AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073432

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073432.t1 MTR_2g437940 82.609 207 36 0 3 209 166 372 2.54e-122 351
MS.gene073432.t1 MTR_2g437960 78.947 209 44 0 1 209 196 404 1.87e-117 340
MS.gene073432.t1 MTR_2g437960 79.227 207 43 0 1 207 196 402 2.26e-117 340
MS.gene073432.t1 MTR_2g437990 77.561 205 46 0 3 207 194 398 2.16e-113 330
MS.gene073432.t1 MTR_2g437170 77.451 204 46 0 1 204 200 403 6.86e-113 328
MS.gene073432.t1 MTR_2g437180 76.699 206 46 1 1 206 192 395 1.03e-112 328
MS.gene073432.t1 MTR_2g437150 76.214 206 49 0 1 206 200 405 3.43e-112 327
MS.gene073432.t1 MTR_2g438020 76.812 207 47 1 1 207 247 452 2.88e-110 325
MS.gene073432.t1 MTR_2g437120 79.602 201 40 1 3 203 196 395 9.05e-110 321
MS.gene073432.t1 MTR_2g438010 74.163 209 54 0 1 209 213 421 1.22e-109 321
MS.gene073432.t1 MTR_2g076320 74.163 209 54 0 3 211 195 403 4.11e-109 318
MS.gene073432.t1 MTR_2g437240 74.757 206 52 0 4 209 211 416 3.74e-107 314
MS.gene073432.t1 MTR_2g437160 71.078 204 59 0 1 204 205 408 1.75e-103 305
MS.gene073432.t1 MTR_2g437200 75.916 191 46 0 1 191 208 398 1.26e-101 299
MS.gene073432.t1 MTR_2g437130 67.476 206 67 0 2 207 182 387 1.24e-99 294
MS.gene073432.t1 MTR_2g437100 72.775 191 52 0 1 191 205 395 2.92e-95 283
MS.gene073432.t1 MTR_2g437160 71.739 184 52 0 21 204 134 317 1.10e-93 276
MS.gene073432.t1 MTR_2g437060 60.204 196 78 0 4 199 198 393 1.39e-79 243
MS.gene073432.t1 MTR_2g437080 55.721 201 89 0 1 201 180 380 3.26e-76 234
MS.gene073432.t1 MTR_2g436440 55.721 201 89 0 3 203 188 388 1.17e-75 233
MS.gene073432.t1 MTR_2g437040 55.500 200 89 0 4 203 183 382 9.97e-74 228
MS.gene073432.t1 MTR_2g436400 56.771 192 83 0 4 195 190 381 1.33e-73 227
MS.gene073432.t1 MTR_2g437020 57.286 199 82 2 1 197 179 376 6.86e-72 223
MS.gene073432.t1 MTR_4g119550 52.041 196 94 0 4 199 193 388 3.77e-70 219
MS.gene073432.t1 MTR_2g437030 52.500 200 95 0 4 203 269 468 6.73e-69 218
MS.gene073432.t1 MTR_2g437260 50.000 200 98 2 1 198 174 373 7.19e-64 202
MS.gene073432.t1 MTR_2g437090 53.801 171 79 0 34 204 1 171 1.91e-63 194
MS.gene073432.t1 MTR_2g436460 52.604 192 90 1 2 192 186 377 2.92e-60 193
MS.gene073432.t1 MTR_4g120380 47.849 186 97 0 4 189 185 370 3.67e-56 182
MS.gene073432.t1 MTR_4g119580 46.561 189 101 0 1 189 182 370 1.22e-54 179
MS.gene073432.t1 MTR_4g120380 49.398 166 84 0 4 169 185 350 7.70e-51 170
