116 3 1 179 216 399 9.32e-26 102
MS.gene004620.t1 AT5G64950 32.386 176 103 3 5 169 192 362 5.10e-18 81.3
MS.gene004620.t1 AT1G21150 32.353 170 112 2 3 169 169 338 1.04e-17 80.1
MS.gene004620.t1 AT1G21150 32.353 170 112 2 3 169 205 374 1.27e-17 80.1
MS.gene004620.t1 AT1G21150 32.353 170 112 2 3 169 269 438 1.64e-17 80.1
MS.gene004620.t1 AT1G61990 27.751 209 112 4 1 170 189 397 5.58e-16 75.5
MS.gene004620.t1 AT1G61990 27.751 209 112 4 1 170 189 397 5.58e-16 75.5
MS.gene004620.t1 AT1G61970 24.878 205 115 5 1 167 196 399 7.25e-12 63.5
MS.gene004620.t1 AT1G61970 24.878 205 115 5 1 167 196 399 7.25e-12 63.5
MS.gene004620.t1 AT1G61970 24.878 205 115 5 1 167 196 399 7.25e-12 63.5
MS.gene004620.t1 AT1G61970 24.878 205 115 5 1 167 196 399 7.25e-12 63.5
MS.gene004620.t1 AT1G61970 24.878 205 115 5 1 167 196 399 7.25e-12 63.5
MS.gene004620.t1 AT1G61970 24.878 205 115 5 1 167 196 399 7.25e-12 63.5
MS.gene004620.t1 AT1G61970 24.878 205 115 5 1 167 196 399 7.25e-12 63.5
MS.gene004620.t1 AT1G62010 25.381 197 110 4 16 176 197 392 2.08e-11 62.4

