AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004890


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004890 MtrunA17_Chr1g0201891 99.072 431 4 0 1 431 1 431 0.0 893
MsaG004890 MtrunA17_Chr2g0278511 80.230 435 74 5 1 431 1 427 0.0 702
MsaG004890 MtrunA17_Chr2g0286441 58.333 384 136 5 48 431 34 393 4.49e-158 452
MsaG004890 MtrunA17_Chr5g0404321 53.636 440 171 11 1 431 1 416 8.43e-155 444
MsaG004890 MtrunA17_Chr8g0373001 51.936 439 176 12 1 431 1 412 2.89e-146 422
MsaG004890 MtrunA17_Chr1g0155301 48.908 458 171 9 1 431 1 422 3.48e-146 422
MsaG004890 MtrunA17_Chr1g0196071 51.030 437 173 10 1 431 1 402 1.92e-145 420
MsaG004890 MtrunA17_Chr2g0315641 48.042 383 148 6 50 431 39 371 4.07e-120 354
MsaG004890 MtrunA17_Chr2g0315651 43.636 385 161 10 51 431 35 367 2.34e-96 293
MsaG004890 MtrunA17_Chr8g0373361 43.091 427 196 13 15 424 9 405 3.11e-94 289
MsaG004890 MtrunA17_Chr8g0373331 36.092 435 180 17 1 424 1 348 1.04e-72 232
MsaG004890 MtrunA17_Chr1g0156151 46.544 217 97 6 1 207 1 208 1.18e-56 186
MsaG004890 MtrunA17_Chr8g0373351 32.398 392 130 12 48 423 14 286 1.07e-44 157
MsaG004890 MtrunA17_Chr8g0373341 34.221 263 116 7 1 235 1 234 1.52e-28 114
MsaG004890 MtrunA17_Chr8g0373341 45.098 102 41 3 322 421 232 320 6.76e-17 81.3
MsaG004890 MtrunA17_Chr3g0091401 40.404 99 52 2 95 193 8 99 3.56e-14 68.6
MsaG004890 MtrunA17_Chr2g0334041 24.561 285 128 9 155 430 153 359 2.52e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004890 AT1G76900.2 70.549 455 110 9 1 431 1 455 0.0 611
MsaG004890 AT1G76900.1 70.549 455 110 9 1 431 1 455 0.0 611
MsaG004890 AT1G76900.3 70.549 455 110 9 1 431 1 455 0.0 611
MsaG004890 AT1G43640.1 67.800 441 120 6 1 431 1 429 0.0 599
MsaG004890 AT1G25280.1 69.955 446 118 7 1 431 1 445 0.0 595
MsaG004890 AT1G43640.2 69.786 374 95 4 65 431 1 363 0.0 535
MsaG004890 AT2G47900.2 53.828 431 174 4 1 431 1 406 9.00e-166 472
MsaG004890 AT2G47900.1 53.828 431 174 4 1 431 1 406 9.00e-166 472
MsaG004890 AT2G47900.3 53.704 432 174 5 1 431 1 407 3.42e-164 468
MsaG004890 AT2G18280.2 53.061 441 149 12 1 431 1 393 1.19e-149 431
MsaG004890 AT2G18280.1 53.061 441 149 12 1 431 1 393 1.19e-149 431
MsaG004890 AT1G47270.3 55.181 386 135 5 48 431 39 388 8.25e-142 410