MS.gene073432.t1 MTR_4g120380 33.918 171 91 5 3 156 251 416 6.31e-19 84.3
MS.gene073432.t1 MTR_2g019810 48.421 190 94 3 4 191 172 359 5.06e-47 159
MS.gene073432.t1 MTR_2g019840 42.857 196 106 4 4 196 184 376 1.01e-42 148
MS.gene073432.t1 MTR_4g119570 38.624 189 83 1 1 189 74 229 1.47e-39 135
MS.gene073432.t1 MTR_3g450500 31.053 190 129 1 2 189 181 370 1.84e-26 104
MS.gene073432.t1 MTR_3g085240 54.444 90 24 1 93 182 176 248 5.07e-24 95.9
MS.gene073432.t1 MTR_4g007490 28.796 191 132 3 2 189 179 368 5.81e-23 95.1
MS.gene073432.t1 MTR_2g436380 55.738 61 27 0 34 94 1 61 6.49e-18 80.1
MS.gene073432.t1 MTR_8g081000 26.316 190 138 1 2 189 196 385 4.54e-17 79.0
MS.gene073432.t1 MTR_8g081000 26.316 190 138 1 2 189 196 385 4.72e-17 79.0
MS.gene073432.t1 MTR_8g081000 26.316 190 138 1 2 189 196 385 6.08e-17 78.6
MS.gene073432.t1 MTR_8g080990 27.419 186 133 1 2 185 183 368 5.34e-15 72.8
MS.gene073432.t1 MTR_2g019830 53.030 66 30 1 131 196 140 204 8.87e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073432.t1 AT5G07900 32.984 191 125 3 1 188 209 399 8.18e-32 119
MS.gene073432.t1 AT1G21150 30.159 189 125 3 5 188 164 350 3.05e-19 84.7
MS.gene073432.t1 AT5G64950 31.122 196 128 3 1 189 181 376 4.27e-19 84.7
MS.gene073432.t1 AT1G21150 30.159 189 125 3 5 188 200 386 4.55e-19 84.7
MS.gene073432.t1 AT1G21150 30.159 189 125 3 5 188 264 450 5.59e-19 84.7
MS.gene073432.t1 AT1G61990 26.549 226 127 4 2 188 183 408 1.03e-17 80.9
MS.gene073432.t1 AT1G61990 26.549 226 127 4 2 188 183 408 1.03e-17 80.9
MS.gene073432.t1 AT1G61980 27.619 210 115 4 2 174 190 399 5.18e-16 76.3
MS.gene073432.t1 AT1G61980 27.619 210 115 4 2 174 190 399 5.18e-16 76.3
MS.gene073432.t1 AT1G61980 27.619 210 115 4 2 174 190 399 5.18e-16 76.3
MS.gene073432.t1 AT1G61970 24.171 211 121 5 2 174 190 399 9.86e-14 69.7
MS.gene073432.t1 AT1G61970 24.171 211 121 5 2 174 190 399 9.86e-14 69.7
MS.gene073432.t1 AT1G61970 24.171 211 121 5 2 174 190 399 9.86e-14 69.7
MS.gene073432.t1 AT1G61970 24.171 211 121 5 2 174 190 399 9.86e-14 69.7
MS.gene073432.t1 AT1G61970 24.171 211 121 5 2 174 190 399 9.86e-14 69.7
MS.gene073432.t1 AT1G61970 24.171 211 121 5 2 174 190 399 9.86e-14 69.7
MS.gene073432.t1 AT1G61970 24.171 211 121 5 2 174 190 399 9.86e-14 69.7
MS.gene073432.t1 AT1G62010 26.540 211 116 5 2 174 174 383 1.31e-12 66.2
MS.gene073432.t1 AT1G62120 25.714 210 119 4 2 174 196 405 4.59e-12 64.7
