AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580025142.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580025142.01.T01 MTR_5g022900 92.271 207 14 2 1 205 9 215 3.21e-132 380
MsG0580025142.01.T01 MTR_5g021860 76.471 204 44 3 2 205 10 209 2.54e-105 311
MsG0580025142.01.T01 MTR_5g021860 76.471 204 44 3 2 205 10 209 3.66e-105 312
MsG0580025142.01.T01 MTR_4g027370 76.471 204 44 3 2 205 10 209 1.16e-104 311
MsG0580025142.01.T01 MTR_5g007940 73.659 205 47 3 2 205 10 208 6.71e-100 296
MsG0580025142.01.T01 MTR_5g021880 71.359 206 55 3 1 205 18 220 1.97e-98 293
MsG0580025142.01.T01 MTR_5g021880 71.359 206 55 3 1 205 18 220 5.12e-98 293
MsG0580025142.01.T01 MTR_5g021880 71.359 206 55 3 1 205 18 220 6.19e-98 293
MsG0580025142.01.T01 MTR_5g022040 67.150 207 61 3 1 204 18 220 4.15e-88 268
MsG0580025142.01.T01 MTR_5g021920 65.865 208 42 3 4 206 21 204 4.80e-87 258
MsG0580025142.01.T01 MTR_6g046320 62.500 208 48 5 4 206 21 203 3.21e-77 239
MsG0580025142.01.T01 MTR_0627s0010 60.386 207 54 4 1 206 18 197 2.19e-75 233
MsG0580025142.01.T01 MTR_5g010610 60.825 194 53 4 14 203 25 199 1.90e-69 221
MsG0580025142.01.T01 MTR_5g010550 59.799 199 62 4 6 203 29 210 2.64e-66 211
MsG0580025142.01.T01 MTR_5g010550 59.799 199 62 4 6 203 43 224 2.72e-66 211
MsG0580025142.01.T01 MTR_7g117100 81.148 122 21 1 84 205 1 120 2.85e-66 205
MsG0580025142.01.T01 MTR_5g010560 58.416 202 66 4 3 203 26 210 2.94e-66 211
MsG0580025142.01.T01 MTR_7g117100 81.148 122 21 1 84 205 1 120 1.75e-65 206
MsG0580025142.01.T01 MTR_5g022045 55.897 195 47 2 11 204 23 179 1.62e-61 198
MsG0580025142.01.T01 MTR_5g022090 51.795 195 44 5 11 204 22 167 4.88e-49 164
MsG0580025142.01.T01 MTR_5g010660 45.813 203 67 3 2 204 13 172 2.55e-47 161
MsG0580025142.01.T01 MTR_7g090810 47.867 211 56 7 1 206 19 180 1.22e-45 156
MsG0580025142.01.T01 MTR_5g022750 45.588 204 50 6 1 202 18 162 3.09e-40 142
MsG0580025142.01.T01 MTR_5g027370 46.739 184 63 3 20 201 26 176 5.24e-40 142
MsG0580025142.01.T01 MTR_5g027330 46.739 184 63 3 20 201 37 187 6.36e-40 142
MsG0580025142.01.T01 MTR_5g074870 56.410 78 32 2 7 83 67 143 4.87e-21 85.5
MsG0580025142.01.T01 MTR_3g463170 50.602 83 39 2 2 83 72 153 3.73e-20 83.6
MsG0580025142.01.T01 MTR_1g017970 50.633 79 34 2 102 177 49 125 1.92e-15 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 44 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAAATGTGTCTGCAAAATT+TGG 0.217438 5:+14306829 MsG0580025142.01.T01:CDS
AGCTTCCTCTCAGATCATTT+AGG 0.222255 5:+14307027 MsG0580025142.01.T01:CDS
GCAGATCACTAAAGGGTTTC+CGG 0.276169 5:-14307243 None:intergenic
