AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010020.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010020.01.T01 MTR_2g076590 75.309 162 31 4 45 203 266 421 3.17e-79 244
MsG0280010020.01.T01 MTR_2g076590 84.000 75 11 1 1 74 55 129 1.69e-34 128
MsG0280010020.01.T01 MTR_2g076490 64.835 182 39 4 45 225 266 423 3.97e-72 228
MsG0280010020.01.T01 MTR_2g076490 84.000 75 11 1 1 74 55 129 1.46e-34 129
MsG0280010020.01.T01 MTR_2g076610 72.800 125 28 2 45 169 176 294 3.87e-59 189
MsG0280010020.01.T01 MTR_2g076610 90.909 33 3 0 35 67 19 51 1.70e-12 65.9
MsG0280010020.01.T01 MTR_2g076650 47.429 175 58 6 1 152 22 185 1.78e-36 129
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010020.01.T01 AT1G16905 45.833 144 77 1 62 205 266 408 2.65e-44 154
MsG0280010020.01.T01 AT1G16905 43.678 87 36 2 2 87 52 126 8.94e-15 73.2
MsG0280010020.01.T01 AT1G78850 39.548 177 98 3 51 224 269 439 9.89e-41 145
MsG0280010020.01.T01 AT1G78850 59.155 71 28 1 5 74 56 126 5.14e-19 85.5
MsG0280010020.01.T01 AT1G78860 42.038 157 84 2 51 205 269 420 3.36e-40 143
MsG0280010020.01.T01 AT1G78860 57.746 71 29 1 5 74 56 126 4.50e-18 82.8
MsG0280010020.01.T01 AT1G78820 33.168 202 122 4 16 205 243 443 2.75e-28 111
MsG0280010020.01.T01 AT1G78820 53.425 73 33 1 3 74 58 130 4.86e-19 85.9
MsG0280010020.01.T01 AT1G78830 31.683 202 125 4 16 205 243 443 1.81e-26 106
MsG0280010020.01.T01 AT1G78830 60.274 73 28 1 3 74 58 130 4.57e-22 94.4

Find 42 sgRNAs with CRISPR-Local

Find 91 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAGAGAGATGTGGGAAATT+TGG 0.150939 2:+62964128 MsG0280010020.01.T01:CDS
CAGAGAGATGTGGGAAATTT+GGG 0.259031 2:+62964129 MsG0280010020.01.T01:CDS
AAGTGTAGTCCTAAGCCTTT+AGG 0.339046 2:+62964215 MsG0280010020.01.T01:CDS
GGCTTATCTTATTACTTATT+AGG 0.367191 2:-62964472 None:intergenic
GATAAGCCTAGATTTCTCTT+TGG 0.381011 2:+62964487 MsG0280010020.01.T01:CDS
AGAGCTAGAGTGAAGGCATT+TGG 0.389629 2:-62963395 None:intergenic
TTGCATTCTCCTAAAGGCTT+AGG 0.390954 2:-62964224 None:intergenic
GATCTTCCAAAGAGAAATCT+AGG 0.401815 2:-62964493 None:intergenic
CCAAATTTCCCACATCTCTC+TGG 0.417212 2:-62964128 None:intergenic
CCCAACACACTTACAATCCT+TGG 0.423492 2:-62964351 None:intergenic
TATCTAAGGCTAGGAATTGA+TGG 0.429940 2:+62964002 MsG0280010020.01.T01:intron
TTTCATTACTACAAAATTGA+AGG 0.432875 2:+62964257 MsG0280010020.01.T01:CDS
TTGATGTGCGTGATGGTGTT+TGG 0.440720 2:+62964051 MsG0280010020.01.T01:CDS
TGGAGAATGGAACATTTGCT+TGG 0.471864 2:+62964186 MsG0280010020.01.T01:CDS
CCAAGGATTGTAAGTGTGTT+GGG 0.480848 2:+62964351 MsG0280010020.01.T01:CDS
TTCACTCTAGCTCTTCGAAT+GGG 0.502190 2:+62963404 MsG0280010020.01.T01:CDS
TTCAATGCTCCATTCCAAGT+TGG 0.505787 2:+62963356 MsG0280010020.01.T01:CDS