Find 35 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAATTTGATGGCTGATTT+TGG 0.115073 2.2:+51671528 None:intergenic
GCCATCTATATTTGGTTTAA+AGG 0.141804 2.2:+51671590 MS.gene004620:CDS
CAGTCAAGGCCATCTATATT+TGG 0.179813 2.2:+51671582 MS.gene004620:CDS
GATCCTTCGTTGACTACTTT+TGG 0.192467 2.2:+51671654 MS.gene004620:CDS
TTGGAGGAAGTTAAGGGTTT+AGG 0.192505 2.2:+51671627 MS.gene004620:CDS
TGGAGGAAGTTAAGGGTTTA+GGG 0.236533 2.2:+51671628 MS.gene004620:CDS
AAACTATAACAAAACATATT+TGG 0.239296 2.2:-51671888 None:intergenic
AGACCAAACCCATTTCTTAA+AGG 0.298186 2.2:-51671736 None:intergenic
TTTGTTATAGTTTACATAAA+AGG 0.315414 2.2:+51671898 MS.gene004620:CDS
CTTGAGCAAGTTTGTCTTGA+AGG 0.325723 2.2:+51672022 MS.gene004620:CDS
AAAGGATTTGATTAAGTCAT+TGG 0.335353 2.2:+51671608 MS.gene004620:CDS
ATTGAAGCCAACATCAAATT+AGG 0.374513 2.2:-51671792 None:intergenic
ATATCTTCAGAATAAGTAAA+TGG 0.375368 2.2:-51671996 None:intergenic
TAAGTCATTGGAGGAAGTTA+AGG 0.377755 2.2:+51671620 MS.gene004620:CDS
AAGTTGATACCTTTAAGAAA+TGG 0.381314 2.2:+51671727 MS.gene004620:CDS
AGTTGATACCTTTAAGAAAT+GGG 0.401053 2.2:+51671728 MS.gene004620:CDS
TCCTTTAAACCAAATATAGA+TGG 0.404648 2.2:-51671591 None:intergenic
TCAATTAGGTTGGGATTCCT+TGG 0.416390 2.2:+51671851 MS.gene004620:CDS
AATTGCAAAACTGAGGCTCT+TGG 0.425012 2.2:-51671927 None:intergenic
TTGGGTCAATCAATTAGGTT+GGG 0.436055 2.2:+51671842 MS.gene004620:CDS
ATACCTTTAAGAAATGGGTT+TGG 0.440200 2.2:+51671733 MS.gene004620:CDS
AAGTCATTGGAGGAAGTTAA+GGG 0.441441 2.2:+51671621 MS.gene004620:CDS
GAAATCACATATTAAGTGAA+TGG 0.476870 2.2:-51672119 None:intergenic
TTTGGGTCAATCAATTAGGT+TGG 0.477232 2.2:+51671841 MS.gene004620:CDS
GTTGCTTTGGTAGCCAAGAA+AGG 0.483813 2.2:+51671678 MS.gene004620:CDS
ATATCAGCCTAATTTGATGT+TGG 0.524802 2.2:+51671785 MS.gene004620:CDS
TGGAAATTTAGCAAGTGCCA+AGG 0.550727 2.2:-51671868 None:intergenic
TTGCTAGTTTGCTTCAGTCA+AGG 0.555767 2.2:+51671568 MS.gene004620:CDS
GGATTTGATTAAGTCATTGG+AGG 0.561173 2.2:+51671611 MS.gene004620:CDS
GAGCAAGTTTGTCTTGAAGG+AGG 0.590871 2.2:+51672025 MS.gene004620:CDS
CAAAAGAAATTGCAAAACTG+AGG 0.625549 2.2:-51671934 None:intergenic
AATGAAACTTGCATACACAA+AGG 0.663379 2.2:+51672082 MS.gene004620:CDS
CTATCTATTAAAGTTATACG+AGG 0.674399 2.2:+51672055 MS.gene004620:CDS
ACCCCAAAAGTAGTCAACGA+AGG 0.684823 2.2:-51671657 None:intergenic
GCATACACAAAGGAGAACAA+TGG 0.692068 2.2:+51672092 MS.gene004620:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTATAACAAAACATATT+TGG - chr2.2:51671891-51671910 None:intergenic 15.0%
!!! AGGTTTAAGTAAAAAAATTT+TGG + chr2.2:51671698-51671717 MS.gene004620:CDS 15.0%
!!! TTTGTTATAGTTTACATAAA+AGG + chr2.2:51671898-51671917 MS.gene004620:CDS 15.0%
!! ATATCTTCAGAATAAGTAAA+TGG - chr2.2:51671999-51672018 None:intergenic 20.0%
!!! TTTTTTACTTAAACCTTTCT+TGG - chr2.2:51671694-51671713 None:intergenic 20.0%
! AAAGGATTTGATTAAGTCAT+TGG + chr2.2:51671608-51671627 MS.gene004620:CDS 25.0%
! CTATCTATTAAAGTTATACG+AGG + chr2.2:51672055-51672074 MS.gene004620:CDS 25.0%
! TCCTTTAAACCAAATATAGA+TGG - chr2.2:51671594-51671613 None:intergenic 25.0%
!! AGTTGATACCTTTAAGAAAT+GGG + chr2.2:51671728-51671747 MS.gene004620:CDS 25.0%
!! TTGCAATTTCTTTTGATGAA+AGG + chr2.2:51671942-51671961 MS.gene004620:CDS 25.0%
!!! AAGTTGATACCTTTAAGAAA+TGG + chr2.2:51671727-51671746 MS.gene004620:CDS 25.0%
AATGAAACTTGCATACACAA+AGG + chr2.2:51672082-51672101 MS.gene004620:CDS 30.0%
ATATCAGCCTAATTTGATGT+TGG + chr2.2:51671785-51671804 MS.gene004620:CDS 30.0%
ATTGAAGCCAACATCAAATT+AGG - chr2.2:51671795-51671814 None:intergenic 30.0%
CAAAAGAAATTGCAAAACTG+AGG - chr2.2:51671937-51671956 None:intergenic 30.0%
! ATACCTTTAAGAAATGGGTT+TGG + chr2.2:51671733-51671752 MS.gene004620:CDS 30.0%
! GCCATCTATATTTGGTTTAA+AGG + chr2.2:51671590-51671609 MS.gene004620:CDS 30.0%
!!! AGTTTTTGGGTCAATCAATT+AGG + chr2.2:51671837-51671856 MS.gene004620:CDS 30.0%
!!! TAGTTTGCTGATGAGTTTTT+GGG + chr2.2:51671824-51671843 MS.gene004620:CDS 30.0%
!!! TTAGTTTGCTGATGAGTTTT+TGG + chr2.2:51671823-51671842 MS.gene004620:CDS 30.0%
AAGTCATTGGAGGAAGTTAA+GGG + chr2.2:51671621-51671640 MS.gene004620:CDS 35.0%
AGACCAAACCCATTTCTTAA+AGG - chr2.2:51671739-51671758 None:intergenic 35.0%
GGATTTGATTAAGTCATTGG+AGG + chr2.2:51671611-51671630 MS.gene004620:CDS 35.0%
TAAGTCATTGGAGGAAGTTA+AGG + chr2.2:51671620-51671639 MS.gene004620:CDS 35.0%
TTGGGTCAATCAATTAGGTT+GGG + chr2.2:51671842-51671861 MS.gene004620:CDS 35.0%
TTTGGGTCAATCAATTAGGT+TGG + chr2.2:51671841-51671860 MS.gene004620:CDS 35.0%
!! ATCCTTCGTTGACTACTTTT+GGG + chr2.2:51671655-51671674 MS.gene004620:CDS 35.0%
AATTGCAAAACTGAGGCTCT+TGG - chr2.2:51671930-51671949 None:intergenic 40.0%
CAGTCAAGGCCATCTATATT+TGG + chr2.2:51671582-51671601 MS.gene004620:CDS 40.0%
CTTGAGCAAGTTTGTCTTGA+AGG + chr2.2:51672022-51672041 MS.gene004620:CDS 40.0%
GCATACACAAAGGAGAACAA+TGG + chr2.2:51672092-51672111 MS.gene004620:CDS 40.0%
TGGAAATTTAGCAAGTGCCA+AGG - chr2.2:51671871-51671890 None:intergenic 40.0%
TGGAGGAAGTTAAGGGTTTA+GGG + chr2.2:51671628-51671647 MS.gene004620:CDS 40.0%
TTGGAGGAAGTTAAGGGTTT+AGG + chr2.2:51671627-51671646 MS.gene004620:CDS 40.0%
!! GATCCTTCGTTGACTACTTT+TGG + chr2.2:51671654-51671673 MS.gene004620:CDS 40.0%
!! TCAATTAGGTTGGGATTCCT+TGG + chr2.2:51671851-51671870 MS.gene004620:CDS 40.0%
!! TCCTTCGTTGACTACTTTTG+GGG + chr2.2:51671656-51671675 MS.gene004620:CDS 40.0%
!! TTGCTAGTTTGCTTCAGTCA+AGG + chr2.2:51671568-51671587 MS.gene004620:CDS 40.0%
ACCCCAAAAGTAGTCAACGA+AGG - chr2.2:51671660-51671679 None:intergenic 45.0%
GAGCAAGTTTGTCTTGAAGG+AGG + chr2.2:51672025-51672044 MS.gene004620:CDS 45.0%
! GTTGCTTTGGTAGCCAAGAA+AGG + chr2.2:51671678-51671697 MS.gene004620:CDS 45.0%
!!! GACTACTTTTGGGGTTGCTT+TGG + chr2.2:51671665-51671684 MS.gene004620:CDS 45.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 51671537 51672130 51671537 ID=MS.gene004620
chr2.2 mRNA 51671537 51672130 51671537 ID=MS.gene004620.t1;Parent=MS.gene004620
chr2.2 exon 51671537 51672130 51671537 ID=MS.gene004620.t1.exon1;Parent=MS.gene004620.t1
chr2.2 CDS 51671537 51672130 51671537 ID=cds.MS.gene004620.t1;Parent=MS.gene004620.t1
Gene Sequence

