AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026950

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026950 MtrunA17_Chr5g0416581 96.348 356 10 2 1 353 1 356 0.0 702
MsaG026950 MtrunA17_Chr4g0060601 47.955 440 151 19 16 414 27 429 1.28e-90 280
MsaG026950 MtrunA17_Chr2g0277361 67.188 128 35 2 21 148 91 211 7.33e-50 174
MsaG026950 MtrunA17_Chr7g0224581 59.677 124 33 3 55 178 38 144 1.79e-39 142
MsaG026950 MtrunA17_Chr1g0211941 71.277 94 18 2 50 139 17 105 2.23e-38 139
MsaG026950 MtrunA17_Chr8g0350941 79.221 77 16 0 63 139 76 152 5.68e-37 137
MsaG026950 MtrunA17_Chr1g0164881 78.205 78 12 1 58 135 28 100 3.70e-36 132
MsaG026950 MtrunA17_Chr1g0180911 79.412 68 14 0 62 129 44 111 1.20e-33 125
MsaG026950 MtrunA17_Chr1g0204001 67.059 85 28 0 64 148 61 145 4.33e-33 127
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026950 AT3G47620.1 45.808 334 114 13 58 352 108 413 1.29e-51 181
MsaG026950 AT1G69690.1 71.429 126 17 2 16 136 10 121 2.24e-51 176
MsaG026950 AT1G58100.1 88.235 85 10 0 64 148 57 141 1.44e-46 165
MsaG026950 AT1G35560.1 88.372 86 9 1 63 148 52 136 2.06e-44 157
MsaG026950 AT1G72010.1 87.342 79 10 0 64 142 60 138 7.42e-42 152
MsaG026950 AT2G45680.1 76.471 85 20 0 60 144 68 152 1.59e-38 142
MsaG026950 AT5G51910.1 74.699 83 21 0 57 139 47 129 1.59e-37 138
MsaG026950 AT5G51910.2 74.699 83 21 0 57 139 47 129 1.59e-37 138
MsaG026950 AT5G23280.1 74.390 82 16 1 58 139 35 111 1.09e-36 134
MsaG026950 AT3G27010.2 54.688 128 42 2 17 128 12 139 1.10e-35 134
MsaG026950 AT3G27010.1 54.688 128 42 2 17 128 12 139 1.10e-35 134
MsaG026950 AT5G08330.1 73.494 83 17 1 58 140 27 104 2.69e-35 130
MsaG026950 AT2G37000.1 77.419 62 14 0 65 126 41 102 1.05e-27 108
MsaG026950 AT5G41030.1 58.228 79 27 1 51 129 58 130 1.49e-26 107
MsaG026950 AT1G58100.2 62.353 85 8 1 64 148 57 117 7.37e-24 102
MsaG026950 AT3G45150.1 61.290 62 24 0 64 125 14 75 2.11e-21 90.9

Find 129 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAATTATTATCACAAAATA+TGG 0.184669 5:+32031500 MsaT026950.1:CDS
TAAAAGCTGAAGAGGGAAAT+TGG 0.195439 5:-32030767 None:intergenic
ATTCCTTCTGTTGGAAATAA+TGG 0.210892 5:+32031663 MsaT026950.1:CDS
GGCAGTACAACCATCGTTTC+CGG 0.257678 5:-32030845 None:intergenic
CCTGAACCTAGTTGACTTCC+AGG 0.283489 5:-32031762 None:intergenic
GTAATGGAAATGATCCAATT+TGG 0.290902 5:+32031637 MsaT026950.1:CDS
CTGCTGGTCTGATGAGATTA+TGG 0.298113 5:-32030866 None:intergenic
ACAGAAGGAATTGCCCAAAT+TGG 0.300472 5:-32031651 None:intergenic
