AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58659

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58659.t1 MTR_2g438010 87.745 204 25 0 1 204 220 423 4.71e-128 367
MS.gene58659.t1 MTR_2g076320 90.196 204 20 0 1 204 200 403 5.31e-128 366
MS.gene58659.t1 MTR_2g437990 85.784 204 29 0 1 204 199 402 6.38e-125 359
MS.gene58659.t1 MTR_2g437940 82.353 204 36 0 1 204 171 374 1.27e-117 339
MS.gene58659.t1 MTR_2g437960 72.414 203 56 0 1 203 203 405 2.15e-104 306
MS.gene58659.t1 MTR_2g437960 72.637 201 55 0 1 201 203 403 5.09e-103 304
MS.gene58659.t1 MTR_2g437120 73.980 196 50 1 1 196 201 395 1.94e-97 289
MS.gene58659.t1 MTR_2g437170 70.588 204 58 1 1 202 207 410 4.00e-97 288
MS.gene58659.t1 MTR_2g438020 72.362 199 54 1 3 201 256 453 6.60e-96 288
MS.gene58659.t1 MTR_2g437240 70.936 203 59 0 1 203 215 417 1.01e-95 285
MS.gene58659.t1 MTR_2g437130 67.500 200 65 0 1 200 188 387 2.19e-93 278
MS.gene58659.t1 MTR_2g437200 74.457 184 47 0 1 184 215 398 2.43e-93 278
MS.gene58659.t1 MTR_2g437150 68.844 199 62 0 1 199 207 405 2.57e-93 278
MS.gene58659.t1 MTR_2g437160 67.513 197 64 0 1 197 212 408 4.14e-91 273
MS.gene58659.t1 MTR_2g437180 69.347 199 59 1 1 199 199 395 9.88e-91 271
MS.gene58659.t1 MTR_2g437160 66.146 192 65 0 6 197 126 317 4.01e-86 257
MS.gene58659.t1 MTR_2g437100 70.652 184 54 0 1 184 212 395 9.09e-85 256
MS.gene58659.t1 MTR_2g437060 55.208 192 86 0 1 192 202 393 6.51e-72 223
MS.gene58659.t1 MTR_2g436400 53.723 188 87 0 1 188 194 381 6.08e-68 213
MS.gene58659.t1 MTR_2g437080 51.020 196 96 0 1 196 187 382 1.32e-67 212
MS.gene58659.t1 MTR_2g437020 55.155 194 84 2 1 192 186 378 1.87e-67 211
MS.gene58659.t1 MTR_4g119550 51.042 192 94 0 1 192 197 388 1.24e-66 209
MS.gene58659.t1 MTR_2g436440 53.646 192 89 0 1 192 193 384 1.40e-66 209
MS.gene58659.t1 MTR_2g437030 50.510 196 97 0 1 196 273 468 7.05e-66 210
MS.gene58659.t1 MTR_2g437040 51.020 196 96 0 1 196 187 382 1.10e-64 204
MS.gene58659.t1 MTR_2g437090 50.292 171 85 0 27 197 1 171 1.06e-57 179
MS.gene58659.t1 MTR_2g436460 51.613 186 89 1 1 185 192 377 2.85e-56 182
MS.gene58659.t1 MTR_4g120380 47.802 182 95 0 1 182 189 370 5.68e-56 181
MS.gene58659.t1 MTR_2g437260 45.550 191 102 2 1 189 181 371 4.09e-54 177
MS.gene58659.t1 MTR_4g120380 49.383 162 82 0 1 162 189 350 5.96e-51 170
MS.gene58659.t1 MTR_4g120380 33.742 163 86 5 5 150 260 417 1.04e-18 83.6
MS.gene58659.t1 MTR_4g119580 46.409 181 97 0 1 181 189 369 1.02e-49 166