>MS.gene004620

ATGGCTGATTTTGGAGTTTCTGATAATGTTATTGCTAGTTTGCTTCAGTCAAGGCCATCTATATTTGGTTTAAAGGATTTGATTAAGTCATTGGAGGAAGTTAAGGGTTTAGGGTTTGATCCTTCGTTGACTACTTTTGGGGTTGCTTTGGTAGCCAAGAAAGGTTTAAGTAAAAAAATTTTGGATGAGAAAGTTGATACCTTTAAGAAATGGGTTTGGTCTGATGAAGATGTAATTCGAGCATTTAGATATCAGCCTAATTTGATGTTGGCTTCAATTGATAAGATTAGTTTGCTGATGAGTTTTTGGGTCAATCAATTAGGTTGGGATTCCTTGGCACTTGCTAAATTTCCAAATATGTTTTGTTATAGTTTACATAAAAGGATCATTCCAAGAGCCTCAGTTTTGCAATTTCTTTTGATGAAAGGTTTGCGAAAAAAGAATGCAAGCTTAGTCACACCATTTACTTATTCTGAAGATATGTTCTTGAGCAAGTTTGTCTTGAAGGAGGAGTCTAACTATCTATTAAAGTTATACGAGGAAAAAATGAAACTTGCATACACAAAGGAGAACAATGGCATGCCATTCACTTAA
Protein sequence

>MS.gene004620.t1

MADFGVSDNVIASLLQSRPSIFGLKDLIKSLEEVKGLGFDPSLTTFGVALVAKKGLSKKILDEKVDTFKKWVWSDEDVIRAFRYQPNLMLASIDKISLLMSFWVNQLGWDSLALAKFPNMFCYSLHKRIIPRASVLQFLLMKGLRKKNASLVTPFTYSEDMFLSKFVLKEESNYLLKLYEEKMKLAYTKENNGMPFT