AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46943

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46943.t1 MTR_3g450500 84.286 210 33 0 2 211 166 375 1.93e-127 364
MS.gene46943.t1 MTR_4g007490 74.286 210 54 0 2 211 164 373 6.05e-112 325
MS.gene46943.t1 MTR_2g019810 39.683 189 110 3 19 206 172 357 1.67e-37 134
MS.gene46943.t1 MTR_2g019840 38.220 191 114 3 19 208 184 371 6.16e-37 132
MS.gene46943.t1 MTR_2g437040 36.318 201 123 2 6 206 173 368 8.09e-35 127
MS.gene46943.t1 MTR_2g436460 37.500 192 117 2 15 205 184 373 8.22e-35 127
MS.gene46943.t1 MTR_4g119550 33.500 200 129 2 9 206 181 378 5.51e-34 125
MS.gene46943.t1 MTR_2g437260 33.854 192 127 0 14 205 172 363 1.41e-33 124
MS.gene46943.t1 MTR_2g437240 32.161 199 129 2 8 206 204 396 1.16e-30 116
MS.gene46943.t1 MTR_2g437100 32.308 195 130 1 17 211 206 398 1.17e-30 116
MS.gene46943.t1 MTR_2g436400 32.979 188 124 1 19 206 190 375 2.08e-29 112
MS.gene46943.t1 MTR_4g119580 33.854 192 125 1 19 210 185 374 3.50e-29 112
MS.gene46943.t1 MTR_2g437160 32.195 205 133 2 4 208 197 395 3.53e-29 112
MS.gene46943.t1 MTR_2g437080 34.158 202 118 3 14 208 177 370 4.95e-29 111
MS.gene46943.t1 MTR_2g436440 32.804 189 125 1 18 206 188 374 7.40e-29 111
MS.gene46943.t1 MTR_2g437090 33.117 154 103 0 55 208 5 158 7.46e-28 103
MS.gene46943.t1 MTR_2g438020 31.579 190 128 1 17 206 248 435 1.15e-27 109
MS.gene46943.t1 MTR_4g120380 31.217 189 128 1 19 207 185 371 1.63e-27 107
MS.gene46943.t1 MTR_2g437030 32.663 199 129 3 10 208 263 456 2.03e-27 108
MS.gene46943.t1 MTR_2g437180 31.500 200 130 3 6 205 185 377 4.04e-27 106
MS.gene46943.t1 MTR_2g437150 32.105 190 127 1 17 206 201 388 1.01e-26 105
MS.gene46943.t1 MTR_2g437960 30.159 189 130 1 17 205 197 383 2.09e-26 105
MS.gene46943.t1 MTR_2g437960 30.159 189 130 1 17 205 197 383 2.67e-26 105
MS.gene46943.t1 MTR_2g437200 31.034 203 134 3 5 206 199 396 4.00e-26 103
MS.gene46943.t1 MTR_2g437020 34.104 173 112 2 17 188 180 351 3.05e-25 101
MS.gene46943.t1 MTR_2g437120 31.746 189 126 2 18 206 196 381 3.94e-25 101
MS.gene46943.t1 MTR_2g437160 30.348 201 126 3 20 206 102 302 5.05e-25 100
MS.gene46943.t1 MTR_2g437170 30.526 190 130 1 17 206 201 388 7.64e-25 100
MS.gene46943.t1 MTR_2g437060 32.979 188 124 2 19 206 198 383 7.42e-24 97.8
MS.gene46943.t1 MTR_4g120380 30.952 168 114 1 19 186 185 350 1.54e-23 97.4
MS.gene46943.t1 MTR_2g437940 30.159 189 130 1 18 206 166 352 1.37e-22 94.4
MS.gene46943.t1 MTR_2g437990 29.787 188 130 1 18 205 194 379 2.33e-22 94.0
MS.gene46943.t1 MTR_2g438010 29.101 189 132 2 17 205 214 400 2.46e-22 94.0
MS.gene46943.t1 MTR_2g076320 29.787 188 130 1 18 205 195 380 7.00e-22 92.4
MS.gene46943.t1 MTR_8g080990 29.744 195 137 0 17 211 183 377 3.18e-21 90.5