TCGTGCTGCAAGATTAGTTT+CGG 0.298747 5:+14307091 MsG0580025142.01.T01:CDS
GCTTCCTCTCAGATCATTTA+GGG 0.304335 5:+14307028 MsG0580025142.01.T01:CDS
AGTCGATTCGTGGTAGCTTC+AGG 0.375461 5:-14307296 None:intergenic
CGTGCTGCAAGATTAGTTTC+GGG 0.381236 5:+14307092 MsG0580025142.01.T01:CDS
AAAACAATGAGAACAATGAT+AGG 0.385862 5:+14307117 MsG0580025142.01.T01:CDS
GGGAAGTCGAAGCAGAATAT+TGG 0.395474 5:-14306787 None:intergenic
ACAAATGAGAAGAGGCTTGA+TGG 0.420194 5:-14306808 None:intergenic
CTTATGAACTCCCCTGTGAC+TGG 0.421132 5:-14307269 None:intergenic
GAACCTGAAAAGTTTGAGAT+TGG 0.427136 5:+14306969 MsG0580025142.01.T01:CDS
TGCAGCACGAAAAGGGTGAT+TGG 0.431127 5:-14307078 None:intergenic
ACTAATCTTGCAGCACGAAA+AGG 0.431993 5:-14307086 None:intergenic
CTGAGAGGAAGCTTGAATAT+AGG 0.452913 5:-14307017 None:intergenic
ACTAAAGGGTTTCCGGTAGT+TGG 0.453956 5:-14307236 None:intergenic
TTCTTACCCGAGTCGATTCG+TGG 0.454020 5:-14307306 None:intergenic
CAAATGAGAAGAGGCTTGAT+GGG 0.477090 5:-14306807 None:intergenic
CTGGGTTGCAGATCACTAAA+GGG 0.483756 5:-14307250 None:intergenic
ACTGGGTTGCAGATCACTAA+AGG 0.493192 5:-14307251 None:intergenic
AGAACAAAAGTTGATGAGGC+AGG 0.497240 5:+14306711 MsG0580025142.01.T01:CDS
GTGATCTGCAACCCAGTCAC+AGG 0.500679 5:+14307257 MsG0580025142.01.T01:CDS
CTAATCTTGCAGCACGAAAA+GGG 0.510156 5:-14307085 None:intergenic
TTTCAGGTTCACACTCAAGA+AGG 0.516226 5:-14306956 None:intergenic
TGTTTGTCTGAACCAACTAC+CGG 0.523416 5:+14307224 MsG0580025142.01.T01:CDS
AATTGCAATTTAGCAAAATG+TGG 0.540028 5:-14306870 None:intergenic
ATATTGGCAGTGAGGTGAGA+TGG 0.551029 5:-14306771 None:intergenic
TTATGAACTCCCCTGTGACT+GGG 0.552131 5:-14307268 None:intergenic
AAACAATGAGAACAATGATA+GGG 0.571272 5:+14307118 MsG0580025142.01.T01:CDS
AAGCTACCACGAATCGACTC+GGG 0.573459 5:+14307300 MsG0580025142.01.T01:CDS
GATATTGTGAATTCTTGCAA+TGG 0.578964 5:+14307194 MsG0580025142.01.T01:CDS
ACACATTTACAAATGAGAAG+AGG 0.579663 5:-14306816 None:intergenic
TTCTTGACACTCTATCGTCA+AGG 0.585420 5:-14306926 None:intergenic
TTCACACTCAAGAAGGTACA+TGG 0.591098 5:-14306949 None:intergenic
GAAGCTACCACGAATCGACT+CGG 0.593103 5:+14307299 MsG0580025142.01.T01:CDS
TGATCTGCAACCCAGTCACA+GGG 0.602440 5:+14307258 MsG0580025142.01.T01:CDS
GTGCTGCAAGATTAGTTTCG+GGG 0.606406 5:+14307093 MsG0580025142.01.T01:CDS
TCTTGACACTCTATCGTCAA+GGG 0.614577 5:-14306925 None:intergenic
TGCAAGAACAAAAGTTGATG+AGG 0.618664 5:+14306707 MsG0580025142.01.T01:CDS
GAACAAAAGTTGATGAGGCA+GGG 0.623272 5:+14306712 MsG0580025142.01.T01:CDS
TTATCCCTAAATGATCTGAG+AGG 0.671212 5:-14307032 None:intergenic
GTCCGAATCATAAAACTAAG+CGG 0.695012 5:-14306903 None:intergenic