MsaG004890 AT1G47270.2 55.181 386 135 5 48 431 63 412 1.65e-141 410
MsaG004890 AT1G47270.1 55.181 386 135 5 48 431 64 413 1.75e-141 410
MsaG004890 AT5G18680.1 50.518 386 157 7 49 431 35 389 5.05e-130 380
MsaG004890 AT3G06380.1 51.969 381 148 9 53 431 33 380 1.83e-127 374
MsaG004890 AT1G25280.3 69.403 268 72 6 173 431 1 267 1.25e-122 357
MsaG004890 AT1G25280.2 69.403 268 72 6 173 431 1 267 1.25e-122 357
MsaG004890 AT1G53320.1 47.781 383 155 5 50 431 41 379 8.92e-119 352
MsaG004890 AT5G18680.2 50.920 326 127 6 108 431 3 297 1.11e-105 315
MsaG004890 AT3G06380.2 51.735 317 119 8 116 431 5 288 1.53e-99 299
MsaG004890 AT1G61940.2 55.814 86 38 0 56 141 1 86 2.84e-28 112
MsaG004890 AT1G61940.1 59.375 64 26 0 56 119 1 64 8.83e-20 88.6

Find 124 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAATGAGCTCTGGCTGGCC+TGG 0.187108 1:+75198102 None:intergenic
ATACCCTCTCTCGGCCTTTC+AGG 0.201509 1:-75197698 MsaT004890.1:CDS
GCAGCATTGCTTGTTGAAAA+TGG 0.220754 1:-75198898 MsaT004890.1:intron
ATGTTGGTGCCTTAACTTTA+GGG 0.281753 1:-75197899 MsaT004890.1:CDS
AATGTTGGTGCCTTAACTTT+AGG 0.285851 1:-75197900 MsaT004890.1:CDS
CTTTCCGATGTAAGTGTTAC+TGG 0.296608 1:+75198789 None:intergenic
CTGTAGGTTCTCAGATATAA+TGG 0.306980 1:-75198007 MsaT004890.1:CDS
CTCACCTGCTTCAGAGAAAC+AGG 0.315099 1:+75199733 None:intergenic
GAATGAGCTCTGGCTGGCCT+GGG 0.345465 1:+75198103 None:intergenic
GCCAGCTGAGCATTGTTATA+GGG 0.349030 1:+75198306 None:intergenic
CATGGGCTGTTCTGTATAAC+TGG 0.352285 1:+75199928 None:intergenic
AGCCAGCTGAGCATTGTTAT+AGG 0.353413 1:+75198305 None:intergenic
GTCGCTCCTCATGCCGCAAC+AGG 0.364636 1:-75197814 MsaT004890.1:CDS
CGTGATGTGAGGGATGGATT+TGG 0.379788 1:-75200042 MsaT004890.1:CDS
CTCTTCCTTTGCCTCAGTCC+TGG 0.393245 1:-75199352 MsaT004890.1:intron
GAAAGAATCCTCAAGATTGC+GGG 0.410283 1:+75198080 None:intergenic
CTCTGTGCAAGTCGTTCTTC+TGG 0.410800 1:+75198849 None:intergenic
GCATGAGGAGCGACAGGTGC+AGG 0.424142 1:+75197823 None:intergenic
TAACTGCCACTAGGGACCTT+TGG 0.430993 1:+75198240 None:intergenic
TCCTATGAGTTGAATGTCCT+TGG 0.431089 1:-75198201 MsaT004890.1:CDS
TCGTGATGTTATTAAGAGAT+TGG 0.435663 1:-75199881 MsaT004890.1:CDS
TTTCCCTGTTTCTCTGAAGC+AGG 0.440467 1:-75199737 MsaT004890.1:intron
TGCAGTTGTTCATGCCATCT+AGG 0.445754 1:+75197922 None:intergenic