MS.gene073432.t1 AT1G62150 22.527 182 135 4 4 180 268 448 3.50e-11 62.0

Find 34 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAATTTGATGATTGATTT+TGG 0.116384 2.4:-53818128 MS.gene073432:CDS
CAAACAAGGCCATCTATATT+TGG 0.171090 2.4:-53818074 MS.gene073432:CDS
TTCAATTGATAAGATTAATT+TGG 0.211307 2.4:-53817847 MS.gene073432:CDS
CTCGAGGAAGTTAAGTGTTT+AGG 0.270507 2.4:-53818029 MS.gene073432:CDS
TCGAGGAAGTTAAGTGTTTA+GGG 0.279746 2.4:-53818028 MS.gene073432:CDS
AGACCAACCCCATTTCTTAA+AGG 0.303126 2.4:+53817920 None:intergenic
AAATTGATGCCTTTAAGAAA+TGG 0.366199 2.4:-53817929 MS.gene073432:CDS
TTGGGTTAATCAATTGGGTT+GGG 0.372882 2.4:-53817814 MS.gene073432:CDS
AATTGATGCCTTTAAGAAAT+GGG 0.373623 2.4:-53817928 MS.gene073432:CDS
ACTAAATGTCCACATATGTT+TGG 0.382004 2.4:-53817777 MS.gene073432:CDS
AAGATGTTATTCGAGTCTTT+AGG 0.391869 2.4:-53817893 MS.gene073432:CDS
AGATCAAAATCTTACACGTT+TGG 0.417689 2.4:+53817524 None:intergenic
TCAGTTGAACCAAATATAGA+TGG 0.441181 2.4:+53818065 None:intergenic
AATTGTAAAACTGTTGCCCT+TGG 0.447622 2.4:+53817729 None:intergenic
AGTTTCACCGTTTACTTCTA+CGG 0.454798 2.4:-53817667 MS.gene073432:CDS
TTTGGGTTAATCAATTGGGT+TGG 0.479493 2.4:-53817815 MS.gene073432:CDS
TCAAAATCTTACACGTTTGG+TGG 0.487228 2.4:+53817527 None:intergenic
AAATTCTCCGTAGAAGTAAA+CGG 0.504265 2.4:+53817660 None:intergenic
TTGGTTATAGTTTACATCAA+AGG 0.507419 2.4:-53817758 MS.gene073432:CDS
AATCTTACACGTTTGGTGGA+TGG 0.526508 2.4:+53817531 None:intergenic
AAACTATAACCAAACATATG+TGG 0.543018 2.4:+53817768 None:intergenic
ATTGAAGTCAACATCAAATG+AGG 0.545357 2.4:+53817864 None:intergenic
ATTGTAAAACTGTTGCCCTT+GGG 0.546170 2.4:+53817730 None:intergenic
TTATCTATTAAAGCTATATG+AGG 0.548013 2.4:-53817595 MS.gene073432:CDS
TCAATTGGGTTGGGAGTCCG+TGG 0.556415 2.4:-53817805 MS.gene073432:CDS
ATTGATGCCTTTAAGAAATG+GGG 0.570019 2.4:-53817927 MS.gene073432:CDS
TCGCTAATTTGCTTCAAACA+AGG 0.580422 2.4:-53818088 MS.gene073432:CDS
ATGCCTTTAAGAAATGGGGT+TGG 0.586352 2.4:-53817923 MS.gene073432:CDS
TACATCAAAGGATCATCCCA+AGG 0.601647 2.4:-53817746 MS.gene073432:CDS
TGGACATTTAGTAAGTTCCA+CGG 0.615250 2.4:+53817788 None:intergenic
AATGAAACTTGCAAATACAA+AGG 0.616117 2.4:-53817568 MS.gene073432:CDS
GCAAATACAAAGGAGAACAA+TGG 0.647365 2.4:-53817558 MS.gene073432:CDS
TGATTTGATTAAATCACTCG+AGG 0.661488 2.4:-53818045 MS.gene073432:CDS
ACATCAAAGGATCATCCCAA+GGG 0.689405 2.4:-53817745 MS.gene073432:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCAATTGATAAGATTAATT+TGG - chr2.4:53817820-53817839 MS.gene073432:CDS 15.0%
