AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045201

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045201 MtrunA17_Chr4g0060601 94.091 440 2 2 1 419 1 437 0.0 828
MsaG045201 MtrunA17_Chr5g0416581 50.130 385 125 18 18 370 7 356 3.77e-93 285
MsaG045201 MtrunA17_Chr2g0277361 69.531 128 29 3 55 178 90 211 4.91e-49 172
MsaG045201 MtrunA17_Chr7g0224581 70.000 110 31 2 73 181 27 135 2.24e-43 153
MsaG045201 MtrunA17_Chr1g0211941 76.190 84 15 1 86 169 27 105 3.07e-38 139
MsaG045201 MtrunA17_Chr8g0350941 76.829 82 19 0 93 174 76 157 1.70e-37 139
MsaG045201 MtrunA17_Chr1g0204001 52.448 143 57 3 36 178 14 145 3.12e-36 135
MsaG045201 MtrunA17_Chr1g0164881 70.930 86 21 1 80 165 19 100 6.42e-36 132
MsaG045201 MtrunA17_Chr1g0180911 80.882 68 13 0 92 159 44 111 5.61e-34 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045201 AT3G47620.1 49.565 345 76 15 86 369 106 413 4.04e-63 211
MsaG045201 AT1G69690.1 90.217 92 7 1 77 166 30 121 8.88e-50 171
MsaG045201 AT1G58100.1 85.882 85 12 0 94 178 57 141 5.72e-46 163
MsaG045201 AT1G72010.1 82.022 89 10 1 86 174 58 140 7.24e-43 154
MsaG045201 AT1G35560.1 84.884 86 12 1 93 178 52 136 8.61e-43 153
MsaG045201 AT2G45680.1 63.551 107 39 0 63 169 41 147 2.54e-40 147
MsaG045201 AT5G51910.1 73.333 90 24 0 85 174 45 134 7.20e-39 142
MsaG045201 AT5G51910.2 73.333 90 24 0 85 174 45 134 7.20e-39 142
MsaG045201 AT5G23280.1 68.889 90 23 1 88 177 35 119 4.03e-37 135
MsaG045201 AT3G27010.2 89.552 67 7 0 92 158 73 139 6.25e-37 137
MsaG045201 AT3G27010.1 89.552 67 7 0 92 158 73 139 6.25e-37 137
MsaG045201 AT5G08330.1 73.171 82 17 1 86 167 25 101 2.50e-35 130
MsaG045201 AT2G37000.1 80.000 60 12 0 97 156 43 102 7.27e-28 109
MsaG045201 AT5G41030.1 68.182 66 21 0 93 158 64 129 7.20e-27 108
MsaG045201 AT1G58100.2 60.000 85 10 1 94 178 57 117 2.63e-23 100
MsaG045201 AT3G45150.1 60.317 63 25 0 94 156 14 76 1.22e-20 89.0

Find 103 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATCACCACCACTCATTATT+TGG 0.152337 8:+69972663 None:intergenic
TGGTTTCACCATCAGATTTA+TGG 0.154484 8:+69973239 None:intergenic
GTCTTTGGTGGAGGTTCTTT+TGG 0.183028 8:+69973351 None:intergenic
TACTTTGGTATGACGGTCTT+TGG 0.279521 8:+69973336 None:intergenic
TTGTTACCAGGTCAACAATT+AGG 0.283857 8:-69972536 MsaT045201.1:intron
GGTGTTGGTGGTGGTGTTGA+TGG 0.302716 8:+69973581 None:intergenic
CTCAGATTCCAGCAAATATA+TGG 0.305043 8:-69972706 MsaT045201.1:CDS
CGGTTTGAATTTGATGTACT+TGG 0.310628 8:+69973439 None:intergenic
GCGGCCGCGGCCTTCTACTT+TGG 0.320141 8:+69973321 None:intergenic
TTGAACATGATGCTGCTTCT+TGG 0.321672 8:+69973503 None:intergenic
CGTTGTTGAAGTGAGAAATT+CGG 0.325108 8:+69973064 None:intergenic