GACAAGATTATTCTTCAGTT+CGG 0.446887 1:-75197757 MsaT004890.1:CDS
AATGCTCAGCTGGCTCCTCC+TGG 0.452432 1:-75198297 MsaT004890.1:CDS
CCCGCTTCATCCCTCGAGCC+TGG 0.453190 1:-75198135 MsaT004890.1:CDS
AAGGCTTCCTGGACATCAAA+GGG 0.458001 1:-75199992 MsaT004890.1:CDS
CACAGAGTATGTTATATCAA+TGG 0.458685 1:-75198833 MsaT004890.1:CDS
GAGCCTGGTGGTGTTGTCCC+AGG 0.458781 1:-75198120 MsaT004890.1:CDS
TGTGCTGGCTGCGACGGAGC+AGG 0.465017 1:+75197790 None:intergenic
TGGAAGCAACTGAGAGTACT+TGG 0.468061 1:-75199861 MsaT004890.1:CDS
TGTAGGTTCTCAGATATAAT+GGG 0.470818 1:-75198006 MsaT004890.1:CDS
AGATTGCGGGGAATGAGCTC+TGG 0.475959 1:+75198093 None:intergenic
TGTATCATAAATTATGAACT+TGG 0.479777 1:+75198335 None:intergenic
TCCCTATAACAATGCTCAGC+TGG 0.484175 1:-75198307 MsaT004890.1:CDS
AAGGGGCAAGTCGCGTAGTT+CGG 0.484348 1:-75199974 MsaT004890.1:CDS
TGCGGGGAATGAGCTCTGGC+TGG 0.484831 1:+75198097 None:intergenic
GACTTGCCCCTTTGATGTCC+AGG 0.489493 1:+75199985 None:intergenic
TTGTCATGGTCTGACTGTGC+TGG 0.490534 1:+75197775 None:intergenic
CCAGGCTCGAGGGATGAAGC+GGG 0.492821 1:+75198135 None:intergenic
TGAAGACGAGGAGGAGGGGA+AGG 0.493522 1:-75197974 MsaT004890.1:CDS
TCACACGTCCCCTAAAGTTA+AGG 0.494461 1:+75197890 None:intergenic
TGGCAATGAAGACGAGGAGG+AGG 0.494605 1:-75197980 MsaT004890.1:CDS
ACCAAGGACATTCAACTCAT+AGG 0.502804 1:+75198200 None:intergenic
TTGAATCTACGGCTGCGTCC+AGG 0.511465 1:+75198279 None:intergenic
TTAAGAACAAGTCTCCTAGA+TGG 0.514190 1:-75197936 MsaT004890.1:CDS
GTTGCGGCATGAGGAGCGAC+AGG 0.514556 1:+75197817 None:intergenic
TCTGACTGTGCTGGCTGCGA+CGG 0.514689 1:+75197784 None:intergenic
CATTCAACTCATAGGAGACC+TGG 0.520501 1:+75198208 None:intergenic
GCAGGTCCTGTTGCGGCATG+AGG 0.520662 1:+75197808 None:intergenic
TGGCCTGGGACAACACCACC+AGG 0.526446 1:+75198117 None:intergenic
GAGGTTGATCATGCAACTCA+TGG 0.527376 1:+75199950 None:intergenic
CAGGACTGAGGCAAAGGAAG+AGG 0.529546 1:+75199353 None:intergenic
TTCTCAGATATAATGGGAGC+TGG 0.533677 1:-75198000 MsaT004890.1:CDS
CCCATGGGCTAGCCTTCCAC+CGG 0.534682 1:-75199911 MsaT004890.1:CDS
ACACTTACATCGGAAAGCTT+AGG 0.535916 1:-75198783 MsaT004890.1:intron
GCGATGTTGTAACTGCCACT+AGG 0.538385 1:+75198231 None:intergenic
GTAGTATTGTTCGTGATGTG+AGG 0.542989 1:-75200053 MsaT004890.1:CDS
CACGAAGAAGCTCCGGTGGA+AGG 0.548406 1:+75199899 None:intergenic
