AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040712

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040712 MtrunA17_Chr7g0273821 94.796 442 14 5 1 434 1 441 0.0 843
MsaG040712 MtrunA17_Chr1g0191021 43.377 385 140 13 53 426 53 370 2.88e-76 243
MsaG040712 MtrunA17_Chr1g0191011 50.000 106 45 3 100 200 127 229 6.98e-25 105
MsaG040712 MtrunA17_Chr1g0191011 39.815 108 46 4 322 427 282 372 4.00e-13 70.5
MsaG040712 MtrunA17_Chr3g0113131 33.929 112 66 2 105 216 153 256 1.97e-14 74.7
MsaG040712 MtrunA17_Chr2g0280431 34.615 104 58 2 99 202 198 291 6.50e-12 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040712 AT5G28040.2 39.112 473 193 15 1 428 1 423 3.32e-86 270
MsaG040712 AT5G28040.1 39.112 473 193 15 1 428 1 423 3.32e-86 270
MsaG040712 AT3G04930.2 63.030 165 50 5 44 206 86 241 6.18e-60 201
MsaG040712 AT3G04930.1 63.030 165 50 5 44 206 86 241 4.08e-59 200
MsaG040712 AT3G04930.1 37.584 149 60 6 304 428 313 452 1.13e-15 79.3
MsaG040712 AT4G00390.1 36.420 162 80 5 39 199 108 247 1.27e-19 90.5
MsaG040712 AT1G61730.1 36.486 148 78 4 52 199 114 245 1.55e-19 90.1
MsaG040712 AT4G01260.1 36.181 199 102 8 38 214 36 231 4.13e-19 88.2
MsaG040712 AT1G11510.1 39.535 129 71 3 77 201 106 231 9.54e-19 87.4
MsaG040712 AT1G11510.2 40.777 103 58 1 99 201 103 202 1.16e-18 87.0
MsaG040712 AT4G25210.1 36.641 131 69 4 83 200 110 239 2.89e-17 83.6
MsaG040712 AT1G44810.1 36.066 122 68 2 90 207 107 222 1.08e-15 77.8
MsaG040712 AT2G01370.1 38.614 101 57 3 100 198 74 171 1.34e-14 73.9
MsaG040712 AT4G00610.1 32.520 123 71 3 79 198 120 233 5.29e-13 70.1
MsaG040712 AT2G25650.1 33.684 95 63 0 104 198 64 158 2.26e-11 65.5
MsaG040712 AT5G14280.1 30.526 95 66 0 107 201 63 157 7.91e-11 63.2

Find 90 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGAGGAAGCAACAGATTT+TGG 0.165742 7:-103093442 MsaT040712.1:CDS
CCGTTTCAGACGATGAATTT+AGG 0.215452 7:-103093495 MsaT040712.1:CDS
GAGTTGTTTATCGCCGTTTA+AGG 0.229902 7:-103093586 MsaT040712.1:CDS
TCCGTCACCGTCGCCGTTCC+CGG 0.291496 7:-103094473 MsaT040712.1:CDS
CAGACGATGAATTTAGGTTT+TGG 0.306437 7:-103093489 MsaT040712.1:CDS
GTAGCATAAGCATTAGGATT+AGG 0.338681 7:+103093756 None:intergenic
TTGATCCAAACGTTGACGTT+TGG 0.362708 7:+103094382 None:intergenic
GCAGTTGTAGCATAAGCATT+AGG 0.365701 7:+103093750 None:intergenic
ACGGGAGTGAAATTGAGGTT+AGG 0.366561 7:+103093960 None:intergenic
GCAGCATTAGTATTAACATT+AGG 0.376257 7:+103093690 None:intergenic
