AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029950


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029950 MtrunA17_Chr6g0452881 66.168 535 81 12 15 474 304 813 0.0 622
MsaG029950 MtrunA17_Chr6g0452891 78.077 260 13 4 216 474 1 217 1.26e-138 397
MsaG029950 MtrunA17_Chr4g0037071 74.634 205 30 1 270 474 1 183 1.32e-94 285
MsaG029950 MtrunA17_Chr4g0037081 55.090 167 31 5 6 130 15 179 9.71e-44 152
MsaG029950 MtrunA17_Chr1g0179281 31.765 255 129 7 263 474 756 1008 4.02e-33 133
MsaG029950 MtrunA17_Chr7g0265781 26.448 397 227 11 129 474 633 1015 1.99e-31 128
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029950 AT4G04885.1 40.275 509 211 14 33 473 306 789 2.35e-98 313
MsaG029950 AT1G66500.1 35.882 340 173 15 159 472 66 386 4.12e-49 174
MsaG029950 AT5G43620.1 36.170 282 132 10 215 472 123 380 1.54e-48 172
MsaG029950 AT2G36480.2 32.044 181 110 4 292 472 775 942 9.39e-22 99.4
MsaG029950 AT2G36480.1 32.044 181 110 4 292 472 775 942 9.39e-22 99.4

Find 139 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGACGAACCTTGAGAATATT+TGG 0.171658 6:+223432 None:intergenic
GTGACTGCTGTGCTCATCTT+TGG 0.248435 6:+223338 None:intergenic
ATGCCTGTTGTTATTCCATT+AGG 0.284934 6:+223021 None:intergenic
TAGGCATCAATTAGAGCTAT+TGG 0.294593 6:+224356 None:intergenic
TCAGTGTCAAGGGTGTTTCC+TGG 0.301890 6:-224209 MsaT029950.1:CDS
TGTCCACTGGTTGGCGAGTT+AGG 0.324685 6:+223942 None:intergenic
AAGAGTTGTTTCCGATTCTT+TGG 0.325210 6:+223805 None:intergenic
CCCTGCGGAGGTAACTAAAT+TGG 0.332168 6:-223628 MsaT029950.1:CDS
GATTCGAATGGATTCCTAAC+AGG 0.333615 6:+224077 None:intergenic
TCTAGGAAAATCACCATATA+AGG 0.334486 6:+223392 None:intergenic
CTGCATTTAGCATGAATAAT+GGG 0.336904 6:+222979 None:intergenic
TCTAAAGTTGCTGGCGAAAC+TGG 0.342653 6:+224158 None:intergenic
TCTGCATTTAGCATGAATAA+TGG 0.356112 6:+222978 None:intergenic
GCAGCGGGCTTCCCAGTTGC+TGG 0.370900 6:+224254 None:intergenic
CGAAAAGACAAGAAACTTCA+TGG 0.371299 6:-224325 MsaT029950.1:CDS
GATTCGGATGAGGTAGAATC+TGG 0.392316 6:+223748 None:intergenic
GCGTGGAGCATGCACATTTA+CGG 0.392529 6:+224124 None:intergenic
GGCTGTTGGCTTGACACATT+AGG 0.397611 6:+223720 None:intergenic
ATGATTCCGACACCAGCAAC+TGG 0.398413 6:-224266 MsaT029950.1:CDS
GGATTCTTCGATGGATATAT+AGG 0.398722 6:+224098 None:intergenic
GGCATAACAGGTCGTGCATT+TGG 0.398786 6:+223843 None:intergenic
GGCATAGGAAGTGGCATAAC+AGG 0.399981 6:+223831 None:intergenic
