AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044313


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044313 MtrunA17_Chr8g0373001 98.786 412 5 0 1 412 1 412 0.0 838
MsaG044313 MtrunA17_Chr5g0404321 73.077 416 108 2 1 412 1 416 0.0 629
MsaG044313 MtrunA17_Chr8g0373361 70.171 409 104 7 1 405 11 405 0.0 544
MsaG044313 MtrunA17_Chr1g0155301 59.259 432 146 7 1 412 1 422 9.75e-175 494
MsaG044313 MtrunA17_Chr8g0373331 58.637 411 101 8 1 405 1 348 8.54e-154 438
MsaG044313 MtrunA17_Chr2g0286441 57.453 369 148 3 46 412 32 393 1.38e-148 427
MsaG044313 MtrunA17_Chr2g0278511 52.093 430 185 8 1 412 1 427 2.09e-145 420
MsaG044313 MtrunA17_Chr1g0201891 51.364 440 177 12 1 412 1 431 5.31e-143 414
MsaG044313 MtrunA17_Chr1g0196071 51.905 420 176 7 1 412 1 402 1.14e-142 412
MsaG044313 MtrunA17_Chr2g0315641 51.944 360 143 2 53 412 42 371 1.81e-125 367
MsaG044313 MtrunA17_Chr8g0373351 52.320 388 71 9 37 409 3 291 1.55e-110 326
MsaG044313 MtrunA17_Chr2g0315651 45.479 376 168 7 41 412 25 367 9.15e-99 299
MsaG044313 MtrunA17_Chr1g0156151 54.673 214 91 2 1 210 1 212 3.28e-71 223
MsaG044313 MtrunA17_Chr8g0373341 58.296 223 49 5 1 205 1 197 2.85e-64 209
MsaG044313 MtrunA17_Chr8g0373341 58.537 123 50 1 281 402 198 320 8.19e-39 142
MsaG044313 MtrunA17_Chr3g0091401 52.475 101 41 2 96 196 9 102 2.01e-26 102
MsaG044313 MtrunA17_Chr2g0334041 27.513 189 114 7 233 411 184 359 5.85e-12 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044313 AT2G18280.2 62.981 416 127 9 1 412 1 393 1.10e-177 501
MsaG044313 AT2G18280.1 62.981 416 127 9 1 412 1 393 1.10e-177 501
MsaG044313 AT2G47900.3 53.606 416 180 6 1 412 1 407 1.61e-149 430
MsaG044313 AT2G47900.2 53.735 415 180 6 1 412 1 406 3.52e-149 429
MsaG044313 AT2G47900.1 53.735 415 180 6 1 412 1 406 3.52e-149 429
MsaG044313 AT1G47270.3 54.545 429 137 11 1 412 1 388 2.33e-148 426
MsaG044313 AT1G47270.2 54.779 429 136 11 1 412 25 412 3.54e-148 427
MsaG044313 AT1G47270.1 54.779 429 136 11 1 412 26 413 4.41e-148 427
MsaG044313 AT1G25280.1 49.889 449 184 9 1 412 1 445 3.90e-141 410
MsaG044313 AT1G76900.2 49.127 458 184 8 1 412 1 455 4.67e-138 402
MsaG044313 AT1G76900.1 49.127 458 184 8 1 412 1 455 4.67e-138 402
MsaG044313 AT1G76900.3 49.127 458 184 8 1 412 1 455 4.67e-138 402
MsaG044313 AT1G43640.1 47.045 440 194 11 1 412 1 429 6.25e-129 379
MsaG044313 AT3G06380.1 51.507 365 155 7 53 412 33 380 5.16e-123 362
MsaG044313 AT1G53320.1 51.515 363 146 4 53 412 44 379 1.94e-122 360
MsaG044313 AT5G18680.1 50.541 370 162 7 49 412 35 389 8.34e-120 353