CGATTCCAAACGTCAACGTT+TGG 0.378466 7:-103094387 MsaT040712.1:CDS
TGTATTTCTTCTTCAACCTT+CGG 0.381493 7:+103094147 None:intergenic
AGTAATAATTGTAGTACTGC+TGG 0.385802 7:-103093645 MsaT040712.1:CDS
TTGTGATTAGGATAGGGATT+AGG 0.391090 7:+103093792 None:intergenic
CAAACGTTGACGTTTGGAAT+CGG 0.393384 7:+103094388 None:intergenic
GGAAGTGTATTCAAAGAGAT+TGG 0.394682 7:-103093415 MsaT040712.1:CDS
ACATTAGGAGTAGTAATTGT+AGG 0.395915 7:+103093705 None:intergenic
CGGGAGTGAAATTGAGGTTA+GGG 0.396355 7:+103093961 None:intergenic
TTGAAATCTCTCGCAAGATC+TGG 0.402112 7:-103094055 MsaT040712.1:CDS
TGGAGGTCTGAGAGCTCCTC+CGG 0.404026 7:+103094454 None:intergenic
GCAATGGGAGGAGGACTGTT+TGG 0.407072 7:-103093549 MsaT040712.1:CDS
ATCGCCGTTTAAGGAATTGA+TGG 0.410493 7:-103093577 MsaT040712.1:CDS
TTGTGATTGTGATTGTGATT+AGG 0.420049 7:+103093780 None:intergenic
GTAATTGTAGGTGTTATTGC+AGG 0.422477 7:+103093717 None:intergenic
GTTGCGGTTGGTGTTAGAAT+TGG 0.424821 7:+103094434 None:intergenic
CCAGCCATCAATTCCTTAAA+CGG 0.436526 7:+103093573 None:intergenic
GAGAATTGGTGGATGAGAAA+TGG 0.440436 7:-103093461 MsaT040712.1:CDS
TTGAGGTTAGGGTTAGGACT+TGG 0.440851 7:+103093972 None:intergenic
GATGTCTTCTTCAGCGAAAA+CGG 0.442070 7:+103094604 None:intergenic
GTGAAATTGAGGTTAGGGTT+AGG 0.470406 7:+103093966 None:intergenic
GATGAATTGCGTTCAGTTGG+TGG 0.477018 7:-103093360 MsaT040712.1:CDS
GAATTGATGGCTGGTGCAAT+GGG 0.477602 7:-103093564 MsaT040712.1:CDS
GATAGGGATTAGGATTATTG+AGG 0.478564 7:+103093802 None:intergenic
CAACCACGCGGAAGCGTTCA+CGG 0.479940 7:-103093914 MsaT040712.1:CDS
GTCGTGTTGCTGTGAAGCCA+TGG 0.481747 7:+103094628 None:intergenic
GCGGTTGGTGTTAGAATTGG+AGG 0.483246 7:+103094437 None:intergenic
GTTGAAATCGAGTTGAAGCT+TGG 0.492100 7:+103094193 None:intergenic
CCTAAATTCATCGTCTGAAA+CGG 0.495889 7:+103093495 None:intergenic
TTCGGATCTTCTCAACGAGC+TGG 0.497082 7:+103094165 None:intergenic
GGCGAAGATGATCGTGGTTG+CGG 0.497664 7:+103094418 None:intergenic
CTCAAAGCTTCTGATAGAAA+CGG 0.498357 7:+103093884 None:intergenic
TCCGGGAACGGCGACGGTGA+CGG 0.500148 7:+103094472 None:intergenic
GAATTACGGGAGTGAAATTG+AGG 0.501359 7:+103093955 None:intergenic
AGCTCCTCCGGGAACGGCGA+CGG 0.517162 7:+103094466 None:intergenic
TCAACGTTTGGATCAAATTG+AGG 0.517701 7:-103094375 MsaT040712.1:CDS
GGCGACGGTGACGGAGGGAA+CGG 0.527528 7:+103094481 None:intergenic
TCGTGTTGCTGTGAAGCCAT+GGG 0.528982 7:+103094629 None:intergenic
ATAGTAACATCACCGGCGAT+TGG 0.530842 7:+103094020 None:intergenic