AACACCTTGAGTTATCTTTG+TGG 0.506678 2:-62964382 None:intergenic
TACATGAGTAAATACACTAC+TGG 0.539734 2:+62964290 MsG0280010020.01.T01:CDS
GTTGGTTGTCCATTGGAGAA+TGG 0.552362 2:+62964173 MsG0280010020.01.T01:CDS
TTGTAGAAACCAACTTGGAA+TGG 0.552949 2:-62963365 None:intergenic
GTCAATTGCCAGAGAGATGT+GGG 0.558292 2:+62964120 MsG0280010020.01.T01:CDS
TCAATGTGTTGGTTGTCCAT+TGG 0.560431 2:+62964166 MsG0280010020.01.T01:CDS
TGTGAGGATAATCAATGTGT+TGG 0.560707 2:+62964155 MsG0280010020.01.T01:CDS
ACAAAGATAACTCAAGGTGT+TGG 0.569098 2:+62964384 MsG0280010020.01.T01:CDS
TATTTGCTTCCCAAACCCAC+CGG 0.574015 2:-62963451 None:intergenic
ACCAAGGATTGTAAGTGTGT+TGG 0.574147 2:+62964350 MsG0280010020.01.T01:CDS
AAACACCATCACGCACATCA+AGG 0.588769 2:-62964049 None:intergenic
TATTTCCTTGATGTGCGTGA+TGG 0.592648 2:+62964044 MsG0280010020.01.T01:CDS
CTTAATAAAACCCACATGTG+TGG 0.606669 2:-62964446 None:intergenic
GCAAATGTTCCATTCTCCAA+TGG 0.608211 2:-62964182 None:intergenic
CTTCACTCTAGCTCTTCGAA+TGG 0.609842 2:+62963403 MsG0280010020.01.T01:CDS
TGGGAAATTTGGGCTTTGTG+AGG 0.614311 2:+62964139 MsG0280010020.01.T01:CDS
AGTTCAAAATACCACACATG+TGG 0.615945 2:+62964435 MsG0280010020.01.T01:CDS
TAGTGTTGTAGAAACCAACT+TGG 0.616231 2:-62963370 None:intergenic
TGGGTTTGGGAAGCAAATAG+AGG 0.619163 2:+62963455 MsG0280010020.01.T01:CDS
TCTACCACAAAGATAACTCA+AGG 0.628662 2:+62964378 MsG0280010020.01.T01:CDS
TCGAATGGGACTTCAACGAT+CGG 0.632353 2:+62963418 MsG0280010020.01.T01:CDS
TGTCAATTGCCAGAGAGATG+TGG 0.634284 2:+62964119 MsG0280010020.01.T01:CDS
TTGTGCAAATAAATGTACCA+AGG 0.661724 2:+62964334 MsG0280010020.01.T01:CDS
GTTCAAAATACCACACATGT+GGG 0.676015 2:+62964436 MsG0280010020.01.T01:CDS
CATTCGAAGAGCTAGAGTGA+AGG 0.676387 2:-62963402 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGATCTTAATTGATACTAA+AGG + Chr2:62963619-62963638 MsG0280010020.01.T01:intron 20.0%
!! TTTCATTACTACAAAATTGA+AGG + Chr2:62964257-62964276 MsG0280010020.01.T01:CDS 20.0%
!!! ATACTAAAGGTAATTTTGTT+TGG + Chr2:62963632-62963651 MsG0280010020.01.T01:intron 20.0%
!!! TTTTGGTTGATCAATATTTA+AGG + Chr2:62963683-62963702 MsG0280010020.01.T01:intron 20.0%
! AATAGCACTTAACATATCTA+AGG + Chr2:62963988-62964007 MsG0280010020.01.T01:intron 25.0%
! CAATTAGATGAATTCCAATA+GGG - Chr2:62963836-62963855 None:intergenic 25.0%
! GGCTTATCTTATTACTTATT+AGG - Chr2:62964475-62964494 None:intergenic 25.0%
! TAATATAAAGTCAACCCTTT+GGG - Chr2:62963785-62963804 None:intergenic 25.0%
! TCAGAAAAAGAAAATGTTGA+TGG + Chr2:62963738-62963757 MsG0280010020.01.T01:intron 25.0%
!! TGATCAATATTTAAGGCTAA+TGG + Chr2:62963690-62963709 MsG0280010020.01.T01:intron 25.0%
!! TGTTAAGTGCTATTATTTAC+CGG - Chr2:62963982-62964001 None:intergenic 25.0%