!! AATGTTTGAGTAAAAAACTT+TGG - chr2.4:53817708-53817727 MS.gene073432:CDS 20.0%
!! ATGTTTGAGTAAAAAACTTT+GGG - chr2.4:53817709-53817728 MS.gene073432:CDS 20.0%
!! TTATCTATTAAAGCTATATG+AGG - chr2.4:53818072-53818091 MS.gene073432:CDS 20.0%
!!! ATCAATTTGATGATTGATTT+TGG - chr2.4:53817539-53817558 MS.gene073432:CDS 20.0%
!!! TTACAATTTCTTTTGATGAA+AGG - chr2.4:53817953-53817972 MS.gene073432:CDS 20.0%
!!! TTTTTTACTCAAACATTTCT+TGG + chr2.4:53817705-53817724 None:intergenic 20.0%
! AAACTATAACCAAACATATG+TGG + chr2.4:53817902-53817921 None:intergenic 25.0%
! AATGAAACTTGCAAATACAA+AGG - chr2.4:53818099-53818118 MS.gene073432:CDS 25.0%
! TTGGTTATAGTTTACATCAA+AGG - chr2.4:53817909-53817928 MS.gene073432:CDS 25.0%
!! AAATTGATGCCTTTAAGAAA+TGG - chr2.4:53817738-53817757 MS.gene073432:CDS 25.0%
!! AATTGATGCCTTTAAGAAAT+GGG - chr2.4:53817739-53817758 MS.gene073432:CDS 25.0%
!!! AGTTTTTGGGTTAATCAATT+GGG - chr2.4:53817848-53817867 MS.gene073432:CDS 25.0%
!!! TAATTTGGTGATGAGTTTTT+GGG - chr2.4:53817835-53817854 MS.gene073432:CDS 25.0%
!!! TTAATTTGGTGATGAGTTTT+TGG - chr2.4:53817834-53817853 MS.gene073432:CDS 25.0%
AAATTCTCCGTAGAAGTAAA+CGG + chr2.4:53818010-53818029 None:intergenic 30.0%
AAGATGTTATTCGAGTCTTT+AGG - chr2.4:53817774-53817793 MS.gene073432:CDS 30.0%
ACTAAATGTCCACATATGTT+TGG - chr2.4:53817890-53817909 MS.gene073432:CDS 30.0%
ATCGCAAAAATAGTCATTGA+AGG + chr2.4:53817671-53817690 None:intergenic 30.0%
ATTGAAGTCAACATCAAATG+AGG + chr2.4:53817806-53817825 None:intergenic 30.0%
TCAGTTGAACCAAATATAGA+TGG + chr2.4:53817605-53817624 None:intergenic 30.0%
TCGCAAAAATAGTCATTGAA+GGG + chr2.4:53817670-53817689 None:intergenic 30.0%
TGATTTGATTAAATCACTCG+AGG - chr2.4:53817622-53817641 MS.gene073432:CDS 30.0%
! ATTGATGCCTTTAAGAAATG+GGG - chr2.4:53817740-53817759 MS.gene073432:CDS 30.0%
!! CAAGTTTGTTTTCAGCTTTA+AGG - chr2.4:53818039-53818058 MS.gene073432:CDS 30.0%
!!! GAGTTTTTGGGTTAATCAAT+TGG - chr2.4:53817847-53817866 MS.gene073432:CDS 30.0%
AATTGTAAAACTGTTGCCCT+TGG + chr2.4:53817941-53817960 None:intergenic 35.0%
AGTTTCACCGTTTACTTCTA+CGG - chr2.4:53818000-53818019 MS.gene073432:CDS 35.0%
ATTGTAAAACTGTTGCCCTT+GGG + chr2.4:53817940-53817959 None:intergenic 35.0%
CAAACAAGGCCATCTATATT+TGG - chr2.4:53817593-53817612 MS.gene073432:CDS 35.0%
GCAAATACAAAGGAGAACAA+TGG - chr2.4:53818109-53818128 MS.gene073432:CDS 35.0%
