AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010498

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010498 MtrunA17_Chr2g0325171 99.088 329 3 0 1 329 1 329 0.0 674
MsaG010498 MtrunA17_Chr4g0040921 53.846 338 113 12 3 314 1 321 6.62e-105 310
MsaG010498 MtrunA17_Chr8g0360441 42.574 404 144 13 7 329 37 433 1.78e-79 248
MsaG010498 MtrunA17_Chr2g0316391 40.294 340 131 11 7 326 3 290 1.75e-51 172
MsaG010498 MtrunA17_Chr8g0376571 72.059 68 19 0 18 85 55 122 8.02e-26 107
MsaG010498 MtrunA17_Chr7g0219461 62.162 74 28 0 18 91 51 124 1.57e-24 102
MsaG010498 MtrunA17_Chr6g0454781 58.824 85 27 2 3 87 33 109 2.40e-23 98.6
MsaG010498 MtrunA17_Chr4g0061561 61.765 68 26 0 18 85 51 118 1.53e-21 93.2
MsaG010498 MtrunA17_Chr3g0086961 58.824 68 28 0 18 85 51 118 4.55e-20 90.1
MsaG010498 MtrunA17_Chr6g0456881 50.746 67 33 0 18 84 120 186 5.67e-17 81.3
MsaG010498 MtrunA17_Chr1g0205131 53.333 60 28 0 23 82 108 167 1.04e-16 80.5
MsaG010498 MtrunA17_Chr7g0220931 54.386 57 26 0 26 82 122 178 7.64e-15 74.7
MsaG010498 MtrunA17_Chr4g0062691 49.206 63 32 0 20 82 128 190 1.94e-14 73.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010498 AT3G15030.2 40.704 398 147 13 8 326 29 416 3.12e-73 232
MsaG010498 AT3G15030.4 40.704 398 147 13 8 326 29 416 3.12e-73 232
MsaG010498 AT3G15030.3 40.704 398 147 13 8 326 29 416 3.12e-73 232
MsaG010498 AT3G15030.1 40.704 398 147 13 8 326 29 416 3.12e-73 232
MsaG010498 AT1G53230.1 43.750 368 152 13 8 329 33 391 4.94e-69 221
MsaG010498 AT1G53230.2 43.750 368 152 13 8 329 33 391 4.94e-69 221
MsaG010498 AT2G31070.1 47.410 251 82 12 1 228 1 224 1.20e-53 180
MsaG010498 AT4G18390.1 57.447 94 33 1 18 111 36 122 2.22e-27 110
MsaG010498 AT4G18390.2 57.447 94 33 1 18 111 36 122 2.22e-27 110
MsaG010498 AT3G02150.1 61.905 84 27 1 3 86 58 136 2.68e-24 100
MsaG010498 AT3G02150.2 61.905 84 27 1 3 86 58 136 4.24e-24 101
MsaG010498 AT1G30210.2 53.763 93 35 2 18 109 44 129 6.05e-23 97.8
MsaG010498 AT1G30210.1 53.763 93 35 2 18 109 44 129 6.05e-23 97.8
MsaG010498 AT5G60970.1 60.000 70 25 1 18 87 57 123 4.77e-21 92.8
MsaG010498 AT5G08070.2 58.333 72 28 1 18 87 27 98 7.43e-21 90.1
MsaG010498 AT5G08070.1 58.333 72 28 1 18 87 27 98 7.43e-21 90.1
MsaG010498 AT1G68800.2 40.659 91 54 0 20 110 108 198 2.67e-18 85.1
