AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene45970

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45970.t1 MTR_7g066680 78.571 70 15 0 29 98 38 107 1.40e-32 119
MS.gene45970.t1 MTR_7g066680 65.686 102 4 1 100 170 234 335 1.51e-32 119
MS.gene45970.t1 MTR_7g058710 69.512 82 24 1 100 181 404 484 2.18e-28 110
MS.gene45970.t1 MTR_7g058710 50.000 98 36 3 1 97 188 273 4.34e-17 78.2
MS.gene45970.t1 MTR_7g058700 70.732 82 23 1 100 181 848 928 4.47e-28 110
MS.gene45970.t1 MTR_7g058700 47.436 78 20 1 19 96 715 771 6.96e-13 66.2
MS.gene45970.t1 MTR_7g066390 60.526 76 30 0 98 173 47 122 7.34e-26 97.4
MS.gene45970.t1 MTR_7g066570 46.154 130 55 3 52 175 362 482 7.82e-26 103
MS.gene45970.t1 MTR_7g066570 49.275 69 35 0 29 97 209 277 1.30e-11 62.4
MS.gene45970.t1 MTR_7g066260 61.446 83 32 0 98 180 387 469 3.37e-25 101
MS.gene45970.t1 MTR_7g066310 64.474 76 27 0 98 173 308 383 5.64e-25 100
MS.gene45970.t1 MTR_7g066400 57.143 91 32 2 90 173 352 442 6.17e-25 100
MS.gene45970.t1 MTR_7g066400 43.878 98 50 2 1 96 165 259 4.98e-15 72.4
MS.gene45970.t1 MTR_7g066280 54.082 98 36 1 76 173 302 390 6.36e-24 97.4
MS.gene45970.t1 MTR_7g066580 62.025 79 26 1 99 177 371 445 1.90e-23 96.3
MS.gene45970.t1 MTR_2g029400 71.875 64 18 0 100 163 342 405 1.79e-22 93.2
MS.gene45970.t1 MTR_2g029400 51.485 101 38 2 1 100 149 239 1.92e-19 84.7
MS.gene45970.t1 MTR_7g066360 44.828 116 53 2 63 173 340 449 1.75e-21 90.9
MS.gene45970.t1 MTR_7g066410 58.889 90 35 1 85 174 426 513 1.85e-21 90.9
MS.gene45970.t1 MTR_7g066340 60.526 76 30 0 98 173 378 453 2.76e-21 90.1
MS.gene45970.t1 MTR_7g066340 53.012 83 37 2 14 96 202 282 1.67e-15 73.9
MS.gene45970.t1 MTR_7g066290 68.750 64 20 0 110 173 370 433 3.64e-21 89.7
MS.gene45970.t1 MTR_7g066480 55.696 79 35 0 101 179 349 427 1.25e-20 88.2
MS.gene45970.t1 MTR_7g066490 54.023 87 39 1 94 179 327 413 1.76e-20 87.8
MS.gene45970.t1 MTR_7g062280 57.534 73 31 0 102 174 414 486 5.20e-20 86.7
MS.gene45970.t1 MTR_1g014060 33.654 208 89 7 7 175 189 386 9.37e-20 85.5
MS.gene45970.t1 MTR_7g063920 57.534 73 31 0 102 174 359 431 1.36e-19 85.5
MS.gene45970.t1 MTR_7g063660 54.795 73 33 0 102 174 400 472 2.37e-19 84.7
MS.gene45970.t1 MTR_7g066430 48.485 99 50 1 80 178 393 490 3.25e-19 84.3
MS.gene45970.t1 MTR_7g066350 60.494 81 27 1 98 173 374 454 5.66e-19 83.6
MS.gene45970.t1 MTR_7g012680 59.459 74 30 0 102 175 374 447 1.03e-18 82.8
MS.gene45970.t1 MTR_7g063670 43.333 120 57 4 65 181 347 458 1.84e-18 82.0
MS.gene45970.t1 MTR_1g041315 47.475 99 49 2 1 96 199 297 5.49e-18 80.9
MS.gene45970.t1 MTR_1g041315 53.333 60 28 0 98 157 392 451 4.02e-14 69.7
MS.gene45970.t1 MTR_7g063720 52.632 76 30 2 102 174 155 227 3.97e-17 76.6
MS.gene45970.t1 MTR_7g062300 57.143 70 29 1 101 169 400 469 8.15e-17 77.4
MS.gene45970.t1 MTR_7g063820 39.552 134 68 5 49 174 351 479 5.74e-16 75.1