MsaG044313 AT1G43640.2 49.051 369 157 8 67 412 3 363 1.72e-116 344
MsaG044313 AT3G06380.2 51.163 301 126 6 116 412 5 288 5.09e-98 295
MsaG044313 AT5G18680.2 51.290 310 131 6 108 412 3 297 1.80e-97 293
MsaG044313 AT1G25280.3 51.866 268 101 5 172 412 1 267 4.96e-85 260
MsaG044313 AT1G25280.2 51.866 268 101 5 172 412 1 267 4.96e-85 260
MsaG044313 AT1G61940.2 54.023 87 40 0 56 142 1 87 5.24e-28 111
MsaG044313 AT1G61940.1 54.098 61 28 0 56 116 1 61 2.02e-16 79.0

Find 112 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGGCCCTTCTTATCTTTC+TGG 0.112808 8:-58566498 None:intergenic
ATTACTTGCTTCAATGAAAT+AGG 0.231585 8:-58566059 None:intergenic
ATGATGCAGTGCACTCTTCT+TGG 0.233427 8:-58566875 None:intergenic
GAGGTAATGATGTTGGGGTT+GGG 0.282508 8:-58566940 None:intergenic
TCTACCTCCTGAATTGCTTT+TGG 0.284311 8:+58565893 MsaT044313.1:CDS
TGACCGACATAGCCAATTCT+TGG 0.292823 8:-58565808 None:intergenic
ATCTTACAGTTTGGAAAGAT+TGG 0.295811 8:+58567241 MsaT044313.1:CDS
TATACCTATCTCAGCTATTC+AGG 0.328559 8:+58566904 MsaT044313.1:CDS
ATTATGTCCAAAAGCAATTC+AGG 0.329275 8:-58565900 None:intergenic
CTAGCACTTGGTCGACGATT+TGG 0.346541 8:-58566758 None:intergenic
TGAGGTAATGATGTTGGGGT+TGG 0.346751 8:-58566941 None:intergenic
CTCTCATTCACAAGCAGGTT+TGG 0.347646 8:-58567344 None:intergenic
AGGTAATGATGTTGGGGTTG+GGG 0.348080 8:-58566939 None:intergenic
CCCTGTTGAATAGGTTCAAC+TGG 0.348623 8:-58565858 None:intergenic
CTTTGTGTTGTACTTAGGTT+TGG 0.360907 8:+58566236 MsaT044313.1:CDS
TCCAGTTGAACCTATTCAAC+AGG 0.363499 8:+58565857 MsaT044313.1:CDS
ATCCGATCCAGTGCTTTATT+CGG 0.365212 8:+58566193 MsaT044313.1:CDS
TTTACCAACATATTTGTTGC+TGG 0.366133 8:-58566567 None:intergenic
GAAAGGGTAATCTTACAGTT+TGG 0.371540 8:+58567232 MsaT044313.1:CDS
CCAGAGAGCATTTAGCTCAT+AGG 0.381684 8:-58566843 None:intergenic
GTGTTGGTGCCTAAACTTCA+TGG 0.395112 8:+58567126 MsaT044313.1:CDS
ATCGAGCCTTGGCTCGGTTC+TGG 0.397446 8:-58567052 None:intergenic
TCTACCTTTGTGTTGTACTT+AGG 0.419669 8:+58566231 MsaT044313.1:CDS
TAACACGACCCATGAAGTTT+AGG 0.421461 8:-58567135 None:intergenic
CACCGACTTCGTCATATCCT+TGG 0.432911 8:+58566523 MsaT044313.1:CDS
ATATTTGAGGTAATGATGTT+GGG 0.438676 8:-58566946 None:intergenic
CCAGCATGTAACAATCTTGT+TGG 0.440142 8:+58566812 MsaT044313.1:CDS
GTGCTTCGGTATGTAAATCA+TGG 0.451227 8:+58565979 MsaT044313.1:CDS
CTAAATGCTCTCTGGACTAG+AGG 0.452982 8:+58566851 MsaT044313.1:CDS
TTTCTTCCGCTGAGCAAGAA+AGG 0.454492 8:+58567215 MsaT044313.1:CDS
CCTTCCTGAATAGCTGAGAT+AGG 0.455053 8:-58566908 None:intergenic
TCAAGCAGATTGCAAAGGCT+TGG 0.460094 8:-58567309 None:intergenic