MS.gene58659.t1 MTR_2g019840 44.385 187 100 3 5 189 192 376 1.03e-43 150
MS.gene58659.t1 MTR_2g019810 44.624 186 99 3 1 184 176 359 6.06e-42 145
MS.gene58659.t1 MTR_4g119570 39.444 180 76 1 1 180 81 227 1.63e-36 127
MS.gene58659.t1 MTR_3g085240 55.556 90 23 1 86 175 176 248 2.46e-23 94.0
MS.gene58659.t1 MTR_3g450500 30.556 180 123 2 4 181 190 369 2.37e-21 90.5
MS.gene58659.t1 MTR_4g007490 30.000 180 122 3 5 181 189 367 5.59e-18 81.3
MS.gene58659.t1 MTR_8g081000 27.273 176 125 2 31 204 234 408 3.18e-17 79.3
MS.gene58659.t1 MTR_8g081000 27.815 151 109 0 31 181 234 384 5.33e-17 78.6
MS.gene58659.t1 MTR_8g081000 27.815 151 109 0 31 181 234 384 5.66e-17 78.6
MS.gene58659.t1 MTR_2g436380 51.667 60 29 0 27 86 1 60 1.55e-16 76.3
MS.gene58659.t1 MTR_8g080990 26.705 176 127 1 5 178 193 368 1.74e-15 74.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58659.t1 AT5G07900 33.696 184 119 3 1 181 216 399 7.37e-29 111
MS.gene58659.t1 AT5G64950 32.275 189 111 4 5 181 192 375 5.77e-20 87.0
MS.gene58659.t1 AT1G21150 29.444 180 124 2 3 179 169 348 8.13e-18 80.5
MS.gene58659.t1 AT1G21150 32.432 148 98 1 3 148 205 352 8.32e-18 80.9
MS.gene58659.t1 AT1G21150 32.432 148 98 1 3 148 269 416 1.37e-17 80.5
MS.gene58659.t1 AT1G61990 28.922 204 106 4 16 181 206 408 8.52e-16 75.1
MS.gene58659.t1 AT1G61990 28.922 204 106 4 16 181 206 408 8.52e-16 75.1
MS.gene58659.t1 AT1G61980 29.508 183 93 3 21 167 217 399 2.03e-15 74.3
MS.gene58659.t1 AT1G61980 29.508 183 93 3 21 167 217 399 2.03e-15 74.3
MS.gene58659.t1 AT1G61980 29.508 183 93 3 21 167 217 399 2.03e-15 74.3
MS.gene58659.t1 AT1G61970 25.683 183 100 4 21 167 217 399 1.36e-11 63.2
MS.gene58659.t1 AT1G61970 25.683 183 100 4 21 167 217 399 1.36e-11 63.2
MS.gene58659.t1 AT1G61970 25.683 183 100 4 21 167 217 399 1.36e-11 63.2
MS.gene58659.t1 AT1G61970 25.683 183 100 4 21 167 217 399 1.36e-11 63.2
MS.gene58659.t1 AT1G61970 25.683 183 100 4 21 167 217 399 1.36e-11 63.2
MS.gene58659.t1 AT1G61970 25.683 183 100 4 21 167 217 399 1.36e-11 63.2
MS.gene58659.t1 AT1G61970 25.683 183 100 4 21 167 217 399 1.36e-11 63.2

Find 41 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAATTTGATGGTTGATTT+TGG 0.116384 2.3:-53676317 None:intergenic
CGAACAAGGCCATCTATATT+TGG 0.170334 2.3:-53676263 MS.gene58659:CDS
GACCCTTCAACGACCGCTTT+TGG 0.242026 2.3:-53676191 MS.gene58659:CDS
AAGATGTTATTCGAGTATTT+AGG 0.310453 2.3:-53676082 MS.gene58659:CDS
AACTGATTTGATTAAGTCAT+TGG 0.334181 2.3:-53676237 MS.gene58659:CDS