ATCATCATTACAACATCAAA+TGG 0.335818 8:-69972777 MsaT045201.1:CDS
GCCACCATCCATATATTTGC+TGG 0.339031 8:+69972698 None:intergenic
TAGCCTGCAACATATTTGTT+AGG 0.346692 8:+69972951 None:intergenic
CATGTCGATCATCGTGTTCA+TGG 0.347036 8:+69972321 None:intergenic
TATTTGTTAGGTTATTTGAT+TGG 0.348643 8:+69972963 None:intergenic
GTTATAGCTGCCACCGGAAC+TGG 0.348983 8:-69973184 MsaT045201.1:CDS
GCTGGTGGTGGTGATGGTGG+TGG 0.350272 8:+69973605 None:intergenic
TGCTGCTGGTACTAGTTGAT+TGG 0.354245 8:+69973414 None:intergenic
GTTGTTGAAGTGAGAAATTC+GGG 0.371211 8:+69973065 None:intergenic
CTTCTTTCTTCTCAAGAAGT+TGG 0.372790 8:+69973530 None:intergenic
TAACCTAACAAATATGTTGC+AGG 0.377215 8:-69972954 MsaT045201.1:CDS
GCATTCGGATGCGGCGGCCG+CGG 0.380835 8:+69973308 None:intergenic
GATGGTGCTGGTGGTGGTGA+TGG 0.387296 8:+69973599 None:intergenic
GGTGCTGGTGGTGGTGATGG+TGG 0.390203 8:+69973602 None:intergenic
GGAATCTGAGTATGACTTGC+TGG 0.390776 8:+69972719 None:intergenic
GGTGTTGATGGTGCTGGTGG+TGG 0.398352 8:+69973593 None:intergenic
CGGCCGCCGCATCCGAATGC+CGG 0.398608 8:-69973305 MsaT045201.1:CDS
ATTGTGATCCACTTGGTTGA+TGG 0.401491 8:+69972366 None:intergenic
TGAGTGGTGGTGATCATATA+TGG 0.403807 8:-69972655 MsaT045201.1:CDS
CAACCTATGGCTTTGTTACC+AGG 0.405222 8:-69972548 MsaT045201.1:CDS
GTCGTTGTTGTTGTTGGTGT+TGG 0.413241 8:+69973566 None:intergenic
GGTGGTGGTGTTGATGGTGC+TGG 0.414098 8:+69973587 None:intergenic
GTTCTGTTGGTGAGATTGCT+AGG 0.414341 8:+69973461 None:intergenic
AGCAGGTATAGTTCCAGTTC+CGG 0.418557 8:+69973171 None:intergenic
GACCGTCATACCAAAGTAGA+AGG 0.430564 8:-69973331 MsaT045201.1:CDS
GAGGTTGTTGGTGTTGCTGC+TGG 0.432242 8:+69973400 None:intergenic
TCTTCTCAAGAAGTTGGAAT+GGG 0.441785 8:+69973536 None:intergenic
CAGCACAAAGTGCCGGCATT+CGG 0.445504 8:+69973293 None:intergenic
GAAGGAGATAAACCAATTCC+AGG 0.446291 8:+69973028 None:intergenic
TGATCGGAAACCGGACGATA+AGG 0.451545 8:+69972410 None:intergenic
TTGAGAGATGTGAAGTTAGC+AGG 0.457458 8:+69973154 None:intergenic
TTTCAGCTTACACGCGAACT+TGG 0.460579 8:-69973262 MsaT045201.1:CDS
GGACATTTGAGTATGCTTGC+TGG 0.474162 8:-69972440 MsaT045201.1:CDS
AGTGCTGCTGCTTTGTATAG+AGG 0.476785 8:-69972611 MsaT045201.1:CDS
TTCTTCTCAAGAAGTTGGAA+TGG 0.477818 8:+69973535 None:intergenic
GTTGTTGTTGGTGTTGGTGG+TGG 0.478497 8:+69973572 None:intergenic
GGTGGTGTTGATGGTGCTGG+TGG 0.480384 8:+69973590 None:intergenic
TTTGATGTACTTGGTTCTGT+TGG 0.480791 8:+69973448 None:intergenic
AATATCTCACTTCGTAGCTC+AGG 0.489424 8:-69973133 MsaT045201.1:CDS
TTGTTGAAGAAGCCATTCAA+TGG 0.490318 8:+69973219 None:intergenic
TTGGCAGGGTCAGAGGTTGT+TGG 0.498054 8:+69973388 None:intergenic
GAGATTGCTAGGGATGGATA+TGG 0.498465 8:+69973472 None:intergenic
GGTATGACGGTCTTTGGTGG+AGG 0.507929 8:+69973342 None:intergenic
