AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680032843.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032843.01.T01 MTR_6g052290 93.927 247 15 0 1 247 1 247 4.21e-157 436
MsG0680032843.01.T01 MTR_1g099630 51.667 240 77 5 1 240 1 201 1.38e-71 218
MsG0680032843.01.T01 MTR_8g017100 36.220 254 100 8 1 248 1 198 7.92e-34 121
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032843.01.T01 AT1G64700 40.291 206 98 5 1 204 1 183 1.46e-39 136
MsG0680032843.01.T01 AT3G61920 33.333 213 77 6 1 204 1 157 4.34e-26 100

Find 75 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGATGAAATTGACTGTAAT+TGG 0.207329 6:+50841777 None:intergenic
TTGGTCATTGGTTGGGAATA+TGG 0.294493 6:+50841734 None:intergenic
TGGTGTTGCTGCTGCTGCTT+CGG 0.298041 6:-50841253 MsG0680032843.01.T01:CDS
TAATCTAATGACATTCTATA+CGG 0.310562 6:+50841513 None:intergenic
CCACAGAATCTTTCTCTTGT+AGG 0.312297 6:-50841452 MsG0680032843.01.T01:CDS
GACAAAGTGGTTTGGAAGAT+TGG 0.322275 6:+50841715 None:intergenic
GGGTAGTCAACTTTGTTGTT+AGG 0.334136 6:+50841633 None:intergenic
GGTGTTGCTGCTGCTGCTTC+GGG 0.344835 6:-50841252 MsG0680032843.01.T01:CDS
CATGTCCTTCTCGGATAATA+AGG 0.354446 6:+50841574 None:intergenic
GTAGAAAGAGTACTGGGATT+TGG 0.357776 6:-50841377 MsG0680032843.01.T01:CDS
ATCAAATTGACAAAGTGGTT+TGG 0.365305 6:+50841707 None:intergenic
TGATGAAATTGACTGTAATT+GGG 0.367925 6:+50841778 None:intergenic
GTCAAAGTCATAACATTTGA+TGG 0.378394 6:-50841822 MsG0680032843.01.T01:CDS
TGGAAGATTGGTCATTGGTT+GGG 0.384413 6:+50841727 None:intergenic
AACATGGGAAATTGCTTGTT+AGG 0.387401 6:-50841870 MsG0680032843.01.T01:CDS
GCCTTAGTTCTAGACACTTA+AGG 0.388149 6:-50841141 None:intergenic
ACTAAGGCATCAACCTTAGA+AGG 0.390101 6:+50841156 None:intergenic
AGCAGCAGCAACACCACATT+TGG 0.392123 6:+50841260 None:intergenic
CAAGCATTGTTTCTGATCAA+TGG 0.392265 6:-50841206 MsG0680032843.01.T01:CDS
GAGACCTAACATGTCCTTCT+CGG 0.397152 6:+50841565 None:intergenic
GATAATAAGGCCACCGTTGT+TGG 0.407488 6:+50841587 None:intergenic
TGGTAGGAGTGCTCCTTCTA+AGG 0.412801 6:-50841169 MsG0680032843.01.T01:CDS
TTATCCGAGAAGGACATGTT+AGG 0.413196 6:-50841569 MsG0680032843.01.T01:CDS
ACCTTAAGTGTCTAGAACTA+AGG 0.425904 6:+50841140 None:intergenic
TTGGGAATATGGCATGGCCT+TGG 0.428069 6:+50841745 None:intergenic
GCTGCTGCTTCGGGTGGTTG+TGG 0.430306 6:-50841243 MsG0680032843.01.T01:CDS
CACAGTCTCAATCAATTCCT+TGG 0.431276 6:+50841293 None:intergenic
CGGAGTAGTAGAAAGAGTAC+TGG 0.450581 6:-50841384 MsG0680032843.01.T01:CDS
ATTCTATACGGGGCGGGGAG+AGG 0.465976 6:+50841525 None:intergenic
ATGACTTTGACCAATGTGTC+TGG 0.466597 6:+50841834 None:intergenic