ACCAGGCTCGAGGGATGAAG+CGG 0.552625 1:+75198134 None:intergenic
TCCGGTGGAAGGCTAGCCCA+TGG 0.553438 1:+75199910 None:intergenic
TAAGGCTTCCTGGACATCAA+AGG 0.555010 1:-75199993 MsaT004890.1:CDS
ATTCTTCAGTTCGGTAAAGT+CGG 0.555879 1:-75197748 MsaT004890.1:CDS
TTCGTGGGCCTCTAGTACCA+AGG 0.556399 1:+75198184 None:intergenic
GCTTACCAGGACTGAGGCAA+AGG 0.556568 1:+75199347 None:intergenic
GCTCATTCCCCGCAATCTTG+AGG 0.558110 1:-75198088 MsaT004890.1:CDS
TTACAGCCGGGGTATAGGGA+TGG 0.560354 1:-75199424 MsaT004890.1:intron
ATAGTGCAATTCATCCTTCG+TGG 0.560544 1:+75198168 None:intergenic
ACATATCGCAAAAGCCTGAA+AGG 0.562316 1:+75197684 None:intergenic
ATAACATCACGAAGAAGCTC+CGG 0.562691 1:+75199892 None:intergenic
GGACAACACCACCAGGCTCG+AGG 0.563929 1:+75198124 None:intergenic
CGATGTTGTAACTGCCACTA+GGG 0.565087 1:+75198232 None:intergenic
GTGCTGCGGTCTGCAAGTCG+TGG 0.571719 1:-75199813 MsaT004890.1:CDS
GCAACTGAGAGTACTTGGCC+TGG 0.572741 1:-75199856 MsaT004890.1:CDS
ATTGTTCGTGATGTGAGGGA+TGG 0.573863 1:-75200048 MsaT004890.1:CDS
CCGGTGGAAGGCTAGCCCAT+GGG 0.574926 1:+75199911 None:intergenic
TTGAATGTCCTTGGTACTAG+AGG 0.577348 1:-75198192 MsaT004890.1:CDS
GGCAATGAAGACGAGGAGGA+GGG 0.579076 1:-75197979 MsaT004890.1:CDS
ACTGAAGAATAATCTTGTCA+TGG 0.579174 1:+75197761 None:intergenic
GGCATGAACAACTGCAATGT+TGG 0.579920 1:-75197915 MsaT004890.1:CDS
GCAATGAAGACGAGGAGGAG+GGG 0.583215 1:-75197978 MsaT004890.1:CDS
GACTTGTTCTTAAGAACTAG+AGG 0.583735 1:+75197946 None:intergenic
GACTGAGGCAAAGGAAGAGG+TGG 0.586469 1:+75199356 None:intergenic
TCAACACTCTTGAATACTGT+GGG 0.587893 1:-75199768 MsaT004890.1:CDS
CAGTTATACAGAACAGCCCA+TGG 0.589286 1:-75199927 MsaT004890.1:CDS
CGACGGAGCAGGTCCTGTTG+CGG 0.591288 1:+75197801 None:intergenic
GGAAAGAATCCTCAAGATTG+CGG 0.599386 1:+75198079 None:intergenic
TAGTGCAATTCATCCTTCGT+GGG 0.600652 1:+75198169 None:intergenic
TGTTGGTGCCTTAACTTTAG+GGG 0.601599 1:-75197898 MsaT004890.1:CDS
CAACTGAGTTTAGCAGCTGT+AGG 0.602372 1:-75198023 MsaT004890.1:CDS
GTTATCGATCGATCGTGCAA+AGG 0.614484 1:+75198047 None:intergenic
GACAACACCACCAGGCTCGA+GGG 0.616356 1:+75198125 None:intergenic
GTCAACACTCTTGAATACTG+TGG 0.616544 1:-75199769 MsaT004890.1:CDS
TAGTATTGTTCGTGATGTGA+GGG 0.622920 1:-75200052 MsaT004890.1:CDS