!!! GAAAATGCAACTTTTTCATT+AGG + Chr2:62963491-62963510 MsG0280010020.01.T01:CDS 25.0%
CAAACAAACACTTCCAATAT+AGG + Chr2:62963562-62963581 MsG0280010020.01.T01:intron 30.0%
CCAATTAGATGAATTCCAAT+AGG - Chr2:62963837-62963856 None:intergenic 30.0%
CCTATTGGAATTCATCTAAT+TGG + Chr2:62963834-62963853 MsG0280010020.01.T01:intron 30.0%
GTAATATAAAGTCAACCCTT+TGG - Chr2:62963786-62963805 None:intergenic 30.0%
GTATGAAAATATTAGTGAGC+CGG + Chr2:62963960-62963979 MsG0280010020.01.T01:intron 30.0%
TACATGAGTAAATACACTAC+TGG + Chr2:62964290-62964309 MsG0280010020.01.T01:CDS 30.0%
TTGTGCAAATAAATGTACCA+AGG + Chr2:62964334-62964353 MsG0280010020.01.T01:CDS 30.0%
! AAAGTTGCATTTTCATCAAC+TGG - Chr2:62963485-62963504 None:intergenic 30.0%
! AAGTTGCATTTTCATCAACT+GGG - Chr2:62963484-62963503 None:intergenic 30.0%
! ATATCTGATCCATTTGAGAT+TGG + Chr2:62963902-62963921 MsG0280010020.01.T01:intron 30.0%
! TAATATTTTCATACCACCAG+AGG - Chr2:62963954-62963973 None:intergenic 30.0%
!!! ACTTTTTCATTAGGTGTTGA+TGG + Chr2:62963500-62963519 MsG0280010020.01.T01:CDS 30.0%
!!! TTTTTTCTCAATTTTGCCTC+TGG + Chr2:62963935-62963954 MsG0280010020.01.T01:intron 30.0%
AAAGGCAACAACACCTATAT+TGG - Chr2:62963578-62963597 None:intergenic 35.0%
AACACCTTGAGTTATCTTTG+TGG - Chr2:62964385-62964404 None:intergenic 35.0%
AAGTGCAATCCAATCTCAAA+TGG - Chr2:62963914-62963933 None:intergenic 35.0%
ACAAAGATAACTCAAGGTGT+TGG + Chr2:62964384-62964403 MsG0280010020.01.T01:CDS 35.0%
ACCATTTGAGAGTAACCTAA+AGG - Chr2:62963596-62963615 None:intergenic 35.0%
AGTTCAAAATACCACACATG+TGG + Chr2:62964435-62964454 MsG0280010020.01.T01:CDS 35.0%
ATGCTGATGGAAGAATTGTT+TGG + Chr2:62963539-62963558 MsG0280010020.01.T01:intron 35.0%
CTTAATAAAACCCACATGTG+TGG - Chr2:62964449-62964468 None:intergenic 35.0%
GATAAGCCTAGATTTCTCTT+TGG + Chr2:62964487-62964506 MsG0280010020.01.T01:CDS 35.0%
GATCTTCCAAAGAGAAATCT+AGG - Chr2:62964496-62964515 None:intergenic 35.0%
GATGAATTCCAATAGGGAAT+TGG - Chr2:62963830-62963849 None:intergenic 35.0%
GTTCAAAATACCACACATGT+GGG + Chr2:62964436-62964455 MsG0280010020.01.T01:CDS 35.0%
TAGTGTTGTAGAAACCAACT+TGG - Chr2:62963373-62963392 None:intergenic 35.0%
TCTACCACAAAGATAACTCA+AGG + Chr2:62964378-62964397 MsG0280010020.01.T01:CDS 35.0%
TGTGAGGATAATCAATGTGT+TGG + Chr2:62964155-62964174 MsG0280010020.01.T01:CDS 35.0%
TTGTAGAAACCAACTTGGAA+TGG - Chr2:62963368-62963387 None:intergenic 35.0%
! ATGTTGATGGACCTATAGTT+TGG + Chr2:62963751-62963770 MsG0280010020.01.T01:intron 35.0%
! CACTTAACATATCTAAGGCT+AGG + Chr2:62963993-62964012 MsG0280010020.01.T01:intron 35.0%
! TATCTAAGGCTAGGAATTGA+TGG + Chr2:62964002-62964021 MsG0280010020.01.T01:intron 35.0%
! TCATCCTACAGATACTCTTT+TGG + Chr2:62963666-62963685 MsG0280010020.01.T01:intron 35.0%