AAGCCGCCGGCATGCGGATC+CGG 0.301056 5:-32030954 None:intergenic
CTTCAAATACGGCAGCGTTT+TGG 0.303402 5:+32031571 MsaT026950.1:CDS
CTTCCAGGCATAAGATTCAT+TGG 0.326078 5:-32031747 None:intergenic
GGTGCTCATCATCAAAATAA+TGG 0.332278 5:+32030730 MsaT026950.1:CDS
AACCAAGGTGTTAATGTTAA+TGG 0.358090 5:+32031612 MsaT026950.1:CDS
GTTCCAGCTCACGCGTGAGC+TGG 0.358435 5:+32030990 MsaT026950.1:CDS
GGCCGGAATTGTTCCTGTTC+CGG 0.366988 5:-32031082 None:intergenic
AAGCATACTCAGATTGCTTT+CGG 0.377552 5:-32031826 None:intergenic
GGAAATAATGGTTTGTATAG+AGG 0.384692 5:+32031675 MsaT026950.1:CDS
GTCATCGCCGCTACCGGAAC+AGG 0.388365 5:+32031069 MsaT026950.1:CDS
ACCGCCACCGCCTCCGGTGG+TGG 0.389589 5:+32031411 MsaT026950.1:CDS
GGTGGAGGAGGAGGAGGTGG+TGG 0.394715 5:+32031795 MsaT026950.1:CDS
GATTGAGTGGCTGCTTCAAC+AGG 0.397983 5:+32031035 MsaT026950.1:CDS
TACAAGCAAAACAAGAGCTT+CGG 0.403614 5:+32031379 MsaT026950.1:CDS
TCAGGAATCGTCGGCGGTGG+AGG 0.405826 5:+32031780 MsaT026950.1:CDS
GGCGGTGGAGGAGGAGGAGG+TGG 0.408059 5:+32031792 MsaT026950.1:CDS
TAATGGAAATGATCCAATTT+GGG 0.409142 5:+32031638 MsaT026950.1:CDS
TCCTTCGTCGAAGCGCGCTT+CGG 0.409305 5:-32030901 None:intergenic
AGCTTAGAAACCGGGCTGAA+TGG 0.413702 5:+32031220 MsaT026950.1:CDS
GTCGAAGCGCGCTTCGGCGG+AGG 0.423149 5:-32030895 None:intergenic
TTTGGATGGTAACTGGTAAT+GGG 0.423705 5:+32031589 MsaT026950.1:CDS
CGTCGGCTCAGCTTAGAAAC+CGG 0.427388 5:+32031211 MsaT026950.1:CDS
GACCGGCACACGAAGGTAGA+TGG 0.427587 5:+32030922 MsaT026950.1:CDS
TTCAAGTCATGCTTCAAATA+CGG 0.432008 5:+32031560 MsaT026950.1:CDS
TACCGGAACAGGAACAATTC+CGG 0.434355 5:+32031080 MsaT026950.1:CDS
AACATTGCTGATAAAGAAGA+AGG 0.434505 5:-32031327 None:intergenic
AAAAGCTGAAGAGGGAAATT+GGG 0.437875 5:-32030766 None:intergenic
AAGCAATCTGAGTATGCTTT+CGG 0.438504 5:+32031830 MsaT026950.1:CDS
ATCGTCGGCGGTGGAGGAGG+AGG 0.438624 5:+32031786 MsaT026950.1:CDS
GGAATCGTCGGCGGTGGAGG+AGG 0.439995 5:+32031783 MsaT026950.1:CDS
GAGGGAAATTGGGTCTGCTT+CGG 0.440519 5:-32030756 None:intergenic
GCTTAGAAACCGGGCTGAAT+GGG 0.442453 5:+32031221 MsaT026950.1:CDS
ATTTGGGCAATTCCTTCTGT+TGG 0.444072 5:+32031654 MsaT026950.1:CDS
CAACATCACGGCGGAGGTGG+AGG 0.444436 5:+32031906 MsaT026950.1:CDS
GGAGCTATGTCATCTCCTAA+TGG 0.444498 5:+32031696 MsaT026950.1:CDS
GGCGGAGGATTTGAATTGTT+AGG 0.445132 5:+32031432 MsaT026950.1:CDS
ATTCGTCGAAATCTGCCTAT+AGG 0.448820 5:-32031862 None:intergenic
GTCCCAGCTCACGCGTGAGC+TGG 0.449479 5:-32030993 None:intergenic