TTGGAGGAAGTTAAGGGCTT+AGG 0.351722 2.3:-53676218 MS.gene58659:CDS
TAAGTCATTGGAGGAAGTTA+AGG 0.400812 2.3:-53676225 MS.gene58659:CDS
AAGTTGACGTCTTTATCAAA+TGG 0.402844 2.3:-53676118 MS.gene58659:CDS
AATGGATGAGTAACATACTT+TGG 0.408464 2.3:-53676148 MS.gene58659:CDS
TTGGGTTAATCAAATGGGTT+GGG 0.412996 2.3:-53676003 MS.gene58659:CDS
TGGAGGAAGTTAAGGGCTTA+GGG 0.415402 2.3:-53676217 MS.gene58659:CDS
AGTTGACGTCTTTATCAAAT+GGG 0.424416 2.3:-53676117 MS.gene58659:CDS
AATTGCAAAACTGAGGCTCT+TGG 0.425012 2.3:+53675918 None:intergenic
GTCCCAAAAGCGGTCGTTGA+AGG 0.427635 2.3:+53676188 None:intergenic
AGATCAATACATTACACATT+TGG 0.428401 2.3:+53675713 None:intergenic
TCAGTTGAACCAAATATAGA+TGG 0.441181 2.3:+53676254 None:intergenic
AAGTCATTGGAGGAAGTTAA+GGG 0.446904 2.3:-53676224 MS.gene58659:CDS
ATGGATGAGTAACATACTTT+GGG 0.450437 2.3:-53676147 MS.gene58659:CDS
TTTGGGTTAATCAAATGGGT+TGG 0.473047 2.3:-53676004 MS.gene58659:CDS
TCAAATGGGTTGGGATCCCT+TGG 0.473886 2.3:-53675994 MS.gene58659:CDS
TATGTTACTCATCCATTGCT+TGG 0.480966 2.3:+53676154 None:intergenic
TCAATACATTACACATTTGG+TGG 0.494508 2.3:+53675716 None:intergenic
AAACTAAAAGAAAACATAAG+TGG 0.504288 2.3:+53675957 None:intergenic
GAAAGGTTTGCGAAAGAAGA+AGG 0.527252 2.3:-53675886 MS.gene58659:CDS
ATATCCTCAGAATAAGCAAA+TGG 0.530372 2.3:+53675849 None:intergenic
TACATTACACATTTGGTGGA+TGG 0.530490 2.3:+53675720 None:intergenic
TGATTTGATTAAGTCATTGG+AGG 0.558497 2.3:-53676234 MS.gene58659:CDS
TTGCTAGATTGCTTCGAACA+AGG 0.560619 2.3:-53676277 MS.gene58659:CDS
TGGAGAATTAATAAGTGCCA+AGG 0.561400 2.3:+53675977 None:intergenic
TTTCAGCTTTAAGGAGGAGT+CGG 0.563069 2.3:-53675808 MS.gene58659:CDS
ACGTCTTTATCAAATGGGGT+TGG 0.563703 2.3:-53676112 MS.gene58659:CDS
TCCCAAAAGCGGTCGTTGAA+GGG 0.570224 2.3:+53676189 None:intergenic
TAGACCATTTGCTTATTCTG+AGG 0.571730 2.3:-53675853 MS.gene58659:CDS
ATTGACGTCAACATCAAACT+AGG 0.584788 2.3:+53676053 None:intergenic
CTGCTTTGGTGACCAAGCAA+TGG 0.599773 2.3:-53676166 MS.gene58659:CDS
GTTGACGTCTTTATCAAATG+GGG 0.617322 2.3:-53676116 MS.gene58659:CDS
CAAAAGAAATTGCAAAACTG+AGG 0.625549 2.3:+53675911 None:intergenic
GGAGAATTAATAAGTGCCAA+GGG 0.628472 2.3:+53675978 None:intergenic
TGTTCGAAGCAATCTAGCAA+TGG 0.646698 2.3:+53676280 None:intergenic
AATGAAACTTGCAAATACAA+CGG 0.655557 2.3:-53675757 MS.gene58659:CDS
CACCAAAGCAGTCCCAAAAG+CGG 0.659565 2.3:+53676178 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTCTTTTAGTTTATCTAAA+AGG - chr2.3:53676077-53676096 MS.gene58659:CDS 15.0%
