AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69488


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69488.t1 MTR_3g450500 85.795 176 25 0 1 176 176 351 4.19e-107 311
MS.gene69488.t1 MTR_4g007490 74.011 177 46 0 1 177 174 350 1.11e-91 272
MS.gene69488.t1 MTR_2g019810 39.766 171 99 3 8 177 172 339 2.73e-33 121
MS.gene69488.t1 MTR_2g019840 39.181 171 100 3 8 177 184 351 5.28e-33 121
MS.gene69488.t1 MTR_2g436460 37.714 175 106 2 4 177 184 356 8.76e-32 117
MS.gene69488.t1 MTR_2g437040 37.059 170 105 1 8 177 183 350 3.38e-31 116
MS.gene69488.t1 MTR_2g437260 33.143 175 117 0 3 177 172 346 1.56e-29 112
MS.gene69488.t1 MTR_4g119550 33.333 171 112 1 7 177 192 360 2.64e-29 111
MS.gene69488.t1 MTR_2g437240 33.728 169 110 1 8 176 211 377 2.40e-27 106
MS.gene69488.t1 MTR_2g437080 35.714 182 102 3 3 177 177 350 2.62e-27 105
MS.gene69488.t1 MTR_2g436400 34.320 169 109 1 8 176 190 356 3.59e-27 105
MS.gene69488.t1 MTR_2g437100 33.140 172 113 1 6 177 206 375 8.69e-27 104
MS.gene69488.t1 MTR_2g436440 33.333 171 112 1 7 177 188 356 7.02e-26 102
MS.gene69488.t1 MTR_2g437160 33.140 172 113 1 6 177 206 375 1.59e-25 101
MS.gene69488.t1 MTR_2g437020 34.104 173 112 2 6 177 180 351 1.85e-25 100
MS.gene69488.t1 MTR_2g438020 32.749 171 113 1 6 176 248 416 2.75e-25 101
MS.gene69488.t1 MTR_2g437090 35.075 134 87 0 44 177 5 138 6.00e-25 95.1
MS.gene69488.t1 MTR_2g437180 31.579 171 115 1 6 176 193 361 1.41e-24 98.6
MS.gene69488.t1 MTR_4g120380 30.952 168 114 1 8 175 185 350 3.08e-24 97.4
MS.gene69488.t1 MTR_4g120380 30.952 168 114 1 8 175 185 350 3.93e-24 97.8
MS.gene69488.t1 MTR_2g437030 34.118 170 110 2 8 177 269 436 4.54e-24 97.8
MS.gene69488.t1 MTR_2g437960 30.409 171 117 1 6 176 197 365 1.41e-23 95.9
MS.gene69488.t1 MTR_2g437960 30.409 171 117 1 6 176 197 365 1.48e-23 96.3
MS.gene69488.t1 MTR_2g437150 31.977 172 115 1 6 177 201 370 1.60e-23 95.9
MS.gene69488.t1 MTR_2g437120 32.164 171 113 2 7 177 196 363 3.46e-23 95.1
MS.gene69488.t1 MTR_4g119580 33.529 170 111 1 8 177 185 352 5.83e-23 94.0
MS.gene69488.t1 MTR_2g437200 32.164 171 114 1 6 176 209 377 7.82e-23 94.0
MS.gene69488.t1 MTR_2g437160 30.601 183 113 3 9 177 102 284 4.82e-22 90.9
MS.gene69488.t1 MTR_2g437060 34.706 170 109 2 8 177 198 365 5.27e-22 91.7
MS.gene69488.t1 MTR_2g437170 32.895 152 100 1 6 157 201 350 6.56e-22 91.7