CAACTTTGTTGTTAGGTGAC+AGG 0.467815 6:+50841640 None:intergenic
GGGGCGGGGAGAGGTGTTGT+AGG 0.471757 6:+50841534 None:intergenic
TTGGAAGATTGGTCATTGGT+TGG 0.479312 6:+50841726 None:intergenic
CAATTTGATGAGTTGGTGGC+AGG 0.489858 6:-50841693 MsG0680032843.01.T01:CDS
AATCTAATGACATTCTATAC+GGG 0.502162 6:+50841514 None:intergenic
TATAACTCCGGAAAAGTTGT+TGG 0.507880 6:-50841340 MsG0680032843.01.T01:CDS
AACATTTGATGGCAACATCA+TGG 0.516060 6:-50841811 MsG0680032843.01.T01:CDS
TCAGCGGTGGCAAAGATTGA+AGG 0.516169 6:+50841612 None:intergenic
AACTCATCAAATTGACAAAG+TGG 0.518124 6:+50841702 None:intergenic
ACTTTGTCAATTTGATGAGT+TGG 0.522911 6:-50841700 MsG0680032843.01.T01:CDS
TTCATCACAAATGAATTCCA+AGG 0.532652 6:-50841762 MsG0680032843.01.T01:CDS
ACCCTACACCTTGATAGTAT+TGG 0.533238 6:+50841490 None:intergenic
TGGTTTGGAAGATTGGTCAT+TGG 0.536765 6:+50841722 None:intergenic
TTAGATTACCAATACTATCA+AGG 0.549144 6:-50841498 MsG0680032843.01.T01:CDS
ACCGTTGTTGGTCTCAGCGG+TGG 0.553549 6:+50841599 None:intergenic
AATGACATTCTATACGGGGC+GGG 0.558786 6:+50841519 None:intergenic
ACCAATACTATCAAGGTGTA+GGG 0.562664 6:-50841491 MsG0680032843.01.T01:CDS
GTTGCTGCTGCTGCTTCGGG+TGG 0.564091 6:-50841249 MsG0680032843.01.T01:CDS
TTGTCAATTTGATGAGTTGG+TGG 0.566216 6:-50841697 MsG0680032843.01.T01:CDS
AGTGAAGTTGTGTATAACTC+CGG 0.568519 6:-50841352 MsG0680032843.01.T01:CDS
GTCACAAGAGGTTTCAACCA+AGG 0.572538 6:-50841310 MsG0680032843.01.T01:CDS
CAATGGAGTCTTTCTAGTAG+TGG 0.572592 6:-50841189 MsG0680032843.01.T01:CDS
TACCAATACTATCAAGGTGT+AGG 0.584243 6:-50841492 MsG0680032843.01.T01:CDS
CATTGGTTGGGAATATGGCA+TGG 0.588108 6:+50841739 None:intergenic
GCCACCGTTGTTGGTCTCAG+CGG 0.589099 6:+50841596 None:intergenic
GGAGTCTTTCTAGTAGTGGT+AGG 0.594755 6:-50841185 MsG0680032843.01.T01:CDS
TTAGGTGACAGGACAGTCAT+CGG 0.599408 6:+50841651 None:intergenic
GATGAAATTGACTGTAATTG+GGG 0.613309 6:+50841779 None:intergenic
GGAGTAGTAGAAAGAGTACT+GGG 0.617014 6:-50841383 MsG0680032843.01.T01:CDS
CAATGTGTCTGGATCTGAGT+TGG 0.617915 6:+50841845 None:intergenic
ATGACATTCTATACGGGGCG+GGG 0.620266 6:+50841520 None:intergenic
GCATTGTTAGTAGTAGTAGA+CGG 0.626707 6:-50841404 MsG0680032843.01.T01:CDS
CAACTCAGATCCAGACACAT+TGG 0.630608 6:-50841844 MsG0680032843.01.T01:CDS
CCTACAAGAGAAAGATTCTG+TGG 0.632886 6:+50841452 None:intergenic
CAGCGGTGGCAAAGATTGAA+GGG 0.640627 6:+50841613 None:intergenic
GGTGGCCTTATTATCCGAGA+AGG 0.644171 6:-50841579 MsG0680032843.01.T01:CDS
AGGAATTGATTGAGACTGTG+AGG 0.654667 6:-50841290 MsG0680032843.01.T01:CDS
GTGAGGATTGTAGCCAAATG+TGG 0.663151 6:-50841273 MsG0680032843.01.T01:CDS
ACCGCTGAGACCAACAACGG+TGG 0.664546 6:-50841597 MsG0680032843.01.T01:CDS