ACCGCCTCCGGTGGTGGCGG+AGG 0.455654 5:+32031417 MsaT026950.1:CDS
CCGGTAGCGGCGATGACAGC+TGG 0.456062 5:-32031063 None:intergenic
GCCGAAGCGCGCTTCGACGA+AGG 0.457337 5:+32030900 MsaT026950.1:CDS
AATATATCTCTTAGAAGCTC+AGG 0.459346 5:+32031120 MsaT026950.1:CDS
CCTGGAAGTCAACTAGGTTC+AGG 0.459463 5:+32031762 MsaT026950.1:CDS
TTTGTTCTTCTGAGACATCT+AGG 0.461674 5:-32030810 None:intergenic
TCCTCCGCCACCACCGGAGG+CGG 0.462046 5:-32031418 None:intergenic
TATTTGTTACAATCAAATGT+AGG 0.463489 5:+32031528 MsaT026950.1:CDS
ACAAGCAAAACAAGAGCTTC+GGG 0.465254 5:+32031380 MsaT026950.1:CDS
GCCACCACCGGAGGCGGTGG+CGG 0.466242 5:-32031412 None:intergenic
GTTAATGTTAATGGTGGTAA+TGG 0.467651 5:+32031621 MsaT026950.1:CDS
GAAAACACCGCCACCGCCTC+CGG 0.468070 5:+32031405 MsaT026950.1:CDS
TTCCAGCTCACGCGTGAGCT+GGG 0.468128 5:+32030991 MsaT026950.1:CDS
GTCCATCTACCTTCGTGTGC+CGG 0.473163 5:-32030924 None:intergenic
CACCATTAACATTAACACCT+TGG 0.473185 5:-32031614 None:intergenic
CTTATGCCTGGAAGTCAACT+AGG 0.475042 5:+32031756 MsaT026950.1:CDS
TCCGCCACCACCGGAGGCGG+TGG 0.475264 5:-32031415 None:intergenic
AATTGTTCCTGTTCCGGTAG+CGG 0.476759 5:-32031076 None:intergenic
CATCACGGCGGAGGTGGAGG+AGG 0.477742 5:+32031909 MsaT026950.1:CDS
GTCGGCGGTGGAGGAGGAGG+AGG 0.480664 5:+32031789 MsaT026950.1:CDS
GTATTTGAAGCATGACTTGA+AGG 0.481871 5:-32031558 None:intergenic
AGGTAGATGGACGAGGCCGC+CGG 0.488344 5:+32030935 MsaT026950.1:CDS
CGGCACAAGCCGCCGGCATG+CGG 0.489708 5:-32030960 None:intergenic
TCAGATTCAGATGGAAGCAT+AGG 0.491711 5:+32031456 MsaT026950.1:CDS
TTCATGAAATGAAATCCATT+AGG 0.492064 5:-32031711 None:intergenic
GGAGGTGGAGGAGGAGATGA+TGG 0.493240 5:+32031918 MsaT026950.1:CDS
GGACAACATCACGGCGGAGG+TGG 0.494792 5:+32031903 MsaT026950.1:CDS
CCAGCTGTCATCGCCGCTAC+CGG 0.502854 5:+32031063 MsaT026950.1:CDS
TTGTAGCCGATGATTCTAGA+AGG 0.503590 5:+32031277 MsaT026950.1:CDS
CCGCCGGCATGCGGATCCGG+CGG 0.503622 5:-32030951 None:intergenic
ATTTGTTACAATCAAATGTA+GGG 0.504618 5:+32031529 MsaT026950.1:CDS
GACGCGGAGGAGAACGAACT+AGG 0.505339 5:-32031192 None:intergenic
TATATTAAGTGAAGTAAAGT+TGG 0.506746 5:-32031103 None:intergenic
AGCGCGCTTCGACGAAGGAC+CGG 0.508882 5:+32030905 MsaT026950.1:CDS
GCCACCGCCTCCGGTGGTGG+CGG 0.515067 5:+32031414 MsaT026950.1:CDS
AGGCCGCCGGATCCGCATGC+CGG 0.515715 5:+32030948 MsaT026950.1:CDS
TTTCGGCTATGAATGCCTAT+AGG 0.521533 5:+32031847 MsaT026950.1:CDS
CCGCCGGATCCGCATGCCGG+CGG 0.526015 5:+32030951 MsaT026950.1:CDS
GGTTCAGGAATCGTCGGCGG+TGG 0.526878 5:+32031777 MsaT026950.1:CDS