MsaG010498 AT1G68800.1 40.659 91 54 0 20 110 108 198 3.22e-18 84.7
MsaG010498 AT1G67260.2 54.545 66 30 0 19 84 82 147 3.43e-18 84.7
MsaG010498 AT1G67260.3 54.545 66 30 0 19 84 82 147 3.43e-18 84.7
MsaG010498 AT1G67260.1 54.545 66 30 0 19 84 82 147 4.17e-18 84.3
MsaG010498 AT3G18550.3 50.794 63 31 0 20 82 144 206 2.96e-14 73.6
MsaG010498 AT3G18550.2 50.000 64 32 0 19 82 143 206 3.06e-14 73.6
MsaG010498 AT3G18550.1 50.000 64 32 0 19 82 143 206 3.07e-14 73.6
MsaG010498 AT3G18550.4 50.000 64 32 0 19 82 143 206 3.07e-14 73.6

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTAACTCTTCTGTTGTATT+TGG 0.170835 2:-74012723 None:intergenic
TATGAATAGAACCGGGTTTA+TGG 0.199355 2:+74013121 MsaT010498.1:CDS
GTTAATTCGCCTGCGTTTCT+AGG 0.251584 2:+74013143 MsaT010498.1:CDS
TCTTCTGTTGTATTTGGAAT+TGG 0.296395 2:-74012717 None:intergenic
ATTCCCCAAGCTTCTATCTT+TGG 0.299538 2:+74013296 MsaT010498.1:CDS
CACCATAACCATAACCATTC+AGG 0.316779 2:+74012846 MsaT010498.1:CDS
TGTATTCCTGCTAGAATTCA+AGG 0.342553 2:+74013353 MsaT010498.1:CDS
GATTTGATGCTAATTATAAC+AGG 0.345674 2:+74013075 MsaT010498.1:CDS
TGTTGATTGGCTCATCAAAA+AGG 0.366611 2:+74012650 MsaT010498.1:CDS
ATTATAACAGGATTGTGAAT+TGG 0.376707 2:+74013087 MsaT010498.1:CDS
TTCAAGGAGGCCACATTGTA+AGG 0.379947 2:+74012487 MsaT010498.1:CDS
GAATGAAACCTGAATGGTTA+TGG 0.404262 2:-74012854 None:intergenic
GCAGAACAATCAGAATCTTC+TGG 0.415389 2:+74012801 MsaT010498.1:CDS
AAGCTTCTATCTTTGGTAGC+AGG 0.417259 2:+74013303 MsaT010498.1:CDS
TGCAGTAGAAACAAATGAAA+TGG 0.417940 2:+74012770 MsaT010498.1:CDS
AGAAGAAGAGGATGGCCTTT+CGG 0.418415 2:-74013402 None:intergenic
AACAACTCAACACAGGATCT+TGG 0.421186 2:+74012978 MsaT010498.1:CDS
TAATTAGCATCAAATCCAAC+AGG 0.428411 2:-74013068 None:intergenic
TTTCGCCATCACTTCGTCCT+TGG 0.430942 2:+74013213 MsaT010498.1:CDS
GCTACCAAAGATAGAAGCTT+GGG 0.431520 2:-74013300 None:intergenic
GGCCACATTGTAAGGGCAAC+AGG 0.434632 2:+74012495 MsaT010498.1:CDS
GATTCACCAACAGAAGTTGT+TGG 0.436409 2:-74012912 None:intergenic
ACAGCTGATATGAATAGAAC+CGG 0.440232 2:+74013113 MsaT010498.1:CDS
CATTTGAAGCTGAATTGTCT+TGG 0.440619 2:-74013019 None:intergenic
TTTCTGTCTGATGCTTTGAC+AGG 0.443796 2:+74013326 MsaT010498.1:CDS
TAGAAAAGACAGACATAGTA+AGG 0.449768 2:+74012518 MsaT010498.1:CDS