!! AGCCTACTAACAAGTTTTGA+AGG - Chr2:62963717-62963736 None:intergenic 35.0%
!! ATATAGGTGTTGTTGCCTTT+AGG + Chr2:62963578-62963597 MsG0280010020.01.T01:intron 35.0%
!! GACCTTCAAAACTTGTTAGT+AGG + Chr2:62963712-62963731 MsG0280010020.01.T01:intron 35.0%
!! TCAACCAAAAGAGTATCTGT+AGG - Chr2:62963673-62963692 None:intergenic 35.0%
!!! CACACATGTGGGTTTTATTA+AGG + Chr2:62964447-62964466 MsG0280010020.01.T01:CDS 35.0%
!!! CTTGTTTTGCATTCTCCTAA+AGG - Chr2:62964233-62964252 None:intergenic 35.0%
AAGTGTAGTCCTAAGCCTTT+AGG + Chr2:62964215-62964234 MsG0280010020.01.T01:CDS 40.0%
ACCAAGGATTGTAAGTGTGT+TGG + Chr2:62964350-62964369 MsG0280010020.01.T01:CDS 40.0%
CAGAGAGATGTGGGAAATTT+GGG + Chr2:62964129-62964148 MsG0280010020.01.T01:CDS 40.0%
CCAAGGATTGTAAGTGTGTT+GGG + Chr2:62964351-62964370 MsG0280010020.01.T01:CDS 40.0%
GCAAATGTTCCATTCTCCAA+TGG - Chr2:62964185-62964204 None:intergenic 40.0%
GGGATCAAACACCAAACTAT+AGG - Chr2:62963765-62963784 None:intergenic 40.0%
TATTTCCTTGATGTGCGTGA+TGG + Chr2:62964044-62964063 MsG0280010020.01.T01:CDS 40.0%
TGGAGAATGGAACATTTGCT+TGG + Chr2:62964186-62964205 MsG0280010020.01.T01:CDS 40.0%
TTCAATGCTCCATTCCAAGT+TGG + Chr2:62963356-62963375 MsG0280010020.01.T01:CDS 40.0%
TTGCATTCTCCTAAAGGCTT+AGG - Chr2:62964227-62964246 None:intergenic 40.0%
! GCCTTTAGGTTACTCTCAAA+TGG + Chr2:62963592-62963611 MsG0280010020.01.T01:intron 40.0%
! GTGTTGATGGAAATCTTGTG+TGG + Chr2:62963513-62963532 MsG0280010020.01.T01:intron 40.0%
! TTCCAATAGGGAATTGGTCT+AGG - Chr2:62963824-62963843 None:intergenic 40.0%
! TTTCTCAATTTTGCCTCTGG+TGG + Chr2:62963938-62963957 MsG0280010020.01.T01:intron 40.0%
!! AGTTTGGTGTTTGATCCCAA+AGG + Chr2:62963767-62963786 MsG0280010020.01.T01:intron 40.0%
!! GTTTGGTGTTTGATCCCAAA+GGG + Chr2:62963768-62963787 MsG0280010020.01.T01:intron 40.0%
!! TCAATGTGTTGGTTGTCCAT+TGG + Chr2:62964166-62964185 MsG0280010020.01.T01:CDS 40.0%
!! TTCACTCTAGCTCTTCGAAT+GGG + Chr2:62963404-62963423 MsG0280010020.01.T01:CDS 40.0%
AAACACCATCACGCACATCA+AGG - Chr2:62964052-62964071 None:intergenic 45.0%
CACCTAGACCAATTCCCTAT+TGG + Chr2:62963819-62963838 MsG0280010020.01.T01:intron 45.0%
CATTCGAAGAGCTAGAGTGA+AGG - Chr2:62963405-62963424 None:intergenic 45.0%
CCAAATTTCCCACATCTCTC+TGG - Chr2:62964131-62964150 None:intergenic 45.0%
CCAGAGAGATGTGGGAAATT+TGG + Chr2:62964128-62964147 MsG0280010020.01.T01:CDS 45.0%
CCCAACACACTTACAATCCT+TGG - Chr2:62964354-62964373 None:intergenic 45.0%
GTCAATTGCCAGAGAGATGT+GGG + Chr2:62964120-62964139 MsG0280010020.01.T01:CDS 45.0%
GTTGGTTGTCCATTGGAGAA+TGG + Chr2:62964173-62964192 MsG0280010020.01.T01:CDS 45.0%
TATTTGCTTCCCAAACCCAC+CGG - Chr2:62963454-62963473 None:intergenic 45.0%
TCGAATGGGACTTCAACGAT+CGG + Chr2:62963418-62963437 MsG0280010020.01.T01:CDS 45.0%