GTTGTTGTTGTTGGTGTTGG+TGG 0.510292 8:+69973569 None:intergenic
TCATCATTACAACATCAAAT+GGG 0.514168 8:-69972776 MsaT045201.1:CDS
GGTAACAAAGCCATAGGTTG+TGG 0.514532 8:+69972551 None:intergenic
TTTGGTATGACGGTCTTTGG+TGG 0.516158 8:+69973339 None:intergenic
CTGGTACTAGTTGATTGGAT+CGG 0.518820 8:+69973419 None:intergenic
TGGTCTTAGTCCTTATCGTC+CGG 0.520077 8:-69972420 MsaT045201.1:CDS
TAAGAAGATCTTAGCTGAGA+TGG 0.524502 8:+69973094 None:intergenic
ACTATCCATGCGATCATGGA+TGG 0.527493 8:-69973640 None:intergenic
AAAGTGCCGGCATTCGGATG+CGG 0.528787 8:+69973299 None:intergenic
TTGCTGTTGTTGATGATGAT+CGG 0.538011 8:+69972394 None:intergenic
GGCCTTCTACTTTGGTATGA+CGG 0.539347 8:+69973329 None:intergenic
AGAGGAGCAGTTTCAACTAG+TGG 0.546067 8:-69972593 MsaT045201.1:CDS
TTCTGTTGGTGAGATTGCTA+GGG 0.546955 8:+69973462 None:intergenic
CCGGTGGCAGCTATAACAGC+TGG 0.556756 8:+69973190 None:intergenic
TCCAACGTGGTTGATGAAGA+AGG 0.558834 8:+69972878 None:intergenic
TATCTGATGCAATCAAGTGC+AGG 0.561368 8:-69972749 MsaT045201.1:CDS
AAAAGAAGAACTAGCAGTGG+TGG 0.562125 8:-69972815 MsaT045201.1:CDS
AACAAGTGGAGAAGAATCCA+TGG 0.562177 8:-69972846 MsaT045201.1:CDS
ACTCTAGCAGCACAAAGTGC+CGG 0.564904 8:+69973286 None:intergenic
TGTTGATGATGATCGGAAAC+CGG 0.572274 8:+69972401 None:intergenic
CTGATGGTGAAACCATTGAA+TGG 0.573344 8:-69973231 MsaT045201.1:CDS
TGACCTGGTAACAAAGCCAT+AGG 0.574635 8:+69972545 None:intergenic
TTGTTGCTGTTGTTATCAGA+AGG 0.580085 8:+69973010 None:intergenic
GTGCCGGCATTCGGATGCGG+CGG 0.596373 8:+69973302 None:intergenic
TTGGATTTATCTGAAACAAG+TGG 0.596762 8:-69972860 MsaT045201.1:CDS
GCTAAACAAGAGGTTAGAGA+TGG 0.599591 8:-69972932 MsaT045201.1:CDS
GTTGGTGAGATTGCTAGGGA+TGG 0.600696 8:+69973466 None:intergenic
GAATTACCTAATTGTTGACC+TGG 0.601536 8:+69972530 None:intergenic
TCTAATAACCAAATAATGAG+TGG 0.608534 8:-69972671 MsaT045201.1:CDS
GAACTTGGCCATAAATCTGA+TGG 0.613525 8:-69973247 MsaT045201.1:CDS
CAGCACTATTATTCACCGAC+GGG 0.616314 8:+69972627 None:intergenic
TCCTTCTTCATCAACCACGT+TGG 0.619503 8:-69972879 MsaT045201.1:CDS
TATGTTGCAGGCTAAACAAG+AGG 0.623052 8:-69972942 MsaT045201.1:CDS
CCAGCTGTTATAGCTGCCAC+CGG 0.623678 8:-69973190 MsaT045201.1:CDS
CATACCAAAGTAGAAGGCCG+CGG 0.625233 8:-69973325 MsaT045201.1:CDS
GATTCCAGCAAATATATGGA+TGG 0.625794 8:-69972702 MsaT045201.1:CDS
TAGCTGAGATGGAACAGACA+TGG 0.633215 8:+69973105 None:intergenic
AATAACCAAATAATGAGTGG+TGG 0.633743 8:-69972668 MsaT045201.1:CDS
GCAGCACTATTATTCACCGA+CGG 0.636084 8:+69972626 None:intergenic
CAACAACACCATCAACCAAG+TGG 0.638624 8:-69972374 MsaT045201.1:CDS
TCCAGCAAATATATGGATGG+TGG 0.643480 8:-69972699 MsaT045201.1:CDS
AGGTATAGTTCCAGTTCCGG+TGG 0.651482 8:+69973174 None:intergenic