MS.gene69488.t1 MTR_2g437990 29.825 171 118 1 7 177 194 362 2.63e-20 87.0
MS.gene69488.t1 MTR_2g437940 30.409 171 117 1 7 177 166 334 3.55e-20 86.3
MS.gene69488.t1 MTR_2g076320 29.825 171 118 1 7 177 195 363 1.18e-19 85.1
MS.gene69488.t1 MTR_2g438010 30.519 154 105 2 6 159 214 365 4.55e-19 83.6
MS.gene69488.t1 MTR_2g437130 30.573 157 107 1 3 159 179 333 9.76e-17 77.0
MS.gene69488.t1 MTR_8g081000 26.744 172 126 0 6 177 196 367 2.09e-16 75.9
MS.gene69488.t1 MTR_8g081000 26.744 172 126 0 6 177 196 367 2.13e-16 75.9
MS.gene69488.t1 MTR_8g081000 26.744 172 126 0 6 177 196 367 2.18e-16 75.9
MS.gene69488.t1 MTR_8g080990 29.070 172 122 0 6 177 183 354 2.94e-15 72.8
MS.gene69488.t1 MTR_4g119570 27.976 168 86 2 8 175 77 209 1.04e-13 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69488.t1 AT5G07900 41.618 173 100 1 6 177 210 382 3.33e-47 159
MS.gene69488.t1 AT1G21150 38.506 174 105 2 2 174 156 328 1.18e-32 119
MS.gene69488.t1 AT1G21150 38.506 174 105 2 2 174 192 364 2.26e-32 119
MS.gene69488.t1 AT1G21150 38.506 174 105 2 2 174 256 428 4.49e-32 119
MS.gene69488.t1 AT1G62010 31.336 217 106 5 2 176 164 379 5.36e-24 97.4
MS.gene69488.t1 AT1G61970 31.604 212 106 5 2 176 186 395 6.01e-21 89.0
MS.gene69488.t1 AT1G61970 31.604 212 106 5 2 176 186 395 6.01e-21 89.0
MS.gene69488.t1 AT1G61970 31.604 212 106 5 2 176 186 395 6.01e-21 89.0
MS.gene69488.t1 AT1G61970 31.604 212 106 5 2 176 186 395 6.01e-21 89.0
MS.gene69488.t1 AT1G61970 31.604 212 106 5 2 176 186 395 6.01e-21 89.0
MS.gene69488.t1 AT1G61970 31.604 212 106 5 2 176 186 395 6.01e-21 89.0
MS.gene69488.t1 AT1G61970 31.604 212 106 5 2 176 186 395 6.01e-21 89.0
MS.gene69488.t1 AT1G61980 30.332 211 110 3 2 176 186 395 5.81e-20 86.3
MS.gene69488.t1 AT1G61980 30.332 211 110 3 2 176 186 395 5.81e-20 86.3
MS.gene69488.t1 AT1G61980 30.332 211 110 3 2 176 186 395 5.81e-20 86.3
MS.gene69488.t1 AT1G62120 31.905 210 104 5 4 176 194 401 1.65e-19 85.1
MS.gene69488.t1 AT1G61990 26.636 214 116 4 3 177 180 391 2.84e-16 75.9
MS.gene69488.t1 AT1G61990 26.636 214 116 4 3 177 180 391 2.84e-16 75.9
MS.gene69488.t1 AT3G46950 35.862 145 85 4 3 142 183 324 4.47e-16 75.5
MS.gene69488.t1 AT5G23930 28.216 241 100 5 8 177 190 428 6.09e-16 75.1
MS.gene69488.t1 AT1G62150 26.316 247 106 8 4 177 196 439 2.78e-14 70.1
MS.gene69488.t1 AT1G61960 39.286 112 65 2 6 116 191 300 9.92e-14 68.6