!! AAACTAAAAGAAAACATAAG+TGG + chr2.3:53676070-53676089 None:intergenic 20.0%
! AAGATGTTATTCGAGTATTT+AGG - chr2.3:53675942-53675961 MS.gene58659:CDS 25.0%
! AATGAAACTTGCAAATACAA+CGG - chr2.3:53676267-53676286 MS.gene58659:CDS 25.0%
!! TTGCAATTTCTTTTGATGAA+AGG - chr2.3:53676121-53676140 MS.gene58659:CDS 25.0%
!!! AACTGATTTGATTAAGTCAT+TGG - chr2.3:53675787-53675806 MS.gene58659:CDS 25.0%
!!! AGTTTTTGGGTTAATCAAAT+GGG - chr2.3:53676016-53676035 MS.gene58659:CDS 25.0%
!!! TAATCTGTTGATGAGTTTTT+GGG - chr2.3:53676003-53676022 MS.gene58659:CDS 25.0%
!!! TTAATCTGTTGATGAGTTTT+TGG - chr2.3:53676002-53676021 MS.gene58659:CDS 25.0%
AAGTTGACGTCTTTATCAAA+TGG - chr2.3:53675906-53675925 MS.gene58659:CDS 30.0%
AATGGATGAGTAACATACTT+TGG - chr2.3:53675876-53675895 MS.gene58659:CDS 30.0%
AGTTGACGTCTTTATCAAAT+GGG - chr2.3:53675907-53675926 MS.gene58659:CDS 30.0%
ATATCCTCAGAATAAGCAAA+TGG + chr2.3:53676178-53676197 None:intergenic 30.0%
ATGGATGAGTAACATACTTT+GGG - chr2.3:53675877-53675896 MS.gene58659:CDS 30.0%
CAAAAGAAATTGCAAAACTG+AGG + chr2.3:53676116-53676135 None:intergenic 30.0%
TCAATACATTACACATTTGG+TGG + chr2.3:53676311-53676330 None:intergenic 30.0%
TCAGTTGAACCAAATATAGA+TGG + chr2.3:53675773-53675792 None:intergenic 30.0%
TGATTTGATTAAGTCATTGG+AGG - chr2.3:53675790-53675809 MS.gene58659:CDS 30.0%
!!! GAGTTTTTGGGTTAATCAAA+TGG - chr2.3:53676015-53676034 MS.gene58659:CDS 30.0%
AAGTCATTGGAGGAAGTTAA+GGG - chr2.3:53675800-53675819 MS.gene58659:CDS 35.0%
ATTGACGTCAACATCAAACT+AGG + chr2.3:53675974-53675993 None:intergenic 35.0%
GGAGAATTAATAAGTGCCAA+GGG + chr2.3:53676049-53676068 None:intergenic 35.0%
GTTGACGTCTTTATCAAATG+GGG - chr2.3:53675908-53675927 MS.gene58659:CDS 35.0%
TAAGTCATTGGAGGAAGTTA+AGG - chr2.3:53675799-53675818 MS.gene58659:CDS 35.0%
TAGACCATTTGCTTATTCTG+AGG - chr2.3:53676171-53676190 MS.gene58659:CDS 35.0%
TATGTTACTCATCCATTGCT+TGG + chr2.3:53675873-53675892 None:intergenic 35.0%
TGGAGAATTAATAAGTGCCA+AGG + chr2.3:53676050-53676069 None:intergenic 35.0%
! CAAGTGTGTTTTCAGCTTTA+AGG - chr2.3:53676207-53676226 MS.gene58659:CDS 35.0%
! TACATTACACATTTGGTGGA+TGG + chr2.3:53676307-53676326 None:intergenic 35.0%
! TTGGGTTAATCAAATGGGTT+GGG - chr2.3:53676021-53676040 MS.gene58659:CDS 35.0%
! TTTGGGTTAATCAAATGGGT+TGG - chr2.3:53676020-53676039 MS.gene58659:CDS 35.0%
AATTGCAAAACTGAGGCTCT+TGG + chr2.3:53676109-53676128 None:intergenic 40.0%
ACGTCTTTATCAAATGGGGT+TGG - chr2.3:53675912-53675931 MS.gene58659:CDS 40.0%