TTCTTTCAGTGCTGGTGAGG+GGG 0.460173 8:-58566984 None:intergenic
AATATTTGAGGTAATGATGT+TGG 0.461771 8:-58566947 None:intergenic
GGGGTTCCGACACCAAGAAT+TGG 0.468962 8:+58565796 MsaT044313.1:CDS
AGCATTTAGCTCATAGGAAA+TGG 0.472326 8:-58566837 None:intergenic
GCCCACTGTCCCTGTTGAAT+AGG 0.474061 8:-58565867 None:intergenic
CCAGAGTACGAATCTGTCAT+TGG 0.478687 8:-58567013 None:intergenic
AAAGGTTCACTGAATATTTG+AGG 0.481469 8:-58566959 None:intergenic
TTGAAGAGAGTGAGACATCT+TGG 0.483464 8:+58565931 MsaT044313.1:CDS
GTTGTCATATATAGCAAACT+TGG 0.484168 8:-58566708 None:intergenic
AAAACAACAACAGCACGTGC+AGG 0.486562 8:-58565954 None:intergenic
CCAAGGCTCGATGGACTCCT+TGG 0.492424 8:+58567063 MsaT044313.1:CDS
CCTATGAGCTAAATGCTCTC+TGG 0.493546 8:+58566843 MsaT044313.1:CDS
CACAGCTCTCATTCACAAGC+AGG 0.495782 8:-58567349 None:intergenic
ACCGACTTCGTCATATCCTT+GGG 0.498593 8:+58566524 MsaT044313.1:CDS
GTCAAAGTCACATGTTGCTC+CGG 0.499201 8:+58565827 MsaT044313.1:CDS
TTGTTACATGCTGGAACTCT+TGG 0.500747 8:-58566803 None:intergenic
TCGGTTCTGGTAGCTCTGAT+AGG 0.502232 8:-58567039 None:intergenic
AAGTATAGTCCGCGAGCTCA+AGG 0.504569 8:+58565740 MsaT044313.1:CDS
TGCTAGACTTAATTCTAAGC+AGG 0.515167 8:+58566775 MsaT044313.1:CDS
TTTCTTTCAGTGCTGGTGAG+GGG 0.522102 8:-58566985 None:intergenic
TCTTTCAGTGCTGGTGAGGG+GGG 0.523809 8:-58566983 None:intergenic
GATCGGATAATCACGAGGAC+CGG 0.524270 8:-58566178 None:intergenic
GCAGATTGCAAAGGCTTGGA+AGG 0.525320 8:-58567305 None:intergenic
AATAGGTAGCATATCAAAGC+GGG 0.526116 8:+58565776 MsaT044313.1:CDS
TTCTTCCGCTGAGCAAGAAA+GGG 0.530855 8:+58567216 MsaT044313.1:CDS
GGTTCAACTGGAGTTACATC+CGG 0.536368 8:-58565846 None:intergenic
TAGCCGCCAGAAAGATAAGA+AGG 0.537324 8:+58566492 MsaT044313.1:CDS
CCAAGGAGTCCATCGAGCCT+TGG 0.540676 8:-58567063 None:intergenic
ATCGGATAATCACGAGGACC+GGG 0.546623 8:-58566177 None:intergenic
AGTATAGTCCGCGAGCTCAA+GGG 0.546651 8:+58565741 MsaT044313.1:CDS
CCAATGACAGATTCGTACTC+TGG 0.552500 8:+58567013 MsaT044313.1:CDS
CCAACAAGATTGTTACATGC+TGG 0.555601 8:-58566812 None:intergenic
TGAAGTTTAGGCACCAACAC+TGG 0.557707 8:-58567123 None:intergenic
CGAGCCAGCAACAAATATGT+TGG 0.568606 8:+58566563 MsaT044313.1:CDS
CGATCCAGTGCTTTATTCGG+AGG 0.568767 8:+58566196 MsaT044313.1:CDS
ACCTATTCAACAGGGACAGT+GGG 0.571704 8:+58565866 MsaT044313.1:CDS
GAGTCCATCGAGCCTTGGCT+CGG 0.572639 8:-58567058 None:intergenic
TGTTGGTGCCTAAACTTCAT+GGG 0.575598 8:+58567127 MsaT044313.1:CDS
TGTTCCTCCGAATAAAGCAC+TGG 0.582412 8:-58566200 None:intergenic
TGGAGCTGCTCATGCCACCT+AGG 0.585203 8:-58567103 None:intergenic