CCATGTTCATGCACAGGAAT+AGG 0.400314 6:+224008 None:intergenic
CCGAAGAGGAGGAGTTCAAT+TGG 0.408130 6:-224295 MsaT029950.1:CDS
GTATACCTCAATGCACCTAA+TGG 0.412791 6:-223036 MsaT029950.1:CDS
TAACAGGTCGTGCATTTGGC+AGG 0.413669 6:+223847 None:intergenic
GCTTAAAGGTGCCGAGGCAT+TGG 0.418088 6:-223229 MsaT029950.1:CDS
TTGTTTCCGATTCTTTGGTC+TGG 0.419863 6:+223810 None:intergenic
TCTGTAATCCGTGCCTTATA+TGG 0.421993 6:-223405 MsaT029950.1:CDS
ATTTGTTGGTGTTTCTCTCC+TGG 0.439045 6:+224463 None:intergenic
AGTGAGACGATGTGGCTTAA+AGG 0.439793 6:-223243 MsaT029950.1:CDS
CCAATTGAACTCCTCCTCTT+CGG 0.441961 6:+224295 None:intergenic
GCTCATCTTTGGATTTGAAT+CGG 0.447487 6:+223349 None:intergenic
CTTAAAGGTGCCGAGGCATT+GGG 0.453885 6:-223228 MsaT029950.1:CDS
GCATTTGCTGCAATAGCAGC+GGG 0.454044 6:+224239 None:intergenic
GCGAGTTAGGCAACTGATGC+AGG 0.458157 6:+223955 None:intergenic
TTCCGACCTTTACCTCCAGC+TGG 0.468020 6:-223783 MsaT029950.1:CDS
GCATGGCCAGCTGGAGGTAA+AGG 0.470453 6:+223777 None:intergenic
AAAACTGATGAAGAATTTGT+TGG 0.474608 6:+224449 None:intergenic
AGAATATTTGGATCAAACTC+AGG 0.475308 6:+223444 None:intergenic
CTTTGGTCTGGCATAGGAAG+TGG 0.476736 6:+223822 None:intergenic
GCCAATTTAGTTACCTCCGC+AGG 0.478344 6:+223627 None:intergenic
AAAGGAAGAAGATGCTTGCC+AGG 0.480340 6:-224481 None:intergenic
TCACTGTAAAACACGTCAAA+AGG 0.480580 6:+223090 None:intergenic
GGCTTCCCAGTTGCTGGTGT+CGG 0.485684 6:+224260 None:intergenic
GACCTCGTTTCTAAAGTTGC+TGG 0.485952 6:+224149 None:intergenic
GCACCTAATGGAATAACAAC+AGG 0.488809 6:-223024 MsaT029950.1:CDS
GACACATTAGGACCAGGATT+CGG 0.491699 6:+223732 None:intergenic
CAATTCACTTTGCCAAGACA+TGG 0.494418 6:-223873 MsaT029950.1:CDS
ATTCTACCTCATCCGAATCC+TGG 0.497538 6:-223744 MsaT029950.1:CDS
CCGATTCTTTGGTCTGGCAT+AGG 0.499828 6:+223816 None:intergenic
TGGGGTAGAGCATGGCCAGC+TGG 0.501385 6:+223768 None:intergenic
CGAAGAGGAGGAGTTCAATT+GGG 0.502140 6:-224294 MsaT029950.1:CDS
TTGGGAGTCAAGTCAGCTCC+AGG 0.502567 6:-223210 MsaT029950.1:CDS
TTAGCATTTATTGATTCGAA+TGG 0.504936 6:+224065 None:intergenic
GGCATGGACAGGTCGCAGTT+AGG 0.505187 6:-223003 MsaT029950.1:CDS
CCACAAGTTGTGCACTGTCT+AGG 0.505428 6:+223375 None:intergenic
ATCCATCGAAGAATCCTGTT+AGG 0.507185 6:-224091 MsaT029950.1:CDS
GGCCCAAGGTGTTATCTCAT+TGG 0.509000 6:-223661 MsaT029950.1:CDS
AAAGAAAGAAGACGAAGAGT+TGG 0.510498 6:-223160 MsaT029950.1:CDS
ATAGCTCTAATTGATGCCTA+TGG 0.514260 6:-224353 MsaT029950.1:CDS