ACTGCTGGGAATGGTGTAGC+TGG 0.532760 7:-103093630 MsaT040712.1:CDS
CCGTTTAAGGAATTGATGGC+TGG 0.533833 7:-103093573 MsaT040712.1:CDS
ATGGCTGGTGCAATGGGAGG+AGG 0.535572 7:-103093558 MsaT040712.1:CDS
GAGCAAAATGAGCTCTGGTA+AGG 0.538676 7:-103094114 MsaT040712.1:CDS
CGTGAATCTTCAACCATAGG+TGG 0.540544 7:+103094344 None:intergenic
CTTGATGAATTGCGTTCAGT+TGG 0.542946 7:-103093363 MsaT040712.1:CDS
ACGTTTGGAATCGGTTGAGT+CGG 0.547440 7:+103094397 None:intergenic
GTTGTGAGCAAAATGAGCTC+TGG 0.549041 7:-103094119 MsaT040712.1:CDS
ATGGACCGACGAAGACGAGA+TGG 0.549218 7:-103094303 MsaT040712.1:CDS
GGAATTGATGGCTGGTGCAA+TGG 0.550630 7:-103093565 MsaT040712.1:CDS
GTAATAATTGTAGTACTGCT+GGG 0.552619 7:-103093644 MsaT040712.1:CDS
ATTGTGATTGTGATTAGGAT+AGG 0.560354 7:+103093785 None:intergenic
TTGCGTGAATCTTCAACCAT+AGG 0.563271 7:+103094341 None:intergenic
CTTGCGAGAGATTTCAAACG+TGG 0.563273 7:+103094061 None:intergenic
GACGAGATGGAACTGTTACA+AGG 0.568392 7:-103094290 MsaT040712.1:CDS
TTGTGATTGTGATTAGGATA+GGG 0.568508 7:+103093786 None:intergenic
TCTGAGAGCTCCTCCGGGAA+CGG 0.571875 7:+103094460 None:intergenic
GGAACGGCGACGGTGACGGA+GGG 0.575721 7:+103094476 None:intergenic
CGAATACGAAGAAGAAGATG+AGG 0.576730 7:-103094561 MsaT040712.1:CDS
AACAACGTAGCGCCAATCGC+CGG 0.577047 7:-103094032 MsaT040712.1:CDS
GGAGGTCTGAGAGCTCCTCC+GGG 0.580886 7:+103094455 None:intergenic
GGAGGACTGTTTGGATCGCG+TGG 0.584367 7:-103093540 MsaT040712.1:CDS
AATTGGTGGATGAGAAATGG+AGG 0.596698 7:-103093458 MsaT040712.1:CDS
AAGATGATCGTGGTTGCGGT+TGG 0.598224 7:+103094422 None:intergenic
GGGAACGGCGACGGTGACGG+AGG 0.599600 7:+103094475 None:intergenic
CAGTTCCATCTCGTCTTCGT+CGG 0.601304 7:+103094298 None:intergenic
AATTGTAGTACTGCTGGGAA+TGG 0.606803 7:-103093639 MsaT040712.1:CDS
TTCATCGTCTGAAACGGTAG+CGG 0.613739 7:+103093501 None:intergenic
GGAACGGAGATAGAAGCAGA+TGG 0.620359 7:+103094497 None:intergenic
GTCGTCTATAGTAACATCAC+CGG 0.620625 7:+103094013 None:intergenic
TTGATGGCTGGTGCAATGGG+AGG 0.622136 7:-103093561 MsaT040712.1:CDS
CTCGATTACACAACACAGAG+AGG 0.638279 7:-103094263 MsaT040712.1:CDS
TCCCGTAATTCTCAAAAGCG+AGG 0.641190 7:-103093943 MsaT040712.1:CDS
AGCTCGTTGAGAAGATCCGA+AGG 0.641486 7:-103094163 MsaT040712.1:CDS
GATTTGATCGTAGAATTGAG+CGG 0.644134 7:+103094220 None:intergenic
CTTCTGATAGAAACGGATCG+AGG 0.677211 7:+103093891 None:intergenic
TGAGTCGGCGAAGATGATCG+TGG 0.687674 7:+103094412 None:intergenic
GAAGCGTGAATCAAATGATG+CGG 0.695426 7:-103093862 MsaT040712.1:CDS