GGACTATCGATACCCTCTCT+CGG 0.623014 1:-75197707 MsaT004890.1:CDS
AAAGCCTGAAAGGCCGAGAG+AGG 0.624015 1:+75197694 None:intergenic
TCAGTTCGGTAAAGTCGGCA+AGG 0.626177 1:-75197743 MsaT004890.1:CDS
AGCTGAGCATTGTTATAGGG+AGG 0.628040 1:+75198309 None:intergenic
GCAACCACATGCTTACGACC+AGG 0.629724 1:+75199838 None:intergenic
AGATCCAGTAACACTTACAT+CGG 0.632514 1:-75198793 MsaT004890.1:CDS
CAGGCTCGAGGGATGAAGCG+GGG 0.635955 1:+75198136 None:intergenic
GCATGTGGTTGCTTGTGCTG+CGG 0.636839 1:-75199827 MsaT004890.1:CDS
TGGCAGTTACAACATCGCCC+AGG 0.637922 1:-75198226 MsaT004890.1:CDS
ATCGTGCAAAGGATAAACTA+CGG 0.641987 1:+75198058 None:intergenic
ATTCAACTCATAGGAGACCT+GGG 0.643668 1:+75198209 None:intergenic
ACATCACGAAGAAGCTCCGG+TGG 0.646205 1:+75199895 None:intergenic
AAGCCTGAAAGGCCGAGAGA+GGG 0.649007 1:+75197695 None:intergenic
CGGCAAGGATATGTTTACGA+TGG 0.649091 1:-75197728 MsaT004890.1:CDS
GCTTCATCCCTCGAGCCTGG+TGG 0.650835 1:-75198132 MsaT004890.1:CDS
AGCTGGCAATGAAGACGAGG+AGG 0.651988 1:-75197983 MsaT004890.1:CDS
ATGGATTTGGAAGCTTATCG+AGG 0.653763 1:-75200029 MsaT004890.1:CDS
GGGAGCTGGCAATGAAGACG+AGG 0.656703 1:-75197986 MsaT004890.1:CDS
GGGCTGTTCTGTATAACTGG+AGG 0.657426 1:+75199931 None:intergenic
AAAGAATCCTCAAGATTGCG+GGG 0.658101 1:+75198081 None:intergenic
AGTTATACAGAACAGCCCAT+GGG 0.669811 1:-75199926 MsaT004890.1:CDS
TTGGCCTGGTCGTAAGCATG+TGG 0.677764 1:-75199842 MsaT004890.1:CDS
AATCTACGGCTGCGTCCAGG+AGG 0.679597 1:+75198282 None:intergenic
GTTTCACCAAAGGTCCCTAG+TGG 0.689726 1:-75198246 MsaT004890.1:CDS
GATTTGGAAGCTTATCGAGG+CGG 0.694204 1:-75200026 MsaT004890.1:CDS
ATGGGTCCATCCCTATACCC+CGG 0.704486 1:+75199418 None:intergenic
AGGCTTCCTGGACATCAAAG+GGG 0.710405 1:-75199991 MsaT004890.1:CDS
AGTAAAGCTTACCAGGACTG+AGG 0.714219 1:+75199341 None:intergenic
TCACCTGCTTCAGAGAAACA+GGG 0.717293 1:+75199734 None:intergenic
TTGGTACTAGAGGCCCACGA+AGG 0.736988 1:-75198182 MsaT004890.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 75197648 75200085 75197648 ID=MsaG004890
Chr1 mRNA 75197648 75200085 75197648 ID=MsaT004890.1;Parent=MsaG004890
Chr1 exon 75197648 75198374 75197648 ID=MsaT004890.1.exon4;Parent=MsaT004890.1
Chr1 CDS 75197648 75198374 75197648 ID=cds.MsaT004890.1;Parent=MsaT004890.1
Chr1 exon 75198784 75198916 75198784 ID=MsaT004890.1.exon3;Parent=MsaT004890.1