ACAGTGATGAAACGGAGGAT+TGG 0.518817 6:-223074 MsaT029950.1:CDS
GCTGATTTAGTTACCTCCGC+AGG 0.522468 6:+223594 None:intergenic
TGCATTTGCTGCAATAGCAG+CGG 0.523136 6:+224238 None:intergenic
CAAAATACATGTGCATTATG+TGG 0.525790 6:-223117 MsaT029950.1:CDS
AGCACAGCAGTCACATGGAT+TGG 0.529243 6:-223329 MsaT029950.1:CDS
AGCCAATGAGATAACACCTT+GGG 0.530219 6:+223659 None:intergenic
ATTGATTTAGTTACCTCCGC+AGG 0.532041 6:+223561 None:intergenic
CCTAGACAGTGCACAACTTG+TGG 0.539415 6:-223375 MsaT029950.1:CDS
AACAGGTCGTGCATTTGGCA+GGG 0.540179 6:+223848 None:intergenic
GGCGGTGTTTGTCCACTGGT+TGG 0.543540 6:+223933 None:intergenic
CGCCAGCAACTTTAGAAACG+AGG 0.546442 6:-224151 MsaT029950.1:CDS
GAAAGGCGGTGTTTGTCCAC+TGG 0.548147 6:+223929 None:intergenic
GAATAACAACAGGCATGGAC+AGG 0.551052 6:-223014 MsaT029950.1:CDS
AAATTAGAATATCCTACAGT+TGG 0.553132 6:+223699 None:intergenic
AGCAGAAACCCTCTCGCAAG+TGG 0.553269 6:-223272 MsaT029950.1:CDS
CCTATGCCAGACCAAAGAAT+CGG 0.556854 6:-223816 MsaT029950.1:CDS
ATGCAACTTCTTCAGTGTCA+AGG 0.556856 6:-224220 MsaT029950.1:CDS
ATTAGTTCACTCGTGGCCCA+AGG 0.558294 6:-223675 MsaT029950.1:CDS
AATATCCTACAGTTGGCTGT+TGG 0.562656 6:+223706 None:intergenic
TTCCTAACAGGATTCTTCGA+TGG 0.563320 6:+224089 None:intergenic
TGCAACTTCTTCAGTGTCAA+GGG 0.565136 6:-224219 MsaT029950.1:CDS
ACAGGTCGTGCATTTGGCAG+GGG 0.566169 6:+223849 None:intergenic
TGGCTTGACACATTAGGACC+AGG 0.576366 6:+223726 None:intergenic
ATTCGGATGAGGTAGAATCT+GGG 0.576849 6:+223749 None:intergenic
CTCACAAACCACTTGCGAGA+GGG 0.577171 6:+223264 None:intergenic
GATGGATATATAGGAGGGCG+TGG 0.577296 6:+224107 None:intergenic
TAATTTGATTAGTTCACTCG+TGG 0.577584 6:-223682 MsaT029950.1:CDS
TTCTTCGATGGATATATAGG+AGG 0.577700 6:+224101 None:intergenic
TTAGGACCAGGATTCGGATG+AGG 0.577777 6:+223738 None:intergenic
GTTTGATCCAAATATTCTCA+AGG 0.585822 6:-223439 MsaT029950.1:CDS
AGATGAGCACAGCAGTCACA+TGG 0.587427 6:-223334 MsaT029950.1:CDS
TCAACACCATGTTCATGCAC+AGG 0.588454 6:+224002 None:intergenic
CTGATTTAGTTACCTCCGCA+GGG 0.590037 6:+223595 None:intergenic
CCTATTCCTGTGCATGAACA+TGG 0.596190 6:-224008 MsaT029950.1:CDS
GAGTTCAGCTATCGCAGCAA+CGG 0.596554 6:-224395 MsaT029950.1:CDS
AAAGTTGCTGGCGAAACTGG+TGG 0.598178 6:+224161 None:intergenic
TTATTCCATTAGGTGCATTG+AGG 0.599937 6:+223031 None:intergenic
GTAGAATCTGGGGTAGAGCA+TGG 0.600654 6:+223760 None:intergenic
CATCTTTGGATTTGAATCGG+AGG 0.601375 6:+223352 None:intergenic