TAATGACATTCTATACGGGG+CGG 0.671273 6:+50841518 None:intergenic
ACAAGAGAAAGATTCTGTGG+AGG 0.691330 6:+50841455 None:intergenic
TGAAATTGACTGTAATTGGG+GGG 0.691964 6:+50841781 None:intergenic
GCCACCGCTGAGACCAACAA+CGG 0.694118 6:-50841600 MsG0680032843.01.T01:CDS
ATCTAATGACATTCTATACG+GGG 0.698262 6:+50841515 None:intergenic
ATGAAATTGACTGTAATTGG+GGG 0.726418 6:+50841780 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATCTAATGACATTCTATA+CGG + Chr6:50841500-50841519 None:intergenic 20.0%
! AATCTAATGACATTCTATAC+GGG + Chr6:50841499-50841518 None:intergenic 25.0%
! TGATGAAATTGACTGTAATT+GGG + Chr6:50841235-50841254 None:intergenic 25.0%
! TTAGATTACCAATACTATCA+AGG - Chr6:50841512-50841531 MsG0680032843.01.T01:CDS 25.0%
AACTCATCAAATTGACAAAG+TGG + Chr6:50841311-50841330 None:intergenic 30.0%
ACTTTGTCAATTTGATGAGT+TGG - Chr6:50841310-50841329 MsG0680032843.01.T01:CDS 30.0%
ATCAAATTGACAAAGTGGTT+TGG + Chr6:50841306-50841325 None:intergenic 30.0%
ATCTAATGACATTCTATACG+GGG + Chr6:50841498-50841517 None:intergenic 30.0%
ATGAAATTGACTGTAATTGG+GGG + Chr6:50841233-50841252 None:intergenic 30.0%
GATGAAATTGACTGTAATTG+GGG + Chr6:50841234-50841253 None:intergenic 30.0%
GTCAAAGTCATAACATTTGA+TGG - Chr6:50841188-50841207 MsG0680032843.01.T01:CDS 30.0%
GTGATGAAATTGACTGTAAT+TGG + Chr6:50841236-50841255 None:intergenic 30.0%
TTCATCACAAATGAATTCCA+AGG - Chr6:50841248-50841267 MsG0680032843.01.T01:CDS 30.0%
! AAAATCTCCAACAACTTTTC+CGG + Chr6:50841680-50841699 None:intergenic 30.0%
ACCAATACTATCAAGGTGTA+GGG - Chr6:50841519-50841538 MsG0680032843.01.T01:CDS 35.0%
AGTGAAGTTGTGTATAACTC+CGG - Chr6:50841658-50841677 MsG0680032843.01.T01:CDS 35.0%
GCATTGTTAGTAGTAGTAGA+CGG - Chr6:50841606-50841625 MsG0680032843.01.T01:CDS 35.0%
TACCAATACTATCAAGGTGT+AGG - Chr6:50841518-50841537 MsG0680032843.01.T01:CDS 35.0%
TATAACTCCGGAAAAGTTGT+TGG - Chr6:50841670-50841689 MsG0680032843.01.T01:CDS 35.0%
TGAAATTGACTGTAATTGGG+GGG + Chr6:50841232-50841251 None:intergenic 35.0%
! AACATTTGATGGCAACATCA+TGG - Chr6:50841199-50841218 MsG0680032843.01.T01:CDS 35.0%
! TTGTCAATTTGATGAGTTGG+TGG - Chr6:50841313-50841332 MsG0680032843.01.T01:CDS 35.0%
!! CAAGCATTGTTTCTGATCAA+TGG - Chr6:50841804-50841823 MsG0680032843.01.T01:CDS 35.0%
ACAAGAGAAAGATTCTGTGG+AGG + Chr6:50841558-50841577 None:intergenic 40.0%
AGGAATTGATTGAGACTGTG+AGG - Chr6:50841720-50841739 MsG0680032843.01.T01:CDS 40.0%
ATGACTTTGACCAATGTGTC+TGG + Chr6:50841179-50841198 None:intergenic 40.0%
CACAGTCTCAATCAATTCCT+TGG + Chr6:50841720-50841739 None:intergenic 40.0%
CATGTCCTTCTCGGATAATA+AGG + Chr6:50841439-50841458 None:intergenic 40.0%