MS.gene69488.t1 AT1G62110 32.414 145 90 4 3 142 189 330 2.81e-13 67.4
MS.gene69488.t1 AT1G62085 28.324 173 120 3 7 176 264 435 3.59e-12 63.9
MS.gene69488.t1 AT1G62085 34.921 126 78 3 4 128 193 315 4.26e-12 63.9
MS.gene69488.t1 AT1G62085 28.324 173 120 3 7 176 264 435 3.59e-12 63.9
MS.gene69488.t1 AT1G62085 34.921 126 78 3 4 128 193 315 4.26e-12 63.9
MS.gene69488.t1 AT1G62490 33.028 109 72 1 8 116 198 305 8.79e-11 59.7

Find 32 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAAGTACCTTTATTATTA+TGG 0.157841 3.1:-31925100 MS.gene69488:CDS
TATGAAAACAATGAACTTCT+TGG 0.276128 3.1:-31925262 MS.gene69488:CDS
GAACGCTACATTGGGAAAAT+TGG 0.307287 3.1:+31925509 None:intergenic
GTCGAGAGATATGTGTCTTT+TGG 0.315308 3.1:-31925331 MS.gene69488:CDS
TTTCTCAGCCATAATAATAA+AGG 0.344392 3.1:+31925092 None:intergenic
CAAAGATGGACAAAGAGAAT+TGG 0.346933 3.1:-31925389 MS.gene69488:CDS
ATCTTAATAACTGCACATCT+AGG 0.371337 3.1:+31925159 None:intergenic
GTTAATTCAGTCAAGGAAAT+GGG 0.373577 3.1:-31925459 MS.gene69488:CDS
TCTGAAATCATCATACAATT+CGG 0.401154 3.1:+31925294 None:intergenic
TCAATGTTCCATTTCTCTAC+TGG 0.408911 3.1:-31925535 MS.gene69488:CDS
TGTTAATTCAGTCAAGGAAA+TGG 0.429636 3.1:-31925460 MS.gene69488:CDS
ATTGGATACCAGTAGAGAAA+TGG 0.437001 3.1:+31925527 None:intergenic
TGCTTGGCGAACGCTACATT+GGG 0.443987 3.1:+31925501 None:intergenic
TGCTATTCTGATCCGTAGCT+TGG 0.455085 3.1:-31925196 MS.gene69488:CDS
AAAGATGGACAAAGAGAATT+GGG 0.462885 3.1:-31925388 MS.gene69488:CDS
CTCAACAAATCTAGAATGCT+TGG 0.472071 3.1:+31925485 None:intergenic
ATGCTTGGCGAACGCTACAT+TGG 0.474402 3.1:+31925500 None:intergenic
AAGCTACGGATCAGAATAGC+AGG 0.501991 3.1:+31925198 None:intergenic
TCTTAATAACTGCACATCTA+GGG 0.530762 3.1:+31925160 None:intergenic
CTTACACCACAAGACATTGT+AGG 0.539834 3.1:-31925225 MS.gene69488:CDS
TCATTCTGTTGCAAACATTG+AGG 0.540275 3.1:-31925580 MS.gene69488:CDS
CAAGCATTCTAGATTTGTTG+AGG 0.550123 3.1:-31925484 MS.gene69488:CDS
TAAGTATCTTCTCCAAGCTA+CGG 0.568984 3.1:+31925184 None:intergenic
ACTTCAAGTAATCGCAAAGA+TGG 0.569887 3.1:-31925403 MS.gene69488:CDS
TGAGGCTGTTAATTCAGTCA+AGG 0.573328 3.1:-31925466 MS.gene69488:CDS
TTAATTCAGTCAAGGAAATG+GGG 0.604956 3.1:-31925458 MS.gene69488:CDS
AACTTCTTGGTGAACGATGT+GGG 0.606341 3.1:-31925249 MS.gene69488:CDS
AAAACAAAATAAGACATCAA+AGG 0.606684 3.1:+31925429 None:intergenic
GAACTTCTTGGTGAACGATG+TGG 0.641423 3.1:-31925250 MS.gene69488:CDS