ACTCTGGCGGCACAAGCCGC+CGG 0.531379 5:-32030967 None:intergenic
TTCGTCGAAGCGCGCTTCGG+CGG 0.531746 5:-32030898 None:intergenic
GAATGGTATGTCAGATTCGT+CGG 0.533559 5:+32031881 MsaT026950.1:CDS
TTCAAATCCTCCGCCACCAC+CGG 0.535080 5:-32031424 None:intergenic
TCTCCAATGAATCTTATGCC+TGG 0.535265 5:+32031744 MsaT026950.1:CDS
GAATTATTATCACAAAATAT+GGG 0.535940 5:+32031501 MsaT026950.1:CDS
AGCACGATCATGGAATTTGA+AGG 0.546398 5:+32030709 None:intergenic
AAACCATTATTTCCAACAGA+AGG 0.547272 5:-32031666 None:intergenic
GAAGCATAGGGAGGAAAAGA+AGG 0.552363 5:+32031469 MsaT026950.1:CDS
AATGGTATGTCAGATTCGTC+GGG 0.560895 5:+32031882 MsaT026950.1:CDS
TTAAGTGAAGTAAAGTTGGC+CGG 0.565359 5:-32031099 None:intergenic
TCGGGACAACATCACGGCGG+AGG 0.573309 5:+32031900 MsaT026950.1:CDS
ACTACTCCTTCTAGAATCAT+CGG 0.573862 5:-32031283 None:intergenic
TCAAGCAGTCAGCATTCCTA+AGG 0.577498 5:+32031948 MsaT026950.1:CDS
GAGTAGTAATTCTACCATGT+TGG 0.578347 5:+32031299 MsaT026950.1:CDS
TTGTTAGGTTCAGATTCAGA+TGG 0.580560 5:+32031447 MsaT026950.1:CDS
ACGCGTGAGCTGGAACACTC+TGG 0.580832 5:-32030983 None:intergenic
CAGATTCAGATGGAAGCATA+GGG 0.583229 5:+32031457 MsaT026950.1:CDS
CAACTAGGTTCAGGAATCGT+CGG 0.583744 5:+32031771 MsaT026950.1:CDS
TAGTTCTGTCCCATTCAGCC+CGG 0.583900 5:-32031230 None:intergenic
GAACAAACTTGTACAACCAC+CGG 0.588907 5:+32030826 MsaT026950.1:CDS
AAATCCTCCGCCACCACCGG+AGG 0.591864 5:-32031421 None:intergenic
GTCGGCTCAGCTTAGAAACC+GGG 0.598655 5:+32031212 MsaT026950.1:CDS
TATAGGCAGATTTCGACGAA+TGG 0.600746 5:+32031864 MsaT026950.1:CDS
CAAGGTGTTAATGTTAATGG+TGG 0.607105 5:+32031615 MsaT026950.1:CDS
ATAGTGAGACGGCGCAGACA+TGG 0.611900 5:-32031148 None:intergenic
GAGCTGGGACATAAATCAGA+TGG 0.615252 5:+32031006 MsaT026950.1:CDS
TGTACAACCACCGGAAACGA+TGG 0.616353 5:+32030835 MsaT026950.1:CDS
AACACCGCCACCGCCTCCGG+TGG 0.620875 5:+32031408 MsaT026950.1:CDS
CACACGAAGGTAGATGGACG+AGG 0.621520 5:+32030928 MsaT026950.1:CDS
ACGCGGAGGAGAACGAACTA+GGG 0.632379 5:-32031191 None:intergenic
GATTCGTCGGGACAACATCA+CGG 0.642960 5:+32031894 MsaT026950.1:CDS
GTTTCTAAGCTGAGCCGACG+CGG 0.645764 5:-32031208 None:intergenic
TAGTTCGTTCTCCTCCGCGT+CGG 0.648405 5:+32031194 MsaT026950.1:CDS
AGTACAACCATCGTTTCCGG+TGG 0.648819 5:-32030842 None:intergenic
GTAACTGGTAATGGGAACCA+AGG 0.670023 5:+32031597 MsaT026950.1:CDS
ATTCAGATGGAAGCATAGGG+AGG 0.674907 5:+32031460 MsaT026950.1:CDS
TCTAAGCTGAGCCGACGCGG+AGG 0.679234 5:-32031205 None:intergenic