GGCATGAGCAGCTCCAGTGT+TGG 0.585590 8:+58567110 MsaT044313.1:CDS
GGCCCTTCTTATCTTTCTGG+CGG 0.587954 8:-58566495 None:intergenic
GTATAGTCCGCGAGCTCAAG+GGG 0.588978 8:+58565742 MsaT044313.1:CDS
AGAAAGATAAGAAGGGCCAC+AGG 0.590973 8:+58566500 MsaT044313.1:CDS
GCTTGTCAAGCAGATTGCAA+AGG 0.591302 8:-58567314 None:intergenic
CTCCGAATAAAGCACTGGAT+CGG 0.592057 8:-58566195 None:intergenic
TAAATGCTCTCTGGACTAGA+GGG 0.594786 8:+58566852 MsaT044313.1:CDS
CTGCAGCGTCATGTGGAGGT+TGG 0.594900 8:-58566730 None:intergenic
AGAACCGAGCCAAGGCTCGA+TGG 0.600159 8:+58567054 MsaT044313.1:CDS
ACACCAAGAATTGGCTATGT+CGG 0.600503 8:+58565805 MsaT044313.1:CDS
AAACTCCTCAGCAATGTGGA+AGG 0.605709 8:+58566027 MsaT044313.1:CDS
CCTATCTCAGCTATTCAGGA+AGG 0.605737 8:+58566908 MsaT044313.1:CDS
AAGGCTTGGAAGGCAGAGAG+TGG 0.610317 8:-58567295 None:intergenic
GAGTGGGTAAGAGTAGTCCA+TGG 0.613248 8:-58567278 None:intergenic
TATTTGAGGTAATGATGTTG+GGG 0.613275 8:-58566945 None:intergenic
ACAAATATGTTGGTAAACTG+AGG 0.614123 8:+58566573 MsaT044313.1:CDS
TATGACGAAGTCGGTGCCTG+TGG 0.616731 8:-58566516 None:intergenic
CTTCATGGGTCGTGTTACAG+TGG 0.629354 8:+58567141 MsaT044313.1:CDS
ATCAAAACTCCTCAGCAATG+TGG 0.629509 8:+58566023 MsaT044313.1:CDS
ACATAGCCAATTCTTGGTGT+CGG 0.630203 8:-58565802 None:intergenic
AACCTATTCAACAGGGACAG+TGG 0.631854 8:+58565865 MsaT044313.1:CDS
GGTTGAACTGCAGCGTCATG+TGG 0.634444 8:-58566737 None:intergenic
TTAGAATTAAGTCTAGCACT+TGG 0.637554 8:-58566770 None:intergenic
ATCTCAGCTATTCAGGAAGG+AGG 0.641582 8:+58566911 MsaT044313.1:CDS
GAGCTACCAGAACCGAGCCA+AGG 0.641949 8:+58567046 MsaT044313.1:CDS
GCGGAAGAAACATTATGAGA+CGG 0.646089 8:-58567202 None:intergenic
TGGAAAAGATATATTCACCA+TGG 0.647072 8:+58567261 MsaT044313.1:CDS
AGGCTTGGAAGGCAGAGAGT+GGG 0.650720 8:-58567294 None:intergenic
AGCCGCCAGAAAGATAAGAA+GGG 0.664963 8:+58566493 MsaT044313.1:CDS
GTGATCCTTCCACATTGCTG+AGG 0.665555 8:-58566032 None:intergenic
ACCCAAGGATATGACGAAGT+CGG 0.668918 8:-58566525 None:intergenic
TGAACTGCAGCGTCATGTGG+AGG 0.671155 8:-58566734 None:intergenic
CACTGGATCGGATAATCACG+AGG 0.678479 8:-58566183 None:intergenic
CCAGTTGAACCTATTCAACA+GGG 0.686684 8:+58565858 MsaT044313.1:CDS
CAAACCTAAGTACAACACAA+AGG 0.688859 8:-58566235 None:intergenic
GATTACCCTTTCTTGCTCAG+CGG 0.690765 8:-58567221 None:intergenic
ATGTCCAAAAGCAATTCAGG+AGG 0.691534 8:-58565897 None:intergenic
CTTCGGTATGTAAATCATGG+AGG 0.713760 8:+58565982 MsaT044313.1:CDS
GAATAGGTAGCATATCAAAG+CGG 0.721866 8:+58565775 MsaT044313.1:CDS