CCACAGAATCTTTCTCTTGT+AGG - Chr6:50841558-50841577 MsG0680032843.01.T01:CDS 40.0%
CCTACAAGAGAAAGATTCTG+TGG + Chr6:50841561-50841580 None:intergenic 40.0%
TAATGACATTCTATACGGGG+CGG + Chr6:50841495-50841514 None:intergenic 40.0%
TTATCCGAGAAGGACATGTT+AGG - Chr6:50841441-50841460 MsG0680032843.01.T01:CDS 40.0%
! ACCCTACACCTTGATAGTAT+TGG + Chr6:50841523-50841542 None:intergenic 40.0%
! ACTAAGGCATCAACCTTAGA+AGG + Chr6:50841857-50841876 None:intergenic 40.0%
! CAATGGAGTCTTTCTAGTAG+TGG - Chr6:50841821-50841840 MsG0680032843.01.T01:CDS 40.0%
! GACAAAGTGGTTTGGAAGAT+TGG + Chr6:50841298-50841317 None:intergenic 40.0%
! GTTGGAGATTTTGTCACAAG+AGG - Chr6:50841688-50841707 MsG0680032843.01.T01:CDS 40.0%
! TGGAAGATTGGTCATTGGTT+GGG + Chr6:50841286-50841305 None:intergenic 40.0%
! TGGTTTGGAAGATTGGTCAT+TGG + Chr6:50841291-50841310 None:intergenic 40.0%
! TTGGAAGATTGGTCATTGGT+TGG + Chr6:50841287-50841306 None:intergenic 40.0%
! TTGGTCATTGGTTGGGAATA+TGG + Chr6:50841279-50841298 None:intergenic 40.0%
!! CAACTTTGTTGTTAGGTGAC+AGG + Chr6:50841373-50841392 None:intergenic 40.0%
!! GGAGTAGTAGAAAGAGTACT+GGG - Chr6:50841627-50841646 MsG0680032843.01.T01:CDS 40.0%
!! GGGTAGTCAACTTTGTTGTT+AGG + Chr6:50841380-50841399 None:intergenic 40.0%
!! GTAGAAAGAGTACTGGGATT+TGG - Chr6:50841633-50841652 MsG0680032843.01.T01:CDS 40.0%
AATGACATTCTATACGGGGC+GGG + Chr6:50841494-50841513 None:intergenic 45.0%
CAACTCAGATCCAGACACAT+TGG - Chr6:50841166-50841185 MsG0680032843.01.T01:CDS 45.0%
CAATGTGTCTGGATCTGAGT+TGG + Chr6:50841168-50841187 None:intergenic 45.0%
GAGACCTAACATGTCCTTCT+CGG + Chr6:50841448-50841467 None:intergenic 45.0%
GATAATAAGGCCACCGTTGT+TGG + Chr6:50841426-50841445 None:intergenic 45.0%
GTCACAAGAGGTTTCAACCA+AGG - Chr6:50841700-50841719 MsG0680032843.01.T01:CDS 45.0%
GTGAGGATTGTAGCCAAATG+TGG - Chr6:50841737-50841756 MsG0680032843.01.T01:CDS 45.0%
TTAGGTGACAGGACAGTCAT+CGG + Chr6:50841362-50841381 None:intergenic 45.0%
! CATTGGTTGGGAATATGGCA+TGG + Chr6:50841274-50841293 None:intergenic 45.0%
! CGGAGTAGTAGAAAGAGTAC+TGG - Chr6:50841626-50841645 MsG0680032843.01.T01:CDS 45.0%
! GGAGTCTTTCTAGTAGTGGT+AGG - Chr6:50841825-50841844 MsG0680032843.01.T01:CDS 45.0%
!! CAATTTGATGAGTTGGTGGC+AGG - Chr6:50841317-50841336 MsG0680032843.01.T01:CDS 45.0%
AGCAGCAGCAACACCACATT+TGG + Chr6:50841753-50841772 None:intergenic 50.0%
ATGACATTCTATACGGGGCG+GGG + Chr6:50841493-50841512 None:intergenic 50.0%
CAGCGGTGGCAAAGATTGAA+GGG + Chr6:50841400-50841419 None:intergenic 50.0%
TCAGCGGTGGCAAAGATTGA+AGG + Chr6:50841401-50841420 None:intergenic 50.0%