AAAGTGAATTGCGACACTGC+TGG 0.601468 6:+223885 None:intergenic
TAATGGAATAACAACAGGCA+TGG 0.604751 6:-223019 MsaT029950.1:CDS
CCAATTTAGTTACCTCCGCA+GGG 0.606122 6:+223628 None:intergenic
GAATATTTGGATCAAACTCA+GGG 0.606248 6:+223445 None:intergenic
TTGCCTAACTCGCCAACCAG+TGG 0.608662 6:-223945 MsaT029950.1:CDS
GGCTAATCAAAGCCCTGCGG+AGG 0.611174 6:-223607 MsaT029950.1:CDS
CAGGTCGTGCATTTGGCAGG+GGG 0.612021 6:+223850 None:intergenic
TTGATTTAGTTACCTCCGCA+GGG 0.612955 6:+223562 None:intergenic
GGCCAGCTGGAGGTAAAGGT+CGG 0.614768 6:+223781 None:intergenic
GACACTGCTGGATTCTGAGA+TGG 0.616545 6:+223897 None:intergenic
GAAAATCACCATATAAGGCA+CGG 0.619885 6:+223397 None:intergenic
TCAAGCCAACAGCCAACTGT+AGG 0.623071 6:-223711 MsaT029950.1:CDS
AATACTACCACTGTTAGTCA+TGG 0.626258 6:-224044 MsaT029950.1:CDS
TGATTCCGACACCAGCAACT+GGG 0.627867 6:-224265 MsaT029950.1:CDS
ATGGAAGAATACCGAAGAGG+AGG 0.631037 6:-224306 MsaT029950.1:CDS
ACTCACAAACCACTTGCGAG+AGG 0.633226 6:+223263 None:intergenic
TGCATTTAGCATGAATAATG+GGG 0.635399 6:+222980 None:intergenic
TGACTTGACTCCCAATGCCT+CGG 0.643816 6:+223218 None:intergenic
AGCTAATCAAGCCCCTGCGG+AGG 0.645043 6:-223574 MsaT029950.1:intron
GGCTAATCAAGCCCCTGCGG+AGG 0.645043 6:-223640 MsaT029950.1:CDS
TCTTCGATGGATATATAGGA+GGG 0.645228 6:+224102 None:intergenic
TTCGGATGAGGTAGAATCTG+GGG 0.651800 6:+223750 None:intergenic
TCAGTATTAGAATTGAGACC+AGG 0.658819 6:+224191 None:intergenic
TAGCCAATGAGATAACACCT+TGG 0.659744 6:+223658 None:intergenic
GTTGGCAGTTCCTGCCGACG+AGG 0.661438 6:-223142 MsaT029950.1:CDS
ATCAGCTAATCAAGCCCCTG+CGG 0.669866 6:-223577 MsaT029950.1:CDS
AATTAGACCATGACTAACAG+TGG 0.672174 6:+224037 None:intergenic
TGATTTAGTTACCTCCGCAG+GGG 0.679811 6:+223563 None:intergenic
GGTAGAGCATGGCCAGCTGG+AGG 0.682509 6:+223771 None:intergenic
TTCATGGAAGAATACCGAAG+AGG 0.683939 6:-224309 MsaT029950.1:CDS
CAATTTAGTTACCTCCGCAG+GGG 0.688755 6:+223629 None:intergenic
ATTGGCTAATCAAGCCCCTG+CGG 0.691379 6:-223643 MsaT029950.1:CDS
GATGTGGCTTAAAGGTGCCG+AGG 0.696373 6:-223235 MsaT029950.1:CDS
TTGCTGGCGAAACTGGTGGA+TGG 0.703445 6:+224165 None:intergenic
GGTTTGTGAGTGAGACGATG+TGG 0.711325 6:-223251 MsaT029950.1:CDS
TGGAGCATGCACATTTACGG+AGG 0.730010 6:+224127 None:intergenic
GAACATGGTGTTGAGAACAA+TGG 0.747001 6:-223993 MsaT029950.1:CDS
ATTGGCTAATCAAAGCCCTG+CGG 0.760387 6:-223610 MsaT029950.1:CDS
TTTGCCAACCGAGACCACTG+AGG 0.774441 6:-223184 MsaT029950.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 222972 224492 222972 ID=MsaG029950