MS.gene46943.t1 MTR_2g437130 29.534 193 134 1 14 206 179 369 5.51e-21 89.7
MS.gene46943.t1 MTR_8g081000 27.083 192 140 0 17 208 196 387 4.63e-20 87.4
MS.gene46943.t1 MTR_8g081000 27.083 192 140 0 17 208 196 387 5.21e-20 87.4
MS.gene46943.t1 MTR_8g081000 27.083 192 140 0 17 208 196 387 5.52e-20 87.4
MS.gene46943.t1 MTR_4g119570 28.421 190 101 2 19 208 77 231 3.87e-17 77.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46943.t1 AT5G07900 39.614 207 123 2 2 207 196 401 2.27e-53 176
MS.gene46943.t1 AT1G21150 36.232 207 126 4 2 205 147 350 2.12e-36 130
MS.gene46943.t1 AT1G21150 36.232 207 126 4 2 205 183 386 4.01e-36 130
MS.gene46943.t1 AT1G21150 36.232 207 126 4 2 205 247 450 9.39e-36 130
MS.gene46943.t1 AT1G62010 31.111 225 112 5 10 192 161 384 4.31e-25 101
MS.gene46943.t1 AT1G61970 32.407 216 107 5 13 191 186 399 3.43e-23 96.3
MS.gene46943.t1 AT1G61970 32.407 216 107 5 13 191 186 399 3.43e-23 96.3
MS.gene46943.t1 AT1G61970 32.407 216 107 5 13 191 186 399 3.43e-23 96.3
MS.gene46943.t1 AT1G61970 32.407 216 107 5 13 191 186 399 3.43e-23 96.3
MS.gene46943.t1 AT1G61970 32.407 216 107 5 13 191 186 399 3.43e-23 96.3
MS.gene46943.t1 AT1G61970 32.407 216 107 5 13 191 186 399 3.43e-23 96.3
MS.gene46943.t1 AT1G61970 32.407 216 107 5 13 191 186 399 3.43e-23 96.3
MS.gene46943.t1 AT1G61980 31.163 215 111 3 13 191 186 399 5.64e-22 92.8
MS.gene46943.t1 AT1G61980 31.163 215 111 3 13 191 186 399 5.64e-22 92.8
MS.gene46943.t1 AT1G61980 31.163 215 111 3 13 191 186 399 5.64e-22 92.8
MS.gene46943.t1 AT1G62120 32.110 218 109 5 11 191 190 405 3.05e-20 88.2
MS.gene46943.t1 AT1G61990 27.193 228 125 4 14 202 180 405 3.82e-19 85.1
MS.gene46943.t1 AT1G61990 27.193 228 125 4 14 202 180 405 3.82e-19 85.1
MS.gene46943.t1 AT5G23930 28.244 262 115 5 19 209 190 449 1.20e-18 84.0
MS.gene46943.t1 AT1G62150 27.170 265 117 8 11 202 192 453 4.94e-16 76.3
MS.gene46943.t1 AT3G46950 35.862 145 85 4 14 153 183 324 6.14e-16 75.9
MS.gene46943.t1 AT3G46950 26.842 190 135 3 19 205 256 444 1.52e-11 63.2
MS.gene46943.t1 AT1G62085 28.718 195 133 4 18 207 264 457 3.48e-14 70.9
MS.gene46943.t1 AT1G62085 34.615 130 81 3 11 139 189 315 6.88e-12 64.3
MS.gene46943.t1 AT1G62085 28.718 195 133 4 18 207 264 457 3.48e-14 70.9
MS.gene46943.t1 AT1G62085 34.615 130 81 3 11 139 189 315 6.88e-12 64.3
MS.gene46943.t1 AT1G61960 31.452 124 82 1 89 209 332 455 5.96e-14 70.1
MS.gene46943.t1 AT1G61960 38.596 114 67 2 15 127 189 300 2.07e-13 68.6
MS.gene46943.t1 AT1G62110 32.414 145 90 4 14 153 189 330 4.01e-13 67.8
MS.gene46943.t1 AT1G62110 26.974 152 104 3 46 191 289 439 1.24e-11 63.5
MS.gene46943.t1 AT5G64950 25.907 193 138 2 19 206 184 376 9.42e-12 63.5