GTCACCGTCGCCGTTCCCGG+AGG 0.698715 7:-103094470 MsaT040712.1:CDS
AGGCCGTGAACGCTTCCGCG+TGG 0.708545 7:+103093911 None:intergenic
GTGTGATTGAAGAGACAGTG+AGG 0.762218 7:-103093608 MsaT040712.1:CDS
GCGAGGTAAATTCAACCACG+CGG 0.795949 7:-103093926 MsaT040712.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 103093344 103094648 103093344 ID=MsaG040712
Chr7 mRNA 103093344 103094648 103093344 ID=MsaT040712.1;Parent=MsaG040712
Chr7 exon 103093344 103094648 103093344 ID=MsaT040712.1.exon1;Parent=MsaT040712.1
Chr7 CDS 103093344 103094648 103093344 ID=cds.MsaT040712.1;Parent=MsaT040712.1
Gene Sequence

>MsaT040712.1

ATGGCTTCACAGCAACACGACACCGTTTTCGCTGAAGAAGACATCGATGACGAAGAAGAATTTCACGAATACGAAGAAGAAGATGAGGAAGACGACGACGTTTTAGTCGATGACGAAGAAAACGATCTTCCATCTGCTTCTATCTCCGTTCCCTCCGTCACCGTCGCCGTTCCCGGAGGAGCTCTCAGACCTCCAATTCTAACACCAACCGCAACCACGATCATCTTCGCCGACTCAACCGATTCCAAACGTCAACGTTTGGATCAAATTGAGGAGAAAAAACCACCTATGGTTGAAGATTCACGCAAGCTTTTTCAACGTCTATGGACCGACGAAGACGAGATGGAACTGTTACAAGGCTTTCTCGATTACACAACACAGAGAGGTTCTTCTCATCACAACGACACCGCTCAATTCTACGATCAAATCAAATCCAAGCTTCAACTCGATTTCAACAAAAACCAGCTCGTTGAGAAGATCCGAAGGTTGAAGAAGAAATACAGAAACGTTGTGAGCAAAATGAGCTCTGGTAAGGAATTCGTCTTCAAAACTGCTCACGATCAAGCCACGTTTGAAATCTCTCGCAAGATCTGGAACAACGTAGCGCCAATCGCCGGTGATGTTACTATAGACGACGATGAAATCAATCTCAATCCAAGTCCTAACCCTAACCTCAATTTCACTCCCGTAATTCTCAAAAGCGAGGTAAATTCAACCACGCGGAAGCGTTCACGGCCTCGATCCGTTTCTATCAGAAGCTTTGAGAAGCGTGAATCAAATGATGCGGTAGCATCAAACAGAGATCGTGATTATCTCAATATCAACCTCAATAATCCTAATCCCTATCCTAATCACAATCACAATCACAATCCTAATCCTAATGCTTATGCTACAACTGCTACAGTTAATCCTGCAATAACACCTACAATTACTACTCCTAATGTTAATACTAATGCTGCTGCAATTCATGCTAATAACTATAGTAATAATTGTAGTACTGCTGGGAATGGTGTAGCTGGTGTGATTGAAGAGACAGTGAGGAGTTGTTTATCGCCGTTTAAGGAATTGATGGCTGGTGCAATGGGAGGAGGACTGTTTGGATCGCGTGGAAGTTTCGCGATGAATCCGCTACCGTTTCAGACGATGAATTTAGGTTTTGGAGGTGGAGAATTGGTGGATGAGAAATGGAGGAAGCAACAGATTTTGGAATTGGAAGTGTATTCAAAGAGATTGGAGTTAGTTCAAGATCAGATCAAAACATCTCTTGATGAATTGCGTTCAGTTGGTGGATCAGCTCAACTGTGA
Protein sequence

>MsaT040712.1

MASQQHDTVFAEEDIDDEEEFHEYEEEDEEDDDVLVDDEENDLPSASISVPSVTVAVPGGALRPPILTPTATTIIFADSTDSKRQRLDQIEEKKPPMVEDSRKLFQRLWTDEDEMELLQGFLDYTTQRGSSHHNDTAQFYDQIKSKLQLDFNKNQLVEKIRRLKKKYRNVVSKMSSGKEFVFKTAHDQATFEISRKIWNNVAPIAGDVTIDDDEINLNPSPNPNLNFTPVILKSEVNSTTRKRSRPRSVSIRSFEKRESNDAVASNRDRDYLNINLNNPNPYPNHNHNHNPNPNAYATTATVNPAITPTITTPNVNTNAAAIHANNYSNNCSTAGNGVAGVIEETVRSCLSPFKELMAGAMGGGLFGSRGSFAMNPLPFQTMNLGFGGGELVDEKWRKQQILELEVYSKRLELVQDQIKTSLDELRSVGGSAQL*