Chr6 mRNA 222972 224492 222972 ID=MsaT029950.1;Parent=MsaG029950
Chr6 exon 222972 223478 222972 ID=MsaT029950.1.exon2;Parent=MsaT029950.1
Chr6 CDS 222972 223478 222972 ID=cds.MsaT029950.1;Parent=MsaT029950.1
Chr6 exon 223575 224492 223575 ID=MsaT029950.1.exon1;Parent=MsaT029950.1
Chr6 CDS 223575 224492 223575 ID=cds.MsaT029950.1;Parent=MsaT029950.1
Gene Sequence

>MsaT029950.1

ATGCTTGCCAGGAGAGAAACACCAACAAATTCTTCATCAGTTTTCTCACACTTTCCGCGAAAAAGATGTTTTGATGAGTTCAGCTATCGCAGCAACGGACAACCTCGTCAAAATCCAATAGCTCTAATTGATGCCTATGGTAGTGCGAAAAGACAAGAAACTTCATGGAAGAATACCGAAGAGGAGGAGTTCAATTGGGAAGATATGATTCCGACACCAGCAACTGGGAAGCCCGCTGCTATTGCAGCAAATGCAACTTCTTCAGTGTCAAGGGTGTTTCCTGGTCTCAATTCTAATACTGAGTACCATCCACCAGTTTCGCCAGCAACTTTAGAAACGAGGTCCTCCGTAAATGTGCATGCTCCACGCCCTCCTATATATCCATCGAAGAATCCTGTTAGGAATCCATTCGAATCAATAAATGCTAATACTACCACTGTTAGTCATGGTCTAATTAATAGACCTATTCCTGTGCATGAACATGGTGTTGAGAACAATGGTATCAGTAAAAGAAACCTGCATCAGTTGCCTAACTCGCCAACCAGTGGACAAACACCGCCTTTCCAGTTTTTTCCATCTCAGAATCCAGCAGTGTCGCAATTCACTTTGCCAAGACATGGCCCCCTGCCAAATGCACGACCTGTTATGCCACTTCCTATGCCAGACCAAAGAATCGGAAACAACTCTTTCCGACCTTTACCTCCAGCTGGCCATGCTCTACCCCAGATTCTACCTCATCCGAATCCTGGTCCTAATGTGTCAAGCCAACAGCCAACTGTAGGATATTCTAATTTGATTAGTTCACTCGTGGCCCAAGGTGTTATCTCATTGGCTAATCAAGCCCCTGCGGAGGTAACTAAATTGGCTAATCAAAGCCCTGCGGAGGTAACTAAATCAGCTAATCAAGCCCCTGCGGAGGATTTTATTGGCCCTGAGTTTGATCCAAATATTCTCAAGGTTCGTCATGAATCTGTAATCCGTGCCTTATATGGTGATTTTCCTAGACAGTGCACAACTTGTGGCCTCCGATTCAAATCCAAAGATGAGCACAGCAGTCACATGGATTGGCATGTAACTAAGAATCGTATGTCCAAAAACAATAAGCAGAAACCCTCTCGCAAGTGGTTTGTGAGTGAGACGATGTGGCTTAAAGGTGCCGAGGCATTGGGAGTCAAGTCAGCTCCAGGTTTTTTGCCAACCGAGACCACTGAGGAAAAGAAAGAAGACGAAGAGTTGGCAGTTCCTGCCGACGAGGATCAAAATACATGTGCATTATGTGGAGAACCTTTTGACGTGTTTTACAGTGATGAAACGGAGGATTGGATGAGTAGAGAAGCTGTATACCTCAATGCACCTAATGGAATAACAACAGGCATGGACAGGTCGCAGTTAGGCCCCATTATTCATGCTAAATGCAGATCTTAA

Protein sequence

>MsaT029950.1

MLARRETPTNSSSVFSHFPRKRCFDEFSYRSNGQPRQNPIALIDAYGSAKRQETSWKNTEEEEFNWEDMIPTPATGKPAAIAANATSSVSRVFPGLNSNTEYHPPVSPATLETRSSVNVHAPRPPIYPSKNPVRNPFESINANTTTVSHGLINRPIPVHEHGVENNGISKRNLHQLPNSPTSGQTPPFQFFPSQNPAVSQFTLPRHGPLPNARPVMPLPMPDQRIGNNSFRPLPPAGHALPQILPHPNPGPNVSSQQPTVGYSNLISSLVAQGVISLANQAPAEVTKLANQSPAEVTKSANQAPAEDFIGPEFDPNILKVRHESVIRALYGDFPRQCTTCGLRFKSKDEHSSHMDWHVTKNRMSKNNKQKPSRKWFVSETMWLKGAEALGVKSAPGFLPTETTEEKKEDEELAVPADEDQNTCALCGEPFDVFYSDETEDWMSREAVYLNAPNGITTGMDRSQLGPIIHAKCRS*