CGAACAAGGCCATCTATATT+TGG - chr2.3:53675761-53675780 MS.gene58659:CDS 40.0%
GAAAGGTTTGCGAAAGAAGA+AGG - chr2.3:53676138-53676157 MS.gene58659:CDS 40.0%
TGTTCGAAGCAATCTAGCAA+TGG + chr2.3:53675747-53675766 None:intergenic 40.0%
TTGCTAGATTGCTTCGAACA+AGG - chr2.3:53675747-53675766 MS.gene58659:CDS 40.0%
!! TTTCAGCTTTAAGGAGGAGT+CGG - chr2.3:53676216-53676235 MS.gene58659:CDS 40.0%
!!! GTGTGTTTTCAGCTTTAAGG+AGG - chr2.3:53676210-53676229 MS.gene58659:CDS 40.0%
TGGAGGAAGTTAAGGGCTTA+GGG - chr2.3:53675807-53675826 MS.gene58659:CDS 45.0%
TTGGAGGAAGTTAAGGGCTT+AGG - chr2.3:53675806-53675825 MS.gene58659:CDS 45.0%
CACCAAAGCAGTCCCAAAAG+CGG + chr2.3:53675849-53675868 None:intergenic 50.0%
TCCCAAAAGCGGTCGTTGAA+GGG + chr2.3:53675838-53675857 None:intergenic 50.0%
! CTGCTTTGGTGACCAAGCAA+TGG - chr2.3:53675858-53675877 MS.gene58659:CDS 50.0%
!! ACCCTTCAACGACCGCTTTT+GGG - chr2.3:53675834-53675853 MS.gene58659:CDS 50.0%
!! TCAAATGGGTTGGGATCCCT+TGG - chr2.3:53676030-53676049 MS.gene58659:CDS 50.0%
GTCCCAAAAGCGGTCGTTGA+AGG + chr2.3:53675839-53675858 None:intergenic 55.0%
! GACCCTTCAACGACCGCTTT+TGG - chr2.3:53675833-53675852 MS.gene58659:CDS 55.0%
!!! GACCGCTTTTGGGACTGCTT+TGG - chr2.3:53675844-53675863 MS.gene58659:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 53675716 53676330 53675716 ID=MS.gene58659
chr2.3 mRNA 53675716 53676330 53675716 ID=MS.gene58659.t1;Parent=MS.gene58659
chr2.3 exon 53675716 53676330 53675716 ID=MS.gene58659.t1.exon1;Parent=MS.gene58659.t1
chr2.3 CDS 53675716 53676330 53675716 ID=cds.MS.gene58659.t1;Parent=MS.gene58659.t1
Gene Sequence

>MS.gene58659

ATGGTTGATTTTGGAGTTTCTGATTCTACCATTGCTAGATTGCTTCGAACAAGGCCATCTATATTTGGTTCAACTGATTTGATTAAGTCATTGGAGGAAGTTAAGGGCTTAGGGTTTGACCCTTCAACGACCGCTTTTGGGACTGCTTTGGTGACCAAGCAATGGATGAGTAACATACTTTGGGATAAGAAAGTTGACGTCTTTATCAAATGGGGTTGGTCTGATGAAGATGTTATTCGAGTATTTAGGAGTCAGCCTAGTTTGATGTTGACGTCAATTGATAAAATTAATCTGTTGATGAGTTTTTGGGTTAATCAAATGGGTTGGGATCCCTTGGCACTTATTAATTCTCCACTTATGTTTTCTTTTAGTTTATCTAAAAGGATCATTCCAAGAGCCTCAGTTTTGCAATTTCTTTTGATGAAAGGTTTGCGAAAGAAGAAGGCGAGCTTAGTTAGACCATTTGCTTATTCTGAGGATATGTTCTTGAACAAGTGTGTTTTCAGCTTTAAGGAGGAGTCGGATTCTCTGTTGAAGCTATATGACGAAAAAATGAAACTTGCAAATACAACGGAGAACAATGTGATGCCATCCACCAAATGTGTAATGTATTGA
Protein sequence

>MS.gene58659.t1

MVDFGVSDSTIARLLRTRPSIFGSTDLIKSLEEVKGLGFDPSTTAFGTALVTKQWMSNILWDKKVDVFIKWGWSDEDVIRVFRSQPSLMLTSIDKINLLMSFWVNQMGWDPLALINSPLMFSFSLSKRIIPRASVLQFLLMKGLRKKKASLVRPFAYSEDMFLNKCVFSFKEESDSLLKLYDEKMKLANTTENNVMPSTKCVMY