TCAAAATCTTACACGTTTGG+TGG + chr2.4:53818143-53818162 None:intergenic 35.0%
TCGAGGAAGTTAAGTGTTTA+GGG - chr2.4:53817639-53817658 MS.gene073432:CDS 35.0%
TGGACATTTAGTAAGTTCCA+CGG + chr2.4:53817882-53817901 None:intergenic 35.0%
TTGGGTTAATCAATTGGGTT+GGG - chr2.4:53817853-53817872 MS.gene073432:CDS 35.0%
! TTTGGGTTAATCAATTGGGT+TGG - chr2.4:53817852-53817871 MS.gene073432:CDS 35.0%
!! TCGCTAATTTGCTTCAAACA+AGG - chr2.4:53817579-53817598 MS.gene073432:CDS 35.0%
!!! GACTATTTTTGCGATTGCTT+TGG - chr2.4:53817676-53817695 MS.gene073432:CDS 35.0%
!!! GTTTGTTTTCAGCTTTAAGG+AGG - chr2.4:53818042-53818061 MS.gene073432:CDS 35.0%
ACATCAAAGGATCATCCCAA+GGG - chr2.4:53817922-53817941 MS.gene073432:CDS 40.0%
AGACCAACCCCATTTCTTAA+AGG + chr2.4:53817750-53817769 None:intergenic 40.0%
CTCGAGGAAGTTAAGTGTTT+AGG - chr2.4:53817638-53817657 MS.gene073432:CDS 40.0%
TACATCAAAGGATCATCCCA+AGG - chr2.4:53817921-53817940 MS.gene073432:CDS 40.0%
! AATCTTACACGTTTGGTGGA+TGG + chr2.4:53818139-53818158 None:intergenic 40.0%
! ATGCCTTTAAGAAATGGGGT+TGG - chr2.4:53817744-53817763 MS.gene073432:CDS 40.0%
!! TCAATTGGGTTGGGAGTCCG+TGG - chr2.4:53817862-53817881 MS.gene073432:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 53817527 53818162 53817527 ID=MS.gene073432
chr2.4 mRNA 53817527 53818162 53817527 ID=MS.gene073432.t1;Parent=MS.gene073432
chr2.4 exon 53817527 53818162 53817527 ID=MS.gene073432.t1.exon1;Parent=MS.gene073432.t1
chr2.4 CDS 53817527 53818162 53817527 ID=cds.MS.gene073432.t1;Parent=MS.gene073432.t1
Gene Sequence

>MS.gene073432

ATGGTGGCTAATATCAATTTGATGATTGATTTTGGAGTTTCTGATTCTATCATCGCTAATTTGCTTCAAACAAGGCCATCTATATTTGGTTCAACTGATTTGATTAAATCACTCGAGGAAGTTAAGTGTTTAGGGTTTGACCCTTCAATGACTATTTTTGCGATTGCTTTGGCAGCCAAGAAATGTTTGAGTAAAAAACTTTGGGATGAGAAAATTGATGCCTTTAAGAAATGGGGTTGGTCTGATGAAGATGTTATTCGAGTCTTTAGGTGTCAGCCTCATTTGATGTTGACTTCAATTGATAAGATTAATTTGGTGATGAGTTTTTGGGTTAATCAATTGGGTTGGGAGTCCGTGGAACTTACTAAATGTCCACATATGTTTGGTTATAGTTTACATCAAAGGATCATCCCAAGGGCAACAGTTTTACAATTTCTTTTGATGAAAGGTTTGCGAAAAAAGAATGCAAGCTTAGTTTCACCGTTTACTTCTACGGAGAATTTGTTCTTGAACAAGTTTGTTTTCAGCTTTAAGGAGGAGTCTGATTATCTATTAAAGCTATATGAGGAAAAAATGAAACTTGCAAATACAAAGGAGAACAATGGCATGCCATCCACCAAACGTGTAAGATTTTGA
Protein sequence

>MS.gene073432.t1

MVANINLMIDFGVSDSIIANLLQTRPSIFGSTDLIKSLEEVKCLGFDPSMTIFAIALAAKKCLSKKLWDEKIDAFKKWGWSDEDVIRVFRCQPHLMLTSIDKINLVMSFWVNQLGWESVELTKCPHMFGYSLHQRIIPRATVLQFLLMKGLRKKNASLVSPFTSTENLFLNKFVFSFKEESDYLLKLYEEKMKLANTKENNGMPSTKRVRF