TCTTGTGTGGCTAATGCTGA+TGG + Chr2:62963526-62963545 MsG0280010020.01.T01:intron 45.0%
TGGGTTTGGGAAGCAAATAG+AGG + Chr2:62963455-62963474 MsG0280010020.01.T01:CDS 45.0%
TGTCAATTGCCAGAGAGATG+TGG + Chr2:62964119-62964138 MsG0280010020.01.T01:CDS 45.0%
! TGGGAAATTTGGGCTTTGTG+AGG + Chr2:62964139-62964158 MsG0280010020.01.T01:CDS 45.0%
! TTGATGTGCGTGATGGTGTT+TGG + Chr2:62964051-62964070 MsG0280010020.01.T01:CDS 45.0%
!! AGAGCTAGAGTGAAGGCATT+TGG - Chr2:62963398-62963417 None:intergenic 45.0%
!! CTTCACTCTAGCTCTTCGAA+TGG + Chr2:62963403-62963422 MsG0280010020.01.T01:CDS 45.0%
! AACGATCGGAGCAGCTTTTC+CGG + Chr2:62963432-62963451 MsG0280010020.01.T01:CDS 50.0%
! ATCGGAGCAGCTTTTCCGGT+GGG + Chr2:62963436-62963455 MsG0280010020.01.T01:CDS 55.0%
!! AGCAGCTTTTCCGGTGGGTT+TGG + Chr2:62963441-62963460 MsG0280010020.01.T01:CDS 55.0%
!! GCAGCTTTTCCGGTGGGTTT+GGG + Chr2:62963442-62963461 MsG0280010020.01.T01:CDS 55.0%
! GATCGGAGCAGCTTTTCCGG+TGG + Chr2:62963435-62963454 MsG0280010020.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 62963344 62964532 62963344 ID=MsG0280010020.01;Name=MsG0280010020.01
Chr2 mRNA 62963344 62964532 62963344 ID=MsG0280010020.01.T01;Parent=MsG0280010020.01;Name=MsG0280010020.01.T01;_AED=0.51;_eAED=0.57;_QI=0|0|0|1|1|1|2|0|236
Chr2 exon 62963344 62963531 62963344 ID=MsG0280010020.01.T01:exon:34863;Parent=MsG0280010020.01.T01
Chr2 exon 62964010 62964532 62964010 ID=MsG0280010020.01.T01:exon:34864;Parent=MsG0280010020.01.T01
Chr2 CDS 62963344 62963531 62963344 ID=MsG0280010020.01.T01:cds;Parent=MsG0280010020.01.T01
Chr2 CDS 62964010 62964532 62964010 ID=MsG0280010020.01.T01:cds;Parent=MsG0280010020.01.T01
Gene Sequence

>MsG0280010020.01.T01

ATGATAAACATATTCAATGCTCCATTCCAAGTTGGTTTCTACAACACTACTCCAAATGCCTTCACTCTAGCTCTTCGAATGGGACTTCAACGATCGGAGCAGCTTTTCCGGTGGGTTTGGGAAGCAAATAGAGGCAACCCAGTTGATGAAAATGCAACTTTTTCATTAGGTGTTGATGGAAATCTTGTGCTAGGAATTGATGGTAACATTAAAATTCACACTTATTTCCTTGATGTGCGTGATGGTGTTTGGCAAGTGATGTACACTCTCTTTGATAGAAATTTTGATGAGAGTGAGTGTCAATTGCCAGAGAGATGTGGGAAATTTGGGCTTTGTGAGGATAATCAATGTGTTGGTTGTCCATTGGAGAATGGAACATTTGCTTGGAGCAATAAGTGTAGTCCTAAGCCTTTAGGAGAATGCAAAACAAGTGAGTTTCATTACTACAAAATTGAAGGAGTTGAGCATTACATGAGTAAATACACTACTGGTGATAGTGTAAGTGAAGATACTTGTGCAAATAAATGTACCAAGGATTGTAAGTGTGTTGGGTATTTCTACCACAAAGATAACTCAAGGTGTTGGATTGCTTATGATCTTCAAACTCTACTAGAGTTCAAAATACCACACATGTGGGTTTTATTAAGGTGCCTAATAAGTAATAAGATAAGCCTAGATTTCTCTTTGGAAGATCTCGAAATTTTCTTATAA
Protein sequence

>MsG0280010020.01.T01

MINIFNAPFQVGFYNTTPNAFTLALRMGLQRSEQLFRWVWEANRGNPVDENATFSLGVDGNLVLGIDGNIKIHTYFLDVRDGVWQVMYTLFDRNFDESECQLPERCGKFGLCEDNQCVGCPLENGTFAWSNKCSPKPLGECKTSEFHYYKIEGVEHYMSKYTTGDSVSEDTCANKCTKDCKCVGYFYHKDNSRCWIAYDLQTLLEFKIPHMWVLLRCLISNKISLDFSLEDLEIFL*