TTACCTCGAAAATAGTGAGA+CGG 0.686470 5:-32031159 None:intergenic
CAGATGGTGAGACGATTGAG+TGG 0.696529 5:+32031022 MsaT026950.1:CDS
GACGAAGGACCGGCACACGA+AGG 0.699063 5:+32030915 MsaT026950.1:CDS
CTAGGTTCAGGAATCGTCGG+CGG 0.701967 5:+32031774 MsaT026950.1:CDS
CGTGAGCTGGAACACTCTGG+CGG 0.708891 5:-32030980 None:intergenic
TCGTCGGGACAACATCACGG+CGG 0.836229 5:+32031897 MsaT026950.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 32030718 32031968 32030718 ID=MsaG026950
Chr5 mRNA 32030718 32031968 32030718 ID=MsaT026950.1;Parent=MsaG026950
Chr5 exon 32030718 32031968 32030718 ID=MsaT026950.1.exon1;Parent=MsaT026950.1
Chr5 CDS 32030718 32031968 32030718 ID=cds.MsaT026950.1;Parent=MsaT026950.1
Gene Sequence

>MsaT026950.1

ATGGAATTTGAAGGTGCTCATCATCAAAATAATGGAATCCGAAGCAGACCCAATTTCCCTCTTCAGCTTTTAGAGAAAAAAGACGACAACATCCTAGATGTCTCAGAAGAACAAACTTGTACAACCACCGGAAACGATGGTTGTACTGCCATAATCTCATCAGACCAGCAGAAAAAACCTCCGCCGAAGCGCGCTTCGACGAAGGACCGGCACACGAAGGTAGATGGACGAGGCCGCCGGATCCGCATGCCGGCGGCTTGTGCCGCCAGAGTGTTCCAGCTCACGCGTGAGCTGGGACATAAATCAGATGGTGAGACGATTGAGTGGCTGCTTCAACAGGCAGAACCAGCTGTCATCGCCGCTACCGGAACAGGAACAATTCCGGCCAACTTTACTTCACTTAATATATCTCTTAGAAGCTCAGGCTCAACCATGTCTGCGCCGTCTCACTATTTTCGAGGTAACTACTTTAACCCTAGTTCGTTCTCCTCCGCGTCGGCTCAGCTTAGAAACCGGGCTGAATGGGACAGAACTATGAACATGAACATGAACATGAACGTTGTAGCCGATGATTCTAGAAGGAGTAGTAATTCTACCATGTTGGAAAATCCTTCTTCTTTATCAGCAATGTTGAATTTCAACAACGTGCAAAATGCTATTCTACAAGCAAAACAAGAGCTTCGGGAAGAAAACACCGCCACCGCCTCCGGTGGTGGCGGAGGATTTGAATTGTTAGGTTCAGATTCAGATGGAAGCATAGGGAGGAAAAGAAGGTCAGAGCAAGAATTATTATCACAAAATATGGGAAGTTATTTGTTACAATCAAATGTAGGGTCACTTCCTTCAAGTCATGCTTCAAATACGGCAGCGTTTTGGATGGTAACTGGTAATGGGAACCAAGGTGTTAATGTTAATGGTGGTAATGGAAATGATCCAATTTGGGCAATTCCTTCTGTTGGAAATAATGGTTTGTATAGAGGAGCTATGTCATCTCCTAATGGATTTCATTTCATGAATTTTGCTGCATCTCCAATGAATCTTATGCCTGGAAGTCAACTAGGTTCAGGAATCGTCGGCGGTGGAGGAGGAGGAGGTGGTGGTATTTTAGCCGAAAGCAATCTGAGTATGCTTTCGGCTATGAATGCCTATAGGCAGATTTCGACGAATGGTATGTCAGATTCGTCGGGACAACATCACGGCGGAGGTGGAGGAGGAGATGATGGACATGACTCAAGCAGTCAGCATTCCTAA
Protein sequence

>MsaT026950.1

MEFEGAHHQNNGIRSRPNFPLQLLEKKDDNILDVSEEQTCTTTGNDGCTAIISSDQQKKPPPKRASTKDRHTKVDGRGRRIRMPAACAARVFQLTRELGHKSDGETIEWLLQQAEPAVIAATGTGTIPANFTSLNISLRSSGSTMSAPSHYFRGNYFNPSSFSSASAQLRNRAEWDRTMNMNMNMNVVADDSRRSSNSTMLENPSSLSAMLNFNNVQNAILQAKQELREENTATASGGGGGFELLGSDSDGSIGRKRRSEQELLSQNMGSYLLQSNVGSLPSSHASNTAAFWMVTGNGNQGVNVNGGNGNDPIWAIPSVGNNGLYRGAMSSPNGFHFMNFAASPMNLMPGSQLGSGIVGGGGGGGGGILAESNLSMLSAMNAYRQISTNGMSDSSGQHHGGGGGGDDGHDSSSQHS*