GTGATGAGAATTAGAAGAAG+AGG 0.465335 2:-74013414 None:intergenic
AACCTGAATGGTTATGGTTA+TGG 0.467860 2:-74012848 None:intergenic
GGAGAAATAGTTCAAGTTCA+AGG 0.475915 2:+74012471 MsaT010498.1:CDS
GTATTTGGAATTGGATTCCA+TGG 0.482667 2:-74012708 None:intergenic
TCGCCTGCGTTTCTAGGCCA+AGG 0.487784 2:+74013149 MsaT010498.1:CDS
TCCACCGAGGCATCGGCAAT+CGG 0.494584 2:-74013245 None:intergenic
GACCGAGTAAAGCTGTTGAT+TGG 0.496508 2:+74012637 MsaT010498.1:CDS
TGCGTTTCTAGGCCAAGGTT+CGG 0.499180 2:+74013154 MsaT010498.1:CDS
TGCTACCAAAGATAGAAGCT+TGG 0.514624 2:-74013301 None:intergenic
AAATCCAACAGGGTTTGATC+CGG 0.521360 2:-74013057 None:intergenic
TCCTCACCTTGAATTCTAGC+AGG 0.529084 2:-74013359 None:intergenic
ATGATGATCCACCGAGGCAT+CGG 0.529513 2:-74013252 None:intergenic
TATGATGTTCAAGACCGTCT+TGG 0.530862 2:+74012606 MsaT010498.1:CDS
TTGATTGAATGAAACCTGAA+TGG 0.548923 2:-74012860 None:intergenic
TTCTCCGGATCAAACCCTGT+TGG 0.555423 2:+74013053 MsaT010498.1:CDS
GCCTTTCGGAACCAACTCCA+TGG 0.555596 2:-74013388 None:intergenic
TATTCCGATTGCCGATGCCT+CGG 0.561202 2:+74013241 MsaT010498.1:CDS
AGCCAATCAACAGCTTTACT+CGG 0.566559 2:-74012639 None:intergenic
TCCGATTGCCGATGCCTCGG+TGG 0.577071 2:+74013244 MsaT010498.1:CDS
TCATTCCAAGGACGAAGTGA+TGG 0.584749 2:-74013218 None:intergenic
TCGGTCTGTCGTAGCCAAGA+CGG 0.592319 2:-74012620 None:intergenic
GAGGATGAGAGCCATGGAGT+TGG 0.593361 2:+74013377 MsaT010498.1:CDS
TTAATGGGAATGAAGAGCAC+AGG 0.595991 2:+74012447 None:intergenic
TACAACAGAAGAGTTACAAG+AGG 0.598440 2:+74012728 MsaT010498.1:CDS
TCAAGGAGGCCACATTGTAA+GGG 0.607094 2:+74012488 MsaT010498.1:CDS
TACCTGTTGCCCTTACAATG+TGG 0.607186 2:-74012497 None:intergenic
GCCATGGAGTTGGTTCCGAA+AGG 0.607349 2:+74013387 MsaT010498.1:CDS
ATGGGAATGAAGAGCACAGG+AGG 0.615936 2:+74012450 MsaT010498.1:CDS
AATCGAACACGTCGATCACG+AGG 0.616513 2:-74012558 None:intergenic
GAACCTTGGCCTAGAAACGC+AGG 0.621742 2:-74013152 None:intergenic
AGTAAGGTATACACTGCGAA+AGG 0.629171 2:+74012534 MsaT010498.1:CDS
GCAATCGGAATATCATTCCA+AGG 0.637602 2:-74013230 None:intergenic
CAAGGTGAGGATGAGAGCCA+TGG 0.637843 2:+74013371 MsaT010498.1:CDS
TCCTGCTAGAATTCAAGGTG+AGG 0.647750 2:+74013358 MsaT010498.1:CDS
CAGCTGATATGAATAGAACC+GGG 0.655461 2:+74013114 MsaT010498.1:CDS
AAGAACAAACAACTCAACAC+AGG 0.662739 2:+74012971 MsaT010498.1:CDS