ATAGGTAGCATATCAAAGCG+GGG 0.729686 8:+58565777 MsaT044313.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 58565729 58567363 58565729 ID=MsaG044313
Chr8 mRNA 58565729 58567363 58565729 ID=MsaT044313.1;Parent=MsaG044313
Chr8 exon 58565729 58566076 58565729 ID=MsaT044313.1.exon1;Parent=MsaT044313.1
Chr8 CDS 58565729 58566076 58565729 ID=cds.MsaT044313.1;Parent=MsaT044313.1
Chr8 exon 58566177 58566264 58566177 ID=MsaT044313.1.exon2;Parent=MsaT044313.1
Chr8 CDS 58566177 58566264 58566177 ID=cds.MsaT044313.1;Parent=MsaT044313.1
Chr8 exon 58566465 58566594 58566465 ID=MsaT044313.1.exon3;Parent=MsaT044313.1
Chr8 CDS 58566465 58566594 58566465 ID=cds.MsaT044313.1;Parent=MsaT044313.1
Chr8 exon 58566691 58567363 58566691 ID=MsaT044313.1.exon4;Parent=MsaT044313.1
Chr8 CDS 58566691 58567363 58566691 ID=cds.MsaT044313.1;Parent=MsaT044313.1
Gene Sequence

>MsaT044313.1

ATGTCATTCAAAAGTATAGTCCGCGAGCTCAAGGGGATGAAAAATGGAATAGGTAGCATATCAAAGCGGGGTTCCGACACCAAGAATTGGCTATGTCGGTCAAAGTCACATGTTGCTCCGGATGTAACTCCAGTTGAACCTATTCAACAGGGACAGTGGGCGAGTCTACCTCCTGAATTGCTTTTGGACATAATCTGTAGGGTTGAAGAGAGTGAGACATCTTGGCCTGCACGTGCTGTTGTTGTTTTTTGTGCTTCGGTATGTAAATCATGGAGGTCTGTCACTAAAGAGATCATCAAAACTCCTCAGCAATGTGGAAGGATCACATTTCCTATTTCATTGAAGCAACCCGGTCCTCGTGATTATCCGATCCAGTGCTTTATTCGGAGGAACAGAGAAACTTCTACCTTTGTGTTGTACTTAGGTTTGGTGCCATCGGAGCATGAGAGTAATAAGTTGTTATTAGCCGCCAGAAAGATAAGAAGGGCCACAGGCACCGACTTCGTCATATCCTTGGGTACAGACGATTTTTCTCGAGCCAGCAACAAATATGTTGGTAAACTGAGGTCTAATTTTTGGGGAACCAAGTTTGCTATATATGACAACCAACCTCCACATGACGCTGCAGTTCAACCAAATCGTCGACCAAGTGCTAGACTTAATTCTAAGCAGGTGTCACCAAGAGTTCCAGCATGTAACAATCTTGTTGGCACCATTTCCTATGAGCTAAATGCTCTCTGGACTAGAGGGCCAAGAAGAGTGCACTGCATCATGAACTCTATACCTATCTCAGCTATTCAGGAAGGAGGCATCGCCCCAACCCCAACATCATTACCTCAAATATTCAGTGAACCTTTTCCCCCCTCACCAGCACTGAAAGAAAAAAGTCCAATGACAGATTCGTACTCTGGTTGCCTATCAGAGCTACCAGAACCGAGCCAAGGCTCGATGGACTCCTTGGTACTTAAAAACAAGTCTCCTAGGTGGCATGAGCAGCTCCAGTGTTGGTGCCTAAACTTCATGGGTCGTGTTACAGTGGCATCTGTTAAGAACTTTCAACTTGTAGCTTCTGTTGATCCGTCTCATAATGTTTCTTCCGCTGAGCAAGAAAGGGTAATCTTACAGTTTGGAAAGATTGGAAAAGATATATTCACCATGGACTACTCTTACCCACTCTCTGCCTTCCAAGCCTTTGCAATCTGCTTGACAAGCTTTGATACCAAACCTGCTTGTGAATGA

Protein sequence

>MsaT044313.1

MSFKSIVRELKGMKNGIGSISKRGSDTKNWLCRSKSHVAPDVTPVEPIQQGQWASLPPELLLDIICRVEESETSWPARAVVVFCASVCKSWRSVTKEIIKTPQQCGRITFPISLKQPGPRDYPIQCFIRRNRETSTFVLYLGLVPSEHESNKLLLAARKIRRATGTDFVISLGTDDFSRASNKYVGKLRSNFWGTKFAIYDNQPPHDAAVQPNRRPSARLNSKQVSPRVPACNNLVGTISYELNALWTRGPRRVHCIMNSIPISAIQEGGIAPTPTSLPQIFSEPFPPSPALKEKSPMTDSYSGCLSELPEPSQGSMDSLVLKNKSPRWHEQLQCWCLNFMGRVTVASVKNFQLVASVDPSHNVSSAEQERVILQFGKIGKDIFTMDYSYPLSAFQAFAICLTSFDTKPACE*