TTGGGAATATGGCATGGCCT+TGG + Chr6:50841268-50841287 None:intergenic 50.0%
!! GGTGGCCTTATTATCCGAGA+AGG - Chr6:50841431-50841450 MsG0680032843.01.T01:CDS 50.0%
!! TGGTAGGAGTGCTCCTTCTA+AGG - Chr6:50841841-50841860 MsG0680032843.01.T01:CDS 50.0%
!! TGGTGTTGCTGCTGCTGCTT+CGG - Chr6:50841757-50841776 MsG0680032843.01.T01:CDS 55.0%
ACCGCTGAGACCAACAACGG+TGG - Chr6:50841413-50841432 MsG0680032843.01.T01:CDS 60.0%
ATTCTATACGGGGCGGGGAG+AGG + Chr6:50841488-50841507 None:intergenic 60.0%
GCCACCGCTGAGACCAACAA+CGG - Chr6:50841410-50841429 MsG0680032843.01.T01:CDS 60.0%
! ACCGTTGTTGGTCTCAGCGG+TGG + Chr6:50841414-50841433 None:intergenic 60.0%
! GCCACCGTTGTTGGTCTCAG+CGG + Chr6:50841417-50841436 None:intergenic 60.0%
!! GGTGTTGCTGCTGCTGCTTC+GGG - Chr6:50841758-50841777 MsG0680032843.01.T01:CDS 60.0%
! GCTGCTGCTTCGGGTGGTTG+TGG - Chr6:50841767-50841786 MsG0680032843.01.T01:CDS 65.0%
! GTTGCTGCTGCTGCTTCGGG+TGG - Chr6:50841761-50841780 MsG0680032843.01.T01:CDS 65.0%
!! GGGGCGGGGAGAGGTGTTGT+AGG + Chr6:50841479-50841498 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr6 gene 50841143 50841889 50841143 ID=MsG0680032843.01;Name=MsG0680032843.01
Chr6 mRNA 50841143 50841889 50841143 ID=MsG0680032843.01.T01;Parent=MsG0680032843.01;Name=MsG0680032843.01.T01;_AED=0.23;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|248
Chr6 exon 50841143 50841889 50841143 ID=MsG0680032843.01.T01:exon:10256;Parent=MsG0680032843.01.T01
Chr6 CDS 50841143 50841889 50841143 ID=MsG0680032843.01.T01:cds;Parent=MsG0680032843.01.T01
Gene Sequence

>MsG0680032843.01.T01

ATGGGAAATTGCTTGTTAGGTGCCAACTCAGATCCAGACACATTGGTCAAAGTCATAACATTTGATGGCAACATCATGGAATTCTACCCCCCAATTACAGTCAATTTCATCACAAATGAATTCCAAGGCCATGCCATATTCCCAACCAATGACCAATCTTCCAAACCACTTTGTCAATTTGATGAGTTGGTGGCAGGACATTCATACTATTTACTGCCGATGACTGTCCTGTCACCTAACAACAAAGTTGACTACCCTTCAATCTTTGCCACCGCTGAGACCAACAACGGTGGCCTTATTATCCGAGAAGGACATGTTAGGTCTCAAAGTGTTCCTACAACACCTCTCCCCGCCCCGTATAGAATGTCATTAGATTACCAATACTATCAAGGTGTAGGGTTGCTCAAAAGAACCTCCACAGAATCTTTCTCTTGTAGGACTAATAGAAGTAGTGTTAAAAAAAGCATTGTTAGTAGTAGTAGACGGAGTAGTAGAAAGAGTACTGGGATTTGGAAAGTGAAGTTGTGTATAACTCCGGAAAAGTTGTTGGAGATTTTGTCACAAGAGGTTTCAACCAAGGAATTGATTGAGACTGTGAGGATTGTAGCCAAATGTGGTGTTGCTGCTGCTGCTTCGGGTGGTTGTGGAATTTCATCTACAACAAGCATTGTTTCTGATCAATGGAGTCTTTCTAGTAGTGGTAGGAGTGCTCCTTCTAAGGTTGATGCCTTAGTTCTAGACACTTAA

Protein sequence

>MsG0680032843.01.T01

MGNCLLGANSDPDTLVKVITFDGNIMEFYPPITVNFITNEFQGHAIFPTNDQSSKPLCQFDELVAGHSYYLLPMTVLSPNNKVDYPSIFATAETNNGGLIIREGHVRSQSVPTTPLPAPYRMSLDYQYYQGVGLLKRTSTESFSCRTNRSSVKKSIVSSSRRSSRKSTGIWKVKLCITPEKLLEILSQEVSTKELIETVRIVAKCGVAAAASGGCGISSTTSIVSDQWSLSSSGRSAPSKVDALVLDT*