TGATGTGATTGTGATCCACT+TGG 0.661439 8:+69972359 None:intergenic
ATCCATGCGATCATGGATGG+AGG 0.662486 8:-69973637 None:intergenic
ACAAGTGGAGAAGAATCCAT+GGG 0.671280 8:-69972845 MsaT045201.1:CDS
TCATATATGGACTTTCCCGT+CGG 0.679594 8:-69972642 MsaT045201.1:CDS
CAATCACATCATCATCGCAG+TGG 0.700966 8:-69972347 MsaT045201.1:CDS
AGTGGAGAAGAATCCATGGG+AGG 0.724803 8:-69972842 MsaT045201.1:CDS
TGTTTCAGATAAATCCAACG+TGG 0.753094 8:+69972865 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 69972313 69973647 69972313 ID=MsaG045201
Chr8 mRNA 69972313 69973647 69972313 ID=MsaT045201.1;Parent=MsaG045201
Chr8 exon 69972313 69972461 69972313 ID=MsaT045201.1.exon2;Parent=MsaT045201.1
Chr8 CDS 69972313 69972461 69972313 ID=cds.MsaT045201.1;Parent=MsaT045201.1
Chr8 exon 69972537 69973647 69972537 ID=MsaT045201.1.exon1;Parent=MsaT045201.1
Chr8 CDS 69972537 69973647 69972537 ID=cds.MsaT045201.1;Parent=MsaT045201.1
Gene Sequence

>MsaT045201.1

ATGGATGGAGGAGATGATCTCCACCACCATCACCACCACCAGCACCATCAACACCACCACCAACACCAACAACAACAACGACAAAATTTCCCATTCCAACTTCTTGAGAAGAAAGAAGATAACCAAGAAGCAGCATCATGTTCAACTTCTTCACCATATCCATCCCTAGCAATCTCACCAACAGAACCAAGTACATCAAATTCAAACCGATCCAATCAACTAGTACCAGCAGCAACACCAACAACCTCTGACCCTGCCAACAAAAAACCTCCTCCCAAAAGAACCTCCACCAAAGACCGTCATACCAAAGTAGAAGGCCGCGGCCGCCGCATCCGAATGCCGGCACTTTGTGCTGCTAGAGTTTTTCAGCTTACACGCGAACTTGGCCATAAATCTGATGGTGAAACCATTGAATGGCTTCTTCAACAAGCTGAACCAGCTGTTATAGCTGCCACCGGAACTGGAACTATACCTGCTAACTTCACATCTCTCAATATCTCACTTCGTAGCTCAGGTTCATCCATGTCTGTTCCATCTCAGCTAAGATCTTCTTACTTCAACCCGAATTTCTCACTTCAACAACGAAGAACTCTTTTTCCTGGAATTGGTTTATCTCCTTCTGATAACAACAGCAACAACAACACTTCAATGCTTTTGAATTTCCAATCAAATAACCTAACAAATATGTTGCAGGCTAAACAAGAGGTTAGAGATGGAAACACAAACTCAAACGCAAACGCAAACGCTCCTTCTTCATCAACCACGTTGGATTTATCTGAAACAAGTGGAGAAGAATCCATGGGAGGAAGAAAAAGAAGAACTAGCAGTGGTGGTAGTGAGCAAGATTTATCATCATTACAACATCAAATGGGAAGTTATCTGATGCAATCAAGTGCAGGTTCAATTCCAGCAAGTCATACTCAGATTCCAGCAAATATATGGATGGTGGCAAATTCTAATAACCAAATAATGAGTGGTGGTGATCATATATGGACTTTCCCGTCGGTGAATAATAGTGCTGCTGCTTTGTATAGAGGAGCAGTTTCAACTAGTGGTTTACATTTTATGAATTTTCCACAACCTATGGCTTTGTTACCAGGTCAACAATTAGGACATTTGAGTATGCTTGCTGGTCTTAGTCCTTATCGTCCGGTTTCCGATCATCATCAACAACAGCAACAACACCATCAACCAAGTGGATCACAATCACATCATCATCGCAGTGGTAGCCATGAACACGATGATCGACATGATAATTAA
Protein sequence

>MsaT045201.1

MDGGDDLHHHHHHQHHQHHHQHQQQQRQNFPFQLLEKKEDNQEAASCSTSSPYPSLAISPTEPSTSNSNRSNQLVPAATPTTSDPANKKPPPKRTSTKDRHTKVEGRGRRIRMPALCAARVFQLTRELGHKSDGETIEWLLQQAEPAVIAATGTGTIPANFTSLNISLRSSGSSMSVPSQLRSSYFNPNFSLQQRRTLFPGIGLSPSDNNSNNNTSMLLNFQSNNLTNMLQAKQEVRDGNTNSNANANAPSSSTTLDLSETSGEESMGGRKRRTSSGGSEQDLSSLQHQMGSYLMQSSAGSIPASHTQIPANIWMVANSNNQIMSGGDHIWTFPSVNNSAAALYRGAVSTSGLHFMNFPQPMALLPGQQLGHLSMLAGLSPYRPVSDHHQQQQQHHQPSGSQSHHHRSGSHEHDDRHDN*