GAAGCAGAATATTGGCAGTG+AGG 0.710719 5:-14306779 None:intergenic
GATCTGCAACCCAGTCACAG+GGG 0.758001 5:+14307259 MsG0580025142.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAACAATGAGAACAATGAT+AGG + Chr5:14307117-14307136 MsG0580025142.01.T01:CDS 25.0%
! AAACAATGAGAACAATGATA+GGG + Chr5:14307118-14307137 MsG0580025142.01.T01:CDS 25.0%
! AATTGCAATTTAGCAAAATG+TGG - Chr5:14306873-14306892 None:intergenic 25.0%
! ATGGAAGATTGTCAAAAAAA+GGG - Chr5:14306755-14306774 None:intergenic 25.0%
ACACATTTACAAATGAGAAG+AGG - Chr5:14306819-14306838 None:intergenic 30.0%
GATATTGTGAATTCTTGCAA+TGG + Chr5:14307194-14307213 MsG0580025142.01.T01:CDS 30.0%
GATGGAAGATTGTCAAAAAA+AGG - Chr5:14306756-14306775 None:intergenic 30.0%
GTAAATGTGTCTGCAAAATT+TGG + Chr5:14306829-14306848 MsG0580025142.01.T01:CDS 30.0%
GTCCGAATCATAAAACTAAG+CGG - Chr5:14306906-14306925 None:intergenic 35.0%
TTATCCCTAAATGATCTGAG+AGG - Chr5:14307035-14307054 None:intergenic 35.0%
! CTTCCAATCTCAAACTTTTC+AGG - Chr5:14306975-14306994 None:intergenic 35.0%
! GAACCTGAAAAGTTTGAGAT+TGG + Chr5:14306969-14306988 MsG0580025142.01.T01:CDS 35.0%
!! TGCAAGAACAAAAGTTGATG+AGG + Chr5:14306707-14306726 MsG0580025142.01.T01:CDS 35.0%
!!! CACCGCTTAGTTTTATGATT+CGG + Chr5:14306901-14306920 MsG0580025142.01.T01:CDS 35.0%
ACAAATGAGAAGAGGCTTGA+TGG - Chr5:14306811-14306830 None:intergenic 40.0%
ACTAATCTTGCAGCACGAAA+AGG - Chr5:14307089-14307108 None:intergenic 40.0%
AGCTTCCTCTCAGATCATTT+AGG + Chr5:14307027-14307046 MsG0580025142.01.T01:CDS 40.0%
CAAATGAGAAGAGGCTTGAT+GGG - Chr5:14306810-14306829 None:intergenic 40.0%
CTAATCTTGCAGCACGAAAA+GGG - Chr5:14307088-14307107 None:intergenic 40.0%
CTGAGAGGAAGCTTGAATAT+AGG - Chr5:14307020-14307039 None:intergenic 40.0%
GCTTCCTCTCAGATCATTTA+GGG + Chr5:14307028-14307047 MsG0580025142.01.T01:CDS 40.0%
TCTTGACACTCTATCGTCAA+GGG - Chr5:14306928-14306947 None:intergenic 40.0%
TGTTTGTCTGAACCAACTAC+CGG + Chr5:14307224-14307243 MsG0580025142.01.T01:CDS 40.0%
TTCTTGACACTCTATCGTCA+AGG - Chr5:14306929-14306948 None:intergenic 40.0%
! TTCACACTCAAGAAGGTACA+TGG - Chr5:14306952-14306971 None:intergenic 40.0%
!! AGAACAAAAGTTGATGAGGC+AGG + Chr5:14306711-14306730 MsG0580025142.01.T01:CDS 40.0%
!! GAACAAAAGTTGATGAGGCA+GGG + Chr5:14306712-14306731 MsG0580025142.01.T01:CDS 40.0%
!! TCGTGCTGCAAGATTAGTTT+CGG + Chr5:14307091-14307110 MsG0580025142.01.T01:CDS 40.0%
!! TTTCAGGTTCACACTCAAGA+AGG - Chr5:14306959-14306978 None:intergenic 40.0%
ACTAAAGGGTTTCCGGTAGT+TGG - Chr5:14307239-14307258 None:intergenic 45.0%
ACTGGGTTGCAGATCACTAA+AGG - Chr5:14307254-14307273 None:intergenic 45.0%