MS.gene45970.t1 MTR_7g063880 45.000 80 44 0 102 181 391 470 2.69e-15 73.2
MS.gene45970.t1 MTR_7g063760 49.333 75 36 2 108 181 1 74 7.40e-15 66.6
MS.gene45970.t1 MTR_7g063840 47.945 73 38 0 102 174 396 468 1.05e-14 71.6
MS.gene45970.t1 MTR_7g063850 40.385 104 54 2 71 174 188 283 1.84e-14 70.1
MS.gene45970.t1 MTR_4g019310 37.778 135 66 6 50 179 375 496 1.89e-13 67.8
MS.gene45970.t1 MTR_3g007740 51.948 77 32 2 101 174 369 443 3.89e-13 67.0
MS.gene45970.t1 MTR_4g017830 46.753 77 40 1 97 173 426 501 8.16e-13 65.9
MS.gene45970.t1 MTR_7g100420 48.529 68 35 0 102 169 326 393 3.67e-12 63.9
MS.gene45970.t1 MTR_7g063900 37.681 138 69 4 51 175 351 484 1.92e-11 62.0
MS.gene45970.t1 MTR_3g065200 49.153 59 30 0 102 160 350 408 5.32e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 28 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTCATTTCGCTTTCTTAA+TGG 0.201991 7.2:-44621417 None:intergenic
TTAAATACGAAGTCAGTTAA+AGG 0.223806 7.2:-44620721 None:intergenic
AATCCAACTTTACAGATTTC+TGG 0.232404 7.2:+44621074 MS.gene45970:intron
GTAGGGTCTCAACATTCTTA+AGG 0.345070 7.2:+44621337 MS.gene45970:intron
TAAATACGAAGTCAGTTAAA+GGG 0.346351 7.2:-44620720 None:intergenic
CTCTATTCTTAAACTCTGGT+TGG 0.385977 7.2:-44620780 None:intergenic
TCAACTTCTGCTTTGACAAA+TGG 0.395017 7.2:+44621371 MS.gene45970:CDS
TCTTCTCTATTCTTAAACTC+TGG 0.403389 7.2:-44620784 None:intergenic
TAATGGTTGTTGTTAAGAAT+TGG 0.413122 7.2:-44621400 None:intergenic
ATTTCTGGAGAATTTGCAAA+AGG 0.493919 7.2:+44621089 MS.gene45970:CDS
CGTTCCTCTATCTGATGTAG+AGG 0.528649 7.2:+44621196 MS.gene45970:CDS
TTCAACAAACAAAATCTCTC+CGG 0.537044 7.2:-44620860 None:intergenic
TAGAGAAGAAACATCTGAAG+AGG 0.545921 7.2:+44620798 MS.gene45970:CDS
TGAAATAGCATCGAAGGATG+AGG 0.568512 7.2:-44621156 None:intergenic
AAAAGGACCATCAGTATACA+TGG 0.573482 7.2:+44621106 MS.gene45970:CDS
ATACATGGTTACAGATGACT+TGG 0.574559 7.2:+44621121 MS.gene45970:CDS
AAGCTTGAAATGACGAACAT+TGG 0.579488 7.2:+44620531 None:intergenic
TGTTGAAATCAGCAAGCAAG+AGG 0.589218 7.2:+44620572 MS.gene45970:CDS
AAGAAACATCTGAAGAGGGT+AGG 0.591438 7.2:+44620803 MS.gene45970:CDS
ATAGCATCGAAGGATGAGGT+TGG 0.598823 7.2:-44621152 None:intergenic
TAGATGTGAAATAGCATCGA+AGG 0.600877 7.2:-44621162 None:intergenic
AGAGAAGAAACATCTGAAGA+GGG 0.601746 7.2:+44620799 MS.gene45970:CDS
TCTGTAACCATGTATACTGA+TGG 0.602750 7.2:-44621113 None:intergenic
GGTTACAGATGACTTGGTTG+TGG 0.602842 7.2:+44621127 MS.gene45970:CDS
AAATACGAAGTCAGTTAAAG+GGG 0.611325 7.2:-44620719 None:intergenic
ATTTGTCAAAGCAGAAGTTG+AGG 0.649252 7.2:-44621369 None:intergenic
GGTTAGAATTAGTGTGAACG+AGG 0.657692 7.2:+44621226 MS.gene45970:CDS
GATGAGAGTTATATACAGAG+AGG 0.666715 7.2:-44620598 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTTGTTTACATGTTGTA+GGG + chr7.2:44621320-44621339 MS.gene45970:intron 20.0%