AATTAGCATCAAATCCAACA+GGG 0.667862 2:-74013067 None:intergenic
TGAGAATTAGAAGAAGAGGA+TGG 0.669324 2:-74013410 None:intergenic
CTACCAAAGATAGAAGCTTG+GGG 0.680977 2:-74013299 None:intergenic
AACTTGATCAGCTTCCACCA+TGG 0.681586 2:+74012691 MsaT010498.1:CDS
AGGCGAATTAACCATAAACC+CGG 0.688672 2:-74013132 None:intergenic
TTTGGAATTGGATTCCATGG+TGG 0.695311 2:-74012705 None:intergenic
GAAATAGTTCAAGTTCAAGG+AGG 0.712935 2:+74012474 MsaT010498.1:CDS
GTGATTATGATGATCCACCG+AGG 0.797740 2:-74013258 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 74012450 74013439 74012450 ID=MsaG010498
Chr2 mRNA 74012450 74013439 74012450 ID=MsaT010498.1;Parent=MsaG010498
Chr2 exon 74012450 74013439 74012450 ID=MsaT010498.1.exon1;Parent=MsaT010498.1
Chr2 CDS 74012450 74013439 74012450 ID=cds.MsaT010498.1;Parent=MsaT010498.1
Gene Sequence

>MsaT010498.1

ATGGGAATGAAGAGCACAGGAGGAGAAATAGTTCAAGTTCAAGGAGGCCACATTGTAAGGGCAACAGGTAGAAAAGACAGACATAGTAAGGTATACACTGCGAAAGGTCCTCGTGATCGACGTGTTCGATTATCAGCGCACACAGCAATTCAATTCTATGATGTTCAAGACCGTCTTGGCTACGACAGACCGAGTAAAGCTGTTGATTGGCTCATCAAAAAGGCTAAGTCTGCTATTGACAAACTTGATCAGCTTCCACCATGGAATCCAATTCCAAATACAACAGAAGAGTTACAAGAGGAAGAGAATAATAATAATAATGCAGTAGAAACAAATGAAATGGTTATTGCAGCAGAACAATCAGAATCTTCTGGTTACAATTTGCAGCAGAACAATCACCATAACCATAACCATTCAGGTTTCATTCAATCAACTATTGATAATGATGCTATAGCATTTTTTCCAACAACTTCTGTTGGTGAATCTATGAATTTTCAAAGCTACTCTTCTGATATAATCTCAAGAACAAACAACTCAACACAGGATCTTGGTCTTTCTCTTCATTCATTCCAAGACAATTCAGCTTCAAATGATCAAACACTTTTCTCCGGATCAAACCCTGTTGGATTTGATGCTAATTATAACAGGATTGTGAATTGGAACACAGCTGATATGAATAGAACCGGGTTTATGGTTAATTCGCCTGCGTTTCTAGGCCAAGGTTCGGCTTTTTCTGCCCATAGGGGGACCCTTCAGTCCAGTTTTTCGCCATCACTTCGTCCTTGGAATGATATTCCGATTGCCGATGCCTCGGTGGATCATCATAATCACAAGTCTCAACAACAAATTCCCCAAGCTTCTATCTTTGGTAGCAGGTTTCTGTCTGATGCTTTGACAGGTTTCTGTATTCCTGCTAGAATTCAAGGTGAGGATGAGAGCCATGGAGTTGGTTCCGAAAGGCCATCCTCTTCTTCTAATTCTCATCACTAA
Protein sequence

>MsaT010498.1

MGMKSTGGEIVQVQGGHIVRATGRKDRHSKVYTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSAIDKLDQLPPWNPIPNTTEELQEEENNNNNAVETNEMVIAAEQSESSGYNLQQNNHHNHNHSGFIQSTIDNDAIAFFPTTSVGESMNFQSYSSDIISRTNNSTQDLGLSLHSFQDNSASNDQTLFSGSNPVGFDANYNRIVNWNTADMNRTGFMVNSPAFLGQGSAFSAHRGTLQSSFSPSLRPWNDIPIADASVDHHNHKSQQQIPQASIFGSRFLSDALTGFCIPARIQGEDESHGVGSERPSSSSNSHH*