GGGCATCCTACAATGTCTTG+TGG 0.642181 3.1:+31925219 None:intergenic
AGTAGAGAAATGGAACATTG+AGG 0.673786 3.1:+31925537 None:intergenic
AGCTACGGATCAGAATAGCA+GGG 0.695511 3.1:+31925199 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACAAAATAAGACATCAA+AGG + chr3.1:31925239-31925258 None:intergenic 20.0%
!! CATAAGTACCTTTATTATTA+TGG - chr3.1:31925565-31925584 MS.gene69488:CDS 20.0%
!!! TATTAAGATTTTGAAGTCAA+GGG - chr3.1:31925520-31925539 MS.gene69488:CDS 20.0%
!!! TTATTAAGATTTTGAAGTCA+AGG - chr3.1:31925519-31925538 MS.gene69488:CDS 20.0%
!!! TTTGATGTCTTATTTTGTTT+TGG - chr3.1:31925238-31925257 MS.gene69488:CDS 20.0%
! TATGAAAACAATGAACTTCT+TGG - chr3.1:31925403-31925422 MS.gene69488:CDS 25.0%
! TTTCTCAGCCATAATAATAA+AGG + chr3.1:31925576-31925595 None:intergenic 25.0%
!! TCTGAAATCATCATACAATT+CGG + chr3.1:31925374-31925393 None:intergenic 25.0%
!!! ATTAAGATTTTGAAGTCAAG+GGG - chr3.1:31925521-31925540 MS.gene69488:CDS 25.0%
!!! CAAAAATCAAGATTTTTGAG+AGG - chr3.1:31925303-31925322 MS.gene69488:CDS 25.0%
AAAGATGGACAAAGAGAATT+GGG - chr3.1:31925277-31925296 MS.gene69488:CDS 30.0%
ATCTTAATAACTGCACATCT+AGG + chr3.1:31925509-31925528 None:intergenic 30.0%
GTTAATTCAGTCAAGGAAAT+GGG - chr3.1:31925206-31925225 MS.gene69488:CDS 30.0%
TCTTAATAACTGCACATCTA+GGG + chr3.1:31925508-31925527 None:intergenic 30.0%
TGTTAATTCAGTCAAGGAAA+TGG - chr3.1:31925205-31925224 MS.gene69488:CDS 30.0%
TTAATTCAGTCAAGGAAATG+GGG - chr3.1:31925207-31925226 MS.gene69488:CDS 30.0%
! TATGGCTGAGAAAACATTTT+TGG - chr3.1:31925583-31925602 MS.gene69488:CDS 30.0%
!! AAATCAAGATTTTTGAGAGG+TGG - chr3.1:31925306-31925325 MS.gene69488:CDS 30.0%
!! AATCAAGATTTTTGAGAGGT+GGG - chr3.1:31925307-31925326 MS.gene69488:CDS 30.0%
!!! ATTGAGGTTTTGAGAAAACT+TGG - chr3.1:31925101-31925120 MS.gene69488:CDS 30.0%
ACTTCAAGTAATCGCAAAGA+TGG - chr3.1:31925262-31925281 MS.gene69488:CDS 35.0%
AGTAGAGAAATGGAACATTG+AGG + chr3.1:31925131-31925150 None:intergenic 35.0%
ATTGGATACCAGTAGAGAAA+TGG + chr3.1:31925141-31925160 None:intergenic 35.0%
CAAAGATGGACAAAGAGAAT+TGG - chr3.1:31925276-31925295 MS.gene69488:CDS 35.0%
TAAGTATCTTCTCCAAGCTA+CGG + chr3.1:31925484-31925503 None:intergenic 35.0%
TCAATGTTCCATTTCTCTAC+TGG - chr3.1:31925130-31925149 MS.gene69488:CDS 35.0%
TCATTCTGTTGCAAACATTG+AGG - chr3.1:31925085-31925104 MS.gene69488:CDS 35.0%
! CTCAACAAATCTAGAATGCT+TGG + chr3.1:31925183-31925202 None:intergenic 35.0%