!! TTTATTTGTTTACATGTTGT+AGG + chr7.2:44621319-44621338 MS.gene45970:intron 20.0%
! TAAAGCACAGTAATAATGTA+TGG - chr7.2:44621303-44621322 None:intergenic 25.0%
! TAAATACGAAGTCAGTTAAA+GGG - chr7.2:44620723-44620742 None:intergenic 25.0%
! TTAAATACGAAGTCAGTTAA+AGG - chr7.2:44620724-44620743 None:intergenic 25.0%
!! TAATGGTTGTTGTTAAGAAT+TGG - chr7.2:44621403-44621422 None:intergenic 25.0%
AAATACGAAGTCAGTTAAAG+GGG - chr7.2:44620722-44620741 None:intergenic 30.0%
AATCCAACTTTACAGATTTC+TGG + chr7.2:44621074-44621093 MS.gene45970:intron 30.0%
TCTTCTCTATTCTTAAACTC+TGG - chr7.2:44620787-44620806 None:intergenic 30.0%
TGTGACGTTAAATATGTATC+TGG - chr7.2:44621018-44621037 None:intergenic 30.0%
TTCAACAAACAAAATCTCTC+CGG - chr7.2:44620863-44620882 None:intergenic 30.0%
! ATTTCTGGAGAATTTGCAAA+AGG + chr7.2:44621089-44621108 MS.gene45970:CDS 30.0%
!! AGATTTTGTTTGTTGAAGGA+GGG + chr7.2:44620866-44620885 MS.gene45970:CDS 30.0%
AAAAGGACCATCAGTATACA+TGG + chr7.2:44621106-44621125 MS.gene45970:CDS 35.0%
AGAGAAGAAACATCTGAAGA+GGG + chr7.2:44620799-44620818 MS.gene45970:CDS 35.0%
ATACATGGTTACAGATGACT+TGG + chr7.2:44621121-44621140 MS.gene45970:CDS 35.0%
ATCTGATGTAGAGGAAAAAG+TGG + chr7.2:44621205-44621224 MS.gene45970:CDS 35.0%
ATTTGTCAAAGCAGAAGTTG+AGG - chr7.2:44621372-44621391 None:intergenic 35.0%
CTCTATTCTTAAACTCTGGT+TGG - chr7.2:44620783-44620802 None:intergenic 35.0%
GATGAGAGTTATATACAGAG+AGG - chr7.2:44620601-44620620 None:intergenic 35.0%
TAGAGAAGAAACATCTGAAG+AGG + chr7.2:44620798-44620817 MS.gene45970:CDS 35.0%
TCAACTTCTGCTTTGACAAA+TGG + chr7.2:44621371-44621390 MS.gene45970:CDS 35.0%
TCTCCAGAAATCTGTAAAGT+TGG - chr7.2:44621080-44621099 None:intergenic 35.0%
TCTGTAACCATGTATACTGA+TGG - chr7.2:44621116-44621135 None:intergenic 35.0%
! GTTTTGCAAAGAAAATCAGC+CGG + chr7.2:44620841-44620860 MS.gene45970:CDS 35.0%
! TAGATGTGAAATAGCATCGA+AGG - chr7.2:44621165-44621184 None:intergenic 35.0%
! TTTTCCTCTACATCAGATAG+AGG - chr7.2:44621203-44621222 None:intergenic 35.0%
!! GAGATTTTGTTTGTTGAAGG+AGG + chr7.2:44620865-44620884 MS.gene45970:CDS 35.0%
!! GATTTTGTTTGTTGAAGGAG+GGG + chr7.2:44620867-44620886 MS.gene45970:CDS 35.0%
!! GGAGAGATTTTGTTTGTTGA+AGG + chr7.2:44620862-44620881 MS.gene45970:CDS 35.0%
AAGAAACATCTGAAGAGGGT+AGG + chr7.2:44620803-44620822 MS.gene45970:CDS 40.0%
GGTTAGAATTAGTGTGAACG+AGG + chr7.2:44621226-44621245 MS.gene45970:CDS 40.0%
GTAGGGTCTCAACATTCTTA+AGG + chr7.2:44621337-44621356 MS.gene45970:intron 40.0%
TGTTGAAATCAGCAAGCAAG+AGG + chr7.2:44620572-44620591 MS.gene45970:CDS 40.0%
! AGTTTTCTAACCTTCCCCTT+GGG + chr7.2:44620913-44620932 MS.gene45970:intron 40.0%
! TAGTTTTCTAACCTTCCCCT+TGG + chr7.2:44620912-44620931 MS.gene45970:intron 40.0%
! TGAAATAGCATCGAAGGATG+AGG - chr7.2:44621159-44621178 None:intergenic 40.0%
CGTTCCTCTATCTGATGTAG+AGG + chr7.2:44621196-44621215 MS.gene45970:CDS 45.0%