Find 42 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAAGTACCTTTATTATTA+TGG 0.157841 3.2:-37972163 MS.gene46943:CDS
GAAAGATTTACCATTGTTAT+TGG 0.167427 3.2:-37972100 MS.gene46943:CDS
AACCATTGAATGATAGTTAA+AGG 0.250245 3.2:+37972668 None:intergenic
TATGAAAACAATGAACTTCT+TGG 0.276128 3.2:-37972325 MS.gene46943:CDS
GAACGCTACATTGGGAAAAT+TGG 0.307287 3.2:+37972572 None:intergenic
ATGGTAAATCTTTCTGAAAT+GGG 0.308277 3.2:+37972109 None:intergenic
AATGGTAAATCTTTCTGAAA+TGG 0.311445 3.2:+37972108 None:intergenic
GTCGAGAGATATGTGTCTTT+TGG 0.315308 3.2:-37972394 MS.gene46943:CDS
TTTCTCAGCCATAATAATAA+AGG 0.344392 3.2:+37972155 None:intergenic
CAAAGATGGACAAAGAGAAT+TGG 0.346933 3.2:-37972452 MS.gene46943:CDS
TTGTTATTGGATGCATATAA+AGG 0.358352 3.2:-37972087 MS.gene46943:CDS
ATCTTAATAACTGCACATCT+AGG 0.371337 3.2:+37972222 None:intergenic
GTTAATTCAGTCAAGGAAAT+GGG 0.373577 3.2:-37972522 MS.gene46943:CDS
TCTGAAATCATCATACAATT+CGG 0.401154 3.2:+37972357 None:intergenic
TCAATGTTCCATTTCTCTAC+TGG 0.408911 3.2:-37972598 MS.gene46943:CDS
TGTTAATTCAGTCAAGGAAA+TGG 0.429636 3.2:-37972523 MS.gene46943:CDS
GACCTTTAACTATCATTCAA+TGG 0.434376 3.2:-37972670 MS.gene46943:CDS
ATTGGATACCAGTAGAGAAA+TGG 0.437001 3.2:+37972590 None:intergenic
TGCTTGGCGAACGCTACATT+GGG 0.443987 3.2:+37972564 None:intergenic
CAACTTTGATGCGTGGAACA+TGG 0.454740 3.2:-37972692 None:intergenic
TGCTATTCTGATCCGTAGCT+TGG 0.455085 3.2:-37972259 MS.gene46943:CDS
AAAGATGGACAAAGAGAATT+GGG 0.462885 3.2:-37972451 MS.gene46943:CDS
CTCAACAAATCTAGAATGCT+TGG 0.472071 3.2:+37972548 None:intergenic
ATGCTTGGCGAACGCTACAT+TGG 0.474402 3.2:+37972563 None:intergenic
AAGCTACGGATCAGAATAGC+AGG 0.501991 3.2:+37972261 None:intergenic
CTTACACCACAAGATATTGT+AGG 0.525235 3.2:-37972288 MS.gene46943:CDS
TCTTAATAACTGCACATCTA+GGG 0.530762 3.2:+37972223 None:intergenic
TCATTCTGTTGCAAACATTG+AGG 0.540275 3.2:-37972643 MS.gene46943:CDS
CAAGCATTCTAGATTTGTTG+AGG 0.550123 3.2:-37972547 MS.gene46943:CDS
TAAGTATCTTCTCCAAGCTA+CGG 0.568984 3.2:+37972247 None:intergenic
ACTTCAAGTAATCGCAAAGA+TGG 0.569887 3.2:-37972466 MS.gene46943:CDS
TGAGGCTGTTAATTCAGTCA+AGG 0.573328 3.2:-37972529 MS.gene46943:CDS
TGGTAAATCTTTCTGAAATG+GGG 0.580242 3.2:+37972110 None:intergenic
TTAATTCAGTCAAGGAAATG+GGG 0.604956 3.2:-37972521 MS.gene46943:CDS
AACTTCTTGGTGAACGATGT+GGG 0.606341 3.2:-37972312 MS.gene46943:CDS
AAAACAAAATAAGACATCAA+AGG 0.606684 3.2:+37972492 None:intergenic
GTAGTTTCAACTTTGATGCG+TGG 0.626795 3.2:-37972699 None:intergenic
GAACTTCTTGGTGAACGATG+TGG 0.641423 3.2:-37972313 MS.gene46943:CDS
GGGCATCCTACAATATCTTG+TGG 0.647321 3.2:+37972282 None:intergenic
TTATATGCATCCAATAACAA+TGG 0.650321 3.2:+37972090 None:intergenic