Chr1 CDS 75198784 75198916 75198784 ID=cds.MsaT004890.1;Parent=MsaT004890.1
Chr1 exon 75199353 75199440 75199353 ID=MsaT004890.1.exon2;Parent=MsaT004890.1
Chr1 CDS 75199353 75199440 75199353 ID=cds.MsaT004890.1;Parent=MsaT004890.1
Chr1 exon 75199738 75200085 75199738 ID=MsaT004890.1.exon1;Parent=MsaT004890.1
Chr1 CDS 75199738 75200085 75199738 ID=cds.MsaT004890.1;Parent=MsaT004890.1
Gene Sequence

>MsaT004890.1

ATGTCATTTCGTAGTATTGTTCGTGATGTGAGGGATGGATTTGGAAGCTTATCGAGGCGGAGTTTTGAGGTAAGGCTTCCTGGACATCAAAGGGGCAAGTCGCGTAGTTCGGTCCATGAGTTGCATGATCAACCTCCAGTTATACAGAACAGCCCATGGGCTAGCCTTCCACCGGAGCTTCTTCGTGATGTTATTAAGAGATTGGAAGCAACTGAGAGTACTTGGCCTGGTCGTAAGCATGTGGTTGCTTGTGCTGCGGTCTGCAAGTCGTGGAGAGAAATGTGCAAAGAAATTGTCAACACTCTTGAATACTGTGGGAAGATTACTTTCCCTGTTTCTCTGAAGCAGCCGGGGTATAGGGATGGACCCATCCAGTGTTTCATCAAAAGAGACAAATCTAAGCTGACATACCACCTCTTCCTTTGCCTCAGTCCTGCATTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGTACCAGAAGAACGACTTGCACAGAGTATGTTATATCAATGGATGCAGATAACATATCAAGATCCAGTAACACTTACATCGGAAAGCTTAGGTCTAATTTTCTTGGAACCAAGTTCATAATTTATGATACACAGCCTCCCTATAACAATGCTCAGCTGGCTCCTCCTGGACGCAGCCGTAGATTCAACTCGAAAAAAGTTTCACCAAAGGTCCCTAGTGGCAGTTACAACATCGCCCAGGTCTCCTATGAGTTGAATGTCCTTGGTACTAGAGGCCCACGAAGGATGAATTGCACTATGCACTCAATCCCCGCTTCATCCCTCGAGCCTGGTGGTGTTGTCCCAGGCCAGCCAGAGCTCATTCCCCGCAATCTTGAGGATTCTTTCCGTAGTTTATCCTTTGCACGATCGATCGATAACTCAACTGAGTTTAGCAGCTGTAGGTTCTCAGATATAATGGGAGCTGGCAATGAAGACGAGGAGGAGGGGAAGGAGAGACCTCTAGTTCTTAAGAACAAGTCTCCTAGATGGCATGAACAACTGCAATGTTGGTGCCTTAACTTTAGGGGACGTGTGACTGTTGCGTCTGTTAAGAACTTTCAGCTGATCGCTGCAGCACAGCCTGCACCTGTCGCTCCTCATGCCGCAACAGGACCTGCTCCGTCGCAGCCAGCACAGTCAGACCATGACAAGATTATTCTTCAGTTCGGTAAAGTCGGCAAGGATATGTTTACGATGGACTATCGATACCCTCTCTCGGCCTTTCAGGCTTTTGCGATATGTTTGACTAGCTTTGACACAAAACTTGCATGTGAATAG

Protein sequence

>MsaT004890.1

MSFRSIVRDVRDGFGSLSRRSFEVRLPGHQRGKSRSSVHELHDQPPVIQNSPWASLPPELLRDVIKRLEATESTWPGRKHVVACAAVCKSWREMCKEIVNTLEYCGKITFPVSLKQPGYRDGPIQCFIKRDKSKLTYHLFLCLSPALLVENGKFLLSAKRTRRTTCTEYVISMDADNISRSSNTYIGKLRSNFLGTKFIIYDTQPPYNNAQLAPPGRSRRFNSKKVSPKVPSGSYNIAQVSYELNVLGTRGPRRMNCTMHSIPASSLEPGGVVPGQPELIPRNLEDSFRSLSFARSIDNSTEFSSCRFSDIMGAGNEDEEEGKERPLVLKNKSPRWHEQLQCWCLNFRGRVTVASVKNFQLIAAAQPAPVAPHAATGPAPSQPAQSDHDKIILQFGKVGKDMFTMDYRYPLSAFQAFAICLTSFDTKLACE*