! ATAGCATCGAAGGATGAGGT+TGG - chr7.2:44621155-44621174 None:intergenic 45.0%
! GTTTTCTAACCTTCCCCTTG+GGG + chr7.2:44620914-44620933 MS.gene45970:intron 45.0%
! TTTTCTAACCTTCCCCTTGG+GGG + chr7.2:44620915-44620934 MS.gene45970:intron 45.0%
!! GGAGTGTTGCATATGCTTCA+AGG + chr7.2:44620937-44620956 MS.gene45970:intron 45.0%
!! GGTTACAGATGACTTGGTTG+TGG + chr7.2:44621127-44621146 MS.gene45970:CDS 45.0%
ATATGCAACACTCCCCCCAA+GGG - chr7.2:44620931-44620950 None:intergenic 50.0%
TTTCTAACCTTCCCCTTGGG+GGG + chr7.2:44620916-44620935 MS.gene45970:intron 50.0%
CATATGCAACACTCCCCCCA+AGG - chr7.2:44620932-44620951 None:intergenic 55.0%
TATGCAACACTCCCCCCAAG+GGG - chr7.2:44620930-44620949 None:intergenic 55.0%
CAACACTCCCCCCAAGGGGA+AGG - chr7.2:44620926-44620945 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 44620540 44621436 44620540 ID=MS.gene45970
chr7.2 mRNA 44620540 44621436 44620540 ID=MS.gene45970.t1;Parent=MS.gene45970
chr7.2 exon 44620540 44620623 44620540 ID=MS.gene45970.t1.exon1;Parent=MS.gene45970.t1
chr7.2 CDS 44620540 44620623 44620540 ID=cds.MS.gene45970.t1;Parent=MS.gene45970.t1
chr7.2 exon 44620682 44620888 44620682 ID=MS.gene45970.t1.exon2;Parent=MS.gene45970.t1
chr7.2 CDS 44620682 44620888 44620682 ID=cds.MS.gene45970.t1;Parent=MS.gene45970.t1
chr7.2 exon 44621089 44621247 44621089 ID=MS.gene45970.t1.exon3;Parent=MS.gene45970.t1
chr7.2 CDS 44621089 44621247 44621089 ID=cds.MS.gene45970.t1;Parent=MS.gene45970.t1
chr7.2 exon 44621341 44621436 44621341 ID=MS.gene45970.t1.exon4;Parent=MS.gene45970.t1
chr7.2 CDS 44621341 44621436 44621341 ID=cds.MS.gene45970.t1;Parent=MS.gene45970.t1
Gene Sequence

>MS.gene45970

ATGACGAACATTGGTGCTATTGTTGAAGAATGTGTTGAAATCAGCAAGCAAGAGGCATCCTCTCTGTATATAACTCTCATCTTTGTATATCATTATTTTGTTTAGTTGATTTTTTTTTCACATCAAATATTTATTTTTGTAGATAACTGATATTCTCAAGTTGTCATTCGTCTCAAAGACCCCTTTAACTGACTTCGTATTTAAGAAGAAACATTTCTGTTATGAATTTGTCAAGACAAACCAACCAGAGTTTAAGAATAGAGAAGAAACATCTGAAGAGGGTAGGCAGATGTCTGTGAAAGTTTTGCAAAGAAAATCAGCCGGAGAGATTTTGTTTGTTGAAGGAGGGGTAGATTTTATTGACTTTATTTTTAGTTTTCTAACCTTCCCCTTGGGGGGAGTGTTGCATATGCTTCAAGGATTCTCTTCTTTAAGCTGCATCGATAATTTATATAAGAGTGTAACTGAGTTGAGTCCAGATACATATTTAACGTCACAAGAACTTAAACTATTGCAGCACAATTTGAGCTCAGCAATCCAACTTTACAGATTTCTGGAGAATTTGCAAAAGGACCATCAGTATACATGGTTACAGATGACTTGGTTGTGGCTCCAACCTCATCCTTCGATGCTATTTCACATCTAAAGAGTTTAAACGTTCCTCTATCTGATGTAGAGGAAAAAGTGGTTAGAATTAGTGTGAACGAGGTAATTCACAAATTAAGACTTTTCGCGTTGTTATTGCAATTAATTTTCATTTCCATACATTATTACTGTGCTTTATTTGTTTACATGTTGTAGGGTCTCAACATTCTTAAGGCTTCATTGACCTCAACTTCTGCTTTGACAAATGGTCTCAACCAATTCTTAACAACAACCATTAAGAAAGCGAAATGA
Protein sequence

>MS.gene45970.t1

MTNIGAIVEECVEISKQEASSLYITLIFITDILKLSFVSKTPLTDFVFKKKHFCYEFVKTNQPEFKNREETSEEGRQMSVKVLQRKSAGEILFVEGGISGEFAKGPSVYMVTDDLVVAPTSSFDAISHLKSLNVPLSDVEEKVVRISVNEGLNILKASLTSTSALTNGLNQFLTTTIKKAK