ATATTGGCAGTGAGGTGAGA+TGG - Chr5:14306774-14306793 None:intergenic 45.0%
CTGGGTTGCAGATCACTAAA+GGG - Chr5:14307253-14307272 None:intergenic 45.0%
GAAGCAGAATATTGGCAGTG+AGG - Chr5:14306782-14306801 None:intergenic 45.0%
GCAGATCACTAAAGGGTTTC+CGG - Chr5:14307246-14307265 None:intergenic 45.0%
GGGAAGTCGAAGCAGAATAT+TGG - Chr5:14306790-14306809 None:intergenic 45.0%
TTATGAACTCCCCTGTGACT+GGG - Chr5:14307271-14307290 None:intergenic 45.0%
!! CGTGCTGCAAGATTAGTTTC+GGG + Chr5:14307092-14307111 MsG0580025142.01.T01:CDS 45.0%
!! GTGCTGCAAGATTAGTTTCG+GGG + Chr5:14307093-14307112 MsG0580025142.01.T01:CDS 45.0%
CTTATGAACTCCCCTGTGAC+TGG - Chr5:14307272-14307291 None:intergenic 50.0%
GAAGCTACCACGAATCGACT+CGG + Chr5:14307299-14307318 MsG0580025142.01.T01:CDS 50.0%
TGATCTGCAACCCAGTCACA+GGG + Chr5:14307258-14307277 MsG0580025142.01.T01:CDS 50.0%
TGCAGCACGAAAAGGGTGAT+TGG - Chr5:14307081-14307100 None:intergenic 50.0%
! AAGCTACCACGAATCGACTC+GGG + Chr5:14307300-14307319 MsG0580025142.01.T01:CDS 50.0%
!! AGTCGATTCGTGGTAGCTTC+AGG - Chr5:14307299-14307318 None:intergenic 50.0%
GATCTGCAACCCAGTCACAG+GGG + Chr5:14307259-14307278 MsG0580025142.01.T01:CDS 55.0%
GTGATCTGCAACCCAGTCAC+AGG + Chr5:14307257-14307276 MsG0580025142.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 14306702 14307325 14306702 ID=MsG0580025142.01;Name=MsG0580025142.01
Chr5 mRNA 14306702 14307325 14306702 ID=MsG0580025142.01.T01;Parent=MsG0580025142.01;Name=MsG0580025142.01.T01;_AED=0.28;_eAED=0.28;_QI=0|-1|0|1|-1|0|1|0|207
Chr5 exon 14306702 14307325 14306702 ID=MsG0580025142.01.T01:exon:5830;Parent=MsG0580025142.01.T01
Chr5 CDS 14306702 14307325 14306702 ID=MsG0580025142.01.T01:cds;Parent=MsG0580025142.01.T01
Gene Sequence

>MsG0580025142.01.T01

GACGCTGCAAGAACAAAAGTTGATGAGGCAGGGAGTCATGATGAACTTTTCCCTTTTTTTGACAATCTTCCATCTCACCTCACTGCCAATATTCTGCTTCGACTTCCCATCAAGCCTCTTCTCATTTGTAAATGTGTCTGCAAAATTTGGAAAAGACTTATTTCAGAACCACATTTTGCTAAATTGCAATTTGAGCGAGCACCGCTTAGTTTTATGATTCGGACCCTTGACGATAGAGTGTCAAGAACCATGTACCTTCTTGAGTGTGAACCTGAAAAGTTTGAGATTGGAAGCAACAAACATGTCAAGCTTGAGCCTATATTCAAGCTTCCTCTCAGATCATTTAGGGATAAAAGAGACAAGATCAATAATGAATCCAATCACCCTTTTCGTGCTGCAAGATTAGTTTCGGGGAAAAACAATGAGAACAATGATAGGGCTAGAACAAACTGTTATCGTTATACTGCTTGCAACAAATATTATGATAAGTTTGATATTGTGAATTCTTGCAATGGTTTGCTTTGTTTGTCTGAACCAACTACCGGAAACCCTTTAGTGATCTGCAACCCAGTCACAGGGGAGTTCATAAGACTTCCTGAAGCTACCACGAATCGACTCGGGTAA
Protein sequence

>MsG0580025142.01.T01

DAARTKVDEAGSHDELFPFFDNLPSHLTANILLRLPIKPLLICKCVCKIWKRLISEPHFAKLQFERAPLSFMIRTLDDRVSRTMYLLECEPEKFEIGSNKHVKLEPIFKLPLRSFRDKRDKINNESNHPFRAARLVSGKNNENNDRARTNCYRYTACNKYYDKFDIVNSCNGLLCLSEPTTGNPLVICNPVTGEFIRLPEATTNRLG*