!! ATCAAGATTTTTGAGAGGTG+GGG - chr3.1:31925308-31925327 MS.gene69488:CDS 35.0%
!! CAAGCATTCTAGATTTGTTG+AGG - chr3.1:31925181-31925200 MS.gene69488:CDS 35.0%
!! TCATACAATTCGGCTGTTTT+TGG + chr3.1:31925364-31925383 None:intergenic 35.0%
AACTTCTTGGTGAACGATGT+GGG - chr3.1:31925416-31925435 MS.gene69488:CDS 40.0%
CTTACACCACAAGACATTGT+AGG - chr3.1:31925440-31925459 MS.gene69488:CDS 40.0%
GAACGCTACATTGGGAAAAT+TGG + chr3.1:31925159-31925178 None:intergenic 40.0%
TGAGGCTGTTAATTCAGTCA+AGG - chr3.1:31925199-31925218 MS.gene69488:CDS 40.0%
! GTCGAGAGATATGTGTCTTT+TGG - chr3.1:31925334-31925353 MS.gene69488:CDS 40.0%
AAGCTACGGATCAGAATAGC+AGG + chr3.1:31925470-31925489 None:intergenic 45.0%
AGCTACGGATCAGAATAGCA+GGG + chr3.1:31925469-31925488 None:intergenic 45.0%
GAACTTCTTGGTGAACGATG+TGG - chr3.1:31925415-31925434 MS.gene69488:CDS 45.0%
TGCTATTCTGATCCGTAGCT+TGG - chr3.1:31925469-31925488 MS.gene69488:CDS 45.0%
!! AGATTTTTGAGAGGTGGGGT+TGG - chr3.1:31925312-31925331 MS.gene69488:CDS 45.0%
ATGCTTGGCGAACGCTACAT+TGG + chr3.1:31925168-31925187 None:intergenic 50.0%
GGGCATCCTACAATGTCTTG+TGG + chr3.1:31925449-31925468 None:intergenic 50.0%
TGCTTGGCGAACGCTACATT+GGG + chr3.1:31925167-31925186 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 31925077 31925610 31925077 ID=MS.gene69488
chr3.1 mRNA 31925077 31925610 31925077 ID=MS.gene69488.t1;Parent=MS.gene69488
chr3.1 exon 31925077 31925610 31925077 ID=MS.gene69488.t1.exon1;Parent=MS.gene69488.t1
chr3.1 CDS 31925077 31925610 31925077 ID=cds.MS.gene69488.t1;Parent=MS.gene69488.t1
Gene Sequence

>MS.gene69488

ATGGTTAATCATTCTGTTGCAAACATTGAGGTTTTGAGAAAACTTGGCGTGCCTCAATGTTCCATTTCTCTACTGGTATCCAATTTTCCCAATGTAGCGTTCGCCAAGCATTCTAGATTTGTTGAGGCTGTTAATTCAGTCAAGGAAATGGGGTTTGATCCTTTGATGTCTTATTTTGTTTTGGCACTTCAAGTAATCGCAAAGATGGACAAAGAGAATTGGGAATCAAAAATCAAGATTTTTGAGAGGTGGGGTTGGTCGAGAGATATGTGTCTTTTGGCTTTCCAAAAACAGCCGAATTGTATGATGATTTCAGAAAAAAAGATTATGAAAACAATGAACTTCTTGGTGAACGATGTGGGTCTTACACCACAAGACATTGTAGGATGCCCTGCTATTCTGATCCGTAGCTTGGAGAAGATACTTATCCCTAGATGTGCAGTTATTAAGATTTTGAAGTCAAGGGGTTTGATAAAGAGTAGTTTGCGCATAAGTACCTTTATTATTATGGCTGAGAAAACATTTTTGGAGTGA

Protein sequence

>MS.gene69488.t1

MVNHSVANIEVLRKLGVPQCSISLLVSNFPNVAFAKHSRFVEAVNSVKEMGFDPLMSYFVLALQVIAKMDKENWESKIKIFERWGWSRDMCLLAFQKQPNCMMISEKKIMKTMNFLVNDVGLTPQDIVGCPAILIRSLEKILIPRCAVIKILKSRGLIKSSLRISTFIIMAEKTFLE