AGTAGAGAAATGGAACATTG+AGG 0.673786 3.2:+37972600 None:intergenic
AGCTACGGATCAGAATAGCA+GGG 0.695511 3.2:+37972262 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACAAAATAAGACATCAA+AGG + chr3.2:37972266-37972285 None:intergenic 20.0%
!! CATAAGTACCTTTATTATTA+TGG - chr3.2:37972592-37972611 MS.gene46943:CDS 20.0%
!!! TATTAAGATTTTGAAGTCAA+GGG - chr3.2:37972547-37972566 MS.gene46943:CDS 20.0%
!!! TTATTAAGATTTTGAAGTCA+AGG - chr3.2:37972546-37972565 MS.gene46943:CDS 20.0%
!!! TTTGATGTCTTATTTTGTTT+TGG - chr3.2:37972265-37972284 MS.gene46943:CDS 20.0%
! AACCATTGAATGATAGTTAA+AGG + chr3.2:37972090-37972109 None:intergenic 25.0%
! GAAAGATTTACCATTGTTAT+TGG - chr3.2:37972655-37972674 MS.gene46943:CDS 25.0%
! TATGAAAACAATGAACTTCT+TGG - chr3.2:37972430-37972449 MS.gene46943:CDS 25.0%
! TTATATGCATCCAATAACAA+TGG + chr3.2:37972668-37972687 None:intergenic 25.0%
! TTTCTCAGCCATAATAATAA+AGG + chr3.2:37972603-37972622 None:intergenic 25.0%
!! AATGGTAAATCTTTCTGAAA+TGG + chr3.2:37972650-37972669 None:intergenic 25.0%
!! TCTGAAATCATCATACAATT+CGG + chr3.2:37972401-37972420 None:intergenic 25.0%
!! TTGTTATTGGATGCATATAA+AGG - chr3.2:37972668-37972687 MS.gene46943:CDS 25.0%
!!! ATGGTAAATCTTTCTGAAAT+GGG + chr3.2:37972649-37972668 None:intergenic 25.0%
!!! ATTAAGATTTTGAAGTCAAG+GGG - chr3.2:37972548-37972567 MS.gene46943:CDS 25.0%
!!! CAAAAATCAAGATTTTTGAG+AGG - chr3.2:37972330-37972349 MS.gene46943:CDS 25.0%
AAAGATGGACAAAGAGAATT+GGG - chr3.2:37972304-37972323 MS.gene46943:CDS 30.0%
ATCTTAATAACTGCACATCT+AGG + chr3.2:37972536-37972555 None:intergenic 30.0%
GACCTTTAACTATCATTCAA+TGG - chr3.2:37972085-37972104 MS.gene46943:CDS 30.0%
GTTAATTCAGTCAAGGAAAT+GGG - chr3.2:37972233-37972252 MS.gene46943:CDS 30.0%
TCTTAATAACTGCACATCTA+GGG + chr3.2:37972535-37972554 None:intergenic 30.0%
TGTTAATTCAGTCAAGGAAA+TGG - chr3.2:37972232-37972251 MS.gene46943:CDS 30.0%
TTAATTCAGTCAAGGAAATG+GGG - chr3.2:37972234-37972253 MS.gene46943:CDS 30.0%
! TATGGCTGAGAAAACATTTT+TGG - chr3.2:37972610-37972629 MS.gene46943:CDS 30.0%
!! AAATCAAGATTTTTGAGAGG+TGG - chr3.2:37972333-37972352 MS.gene46943:CDS 30.0%
!! AATCAAGATTTTTGAGAGGT+GGG - chr3.2:37972334-37972353 MS.gene46943:CDS 30.0%
!! TGGTAAATCTTTCTGAAATG+GGG + chr3.2:37972648-37972667 None:intergenic 30.0%
!!! ATTGAGGTTTTGAGAAAACT+TGG - chr3.2:37972128-37972147 MS.gene46943:CDS 30.0%
ACTTCAAGTAATCGCAAAGA+TGG - chr3.2:37972289-37972308 MS.gene46943:CDS 35.0%
AGTAGAGAAATGGAACATTG+AGG + chr3.2:37972158-37972177 None:intergenic 35.0%
ATTGGATACCAGTAGAGAAA+TGG + chr3.2:37972168-37972187 None:intergenic 35.0%
CAAAGATGGACAAAGAGAAT+TGG - chr3.2:37972303-37972322 MS.gene46943:CDS 35.0%
CTTACACCACAAGATATTGT+AGG - chr3.2:37972467-37972486 MS.gene46943:CDS 35.0%
TAAGTATCTTCTCCAAGCTA+CGG + chr3.2:37972511-37972530 None:intergenic 35.0%
TCAATGTTCCATTTCTCTAC+TGG - chr3.2:37972157-37972176 MS.gene46943:CDS 35.0%
TCATTCTGTTGCAAACATTG+AGG - chr3.2:37972112-37972131 MS.gene46943:CDS 35.0%
! CTCAACAAATCTAGAATGCT+TGG + chr3.2:37972210-37972229 None:intergenic 35.0%
!! ATCAAGATTTTTGAGAGGTG+GGG - chr3.2:37972335-37972354 MS.gene46943:CDS 35.0%
!! CAAGCATTCTAGATTTGTTG+AGG - chr3.2:37972208-37972227 MS.gene46943:CDS 35.0%
!! TCATACAATTCGGCTGTTTT+TGG + chr3.2:37972391-37972410 None:intergenic 35.0%
AACTTCTTGGTGAACGATGT+GGG - chr3.2:37972443-37972462 MS.gene46943:CDS 40.0%
GAACGCTACATTGGGAAAAT+TGG + chr3.2:37972186-37972205 None:intergenic 40.0%
TGAGGCTGTTAATTCAGTCA+AGG - chr3.2:37972226-37972245 MS.gene46943:CDS 40.0%
! GTCGAGAGATATGTGTCTTT+TGG - chr3.2:37972361-37972380 MS.gene46943:CDS 40.0%
AAGCTACGGATCAGAATAGC+AGG + chr3.2:37972497-37972516 None:intergenic 45.0%
AGCTACGGATCAGAATAGCA+GGG + chr3.2:37972496-37972515 None:intergenic 45.0%
GAACTTCTTGGTGAACGATG+TGG - chr3.2:37972442-37972461 MS.gene46943:CDS 45.0%
GGGCATCCTACAATATCTTG+TGG + chr3.2:37972476-37972495 None:intergenic 45.0%
TGCTATTCTGATCCGTAGCT+TGG - chr3.2:37972496-37972515 MS.gene46943:CDS 45.0%
!! AGATTTTTGAGAGGTGGGGT+TGG - chr3.2:37972339-37972358 MS.gene46943:CDS 45.0%
ATGCTTGGCGAACGCTACAT+TGG + chr3.2:37972195-37972214 None:intergenic 50.0%
TGCTTGGCGAACGCTACATT+GGG + chr3.2:37972194-37972213 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 37972071 37972706 37972071 ID=MS.gene46943
chr3.2 mRNA 37972071 37972706 37972071 ID=MS.gene46943.t1;Parent=MS.gene46943
chr3.2 exon 37972071 37972706 37972071 ID=MS.gene46943.t1.exon1;Parent=MS.gene46943.t1
chr3.2 CDS 37972071 37972706 37972071 ID=cds.MS.gene46943.t1;Parent=MS.gene46943.t1
Gene Sequence

>MS.gene46943

ATGCGTGGAACATGGACCTTTAACTATCATTCAATGGTTAATCATTCTGTTGCAAACATTGAGGTTTTGAGAAAACTTGGTGTGCCTCAATGTTCCATTTCTCTACTGGTATCCAATTTTCCCAATGTAGCGTTCGCCAAGCATTCTAGATTTGTTGAGGCTGTTAATTCAGTCAAGGAAATGGGGTTTGATCCTTTGATGTCTTATTTTGTTTTGGCACTTCAAGTAATCGCAAAGATGGACAAAGAGAATTGGGAATCAAAAATCAAGATTTTTGAGAGGTGGGGTTGGTCGAGAGATATGTGTCTTTTGGCTTTCCAAAAACAGCCGAATTGTATGATGATTTCAGAAAAAAAGATTATGAAAACAATGAACTTCTTGGTGAACGATGTGGGTCTTACACCACAAGATATTGTAGGATGCCCTGCTATTCTGATCCGTAGCTTGGAGAAGATACTTATCCCTAGATGTGCAGTTATTAAGATTTTGAAGTCAAGGGGTTTGATAAAGAGTAGTTTGCGCATAAGTACCTTTATTATTATGGCTGAGAAAACATTTTTGGAGCGATATGTAACCCCATTTCAGAAAGATTTACCATTGTTATTGGATGCATATAAAGGTCAGAATTCAGATTGA
Protein sequence

>MS.gene46943.t1

MRGTWTFNYHSMVNHSVANIEVLRKLGVPQCSISLLVSNFPNVAFAKHSRFVEAVNSVKEMGFDPLMSYFVLALQVIAKMDKENWESKIKIFERWGWSRDMCLLAFQKQPNCMMISEKKIMKTMNFLVNDVGLTPQDIVGCPAILIRSLEKILIPRCAVIKILKSRGLIKSSLRISTFIIMAEKTFLERYVTPFQKDLPLLLDAYKGQNSD