AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016476.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016476.01.T01 MTR_3g090530 97.297 222 6 0 1 222 1 222 8.77e-162 446
MsG0380016476.01.T01 MTR_3g090530 97.156 211 6 0 1 211 1 211 6.07e-153 423
MsG0380016476.01.T01 MTR_3g090530 98.171 164 3 0 1 164 1 164 5.84e-118 333
MsG0380016476.01.T01 MTR_1g028960 69.406 219 65 2 5 222 6 223 1.66e-110 316
MsG0380016476.01.T01 MTR_1g028970 67.411 224 70 2 1 222 1 223 5.06e-109 312
MsG0380016476.01.T01 MTR_3g090530 95.364 151 7 0 72 222 7 157 1.63e-105 301
MsG0380016476.01.T01 MTR_1g028970 68.545 213 64 2 1 211 1 212 2.90e-104 300
MsG0380016476.01.T01 MTR_3g090530 95.000 140 7 0 72 211 7 146 7.97e-97 279
MsG0380016476.01.T01 MTR_1g028970 65.882 170 55 2 1 168 1 169 4.79e-77 230
MsG0380016476.01.T01 MTR_3g090530 95.699 93 4 0 72 164 7 99 1.13e-61 188
MsG0380016476.01.T01 MTR_1g075710 35.829 187 115 2 36 222 21 202 4.35e-38 131
MsG0380016476.01.T01 MTR_1g041495 36.898 187 113 3 36 222 21 202 8.31e-36 125
MsG0380016476.01.T01 MTR_1g041495 35.204 196 113 4 36 222 21 211 1.06e-32 117
MsG0380016476.01.T01 MTR_1g075700 36.806 144 86 2 36 179 21 159 3.01e-26 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016476.01.T01 AT1G21360 51.786 224 103 3 1 221 1 222 3.80e-77 231
MsG0380016476.01.T01 AT3G21260 51.770 226 103 2 1 221 8 232 2.25e-70 215
MsG0380016476.01.T01 AT1G21360 53.293 167 73 3 1 164 1 165 4.55e-57 179
MsG0380016476.01.T01 AT1G21360 51.553 161 77 1 61 221 1 160 1.32e-52 167
MsG0380016476.01.T01 AT3G21260 52.027 148 70 1 74 221 2 148 6.72e-44 144
MsG0380016476.01.T01 AT3G21260 52.113 142 67 1 80 221 3 143 6.62e-42 139
MsG0380016476.01.T01 AT2G33470 37.158 183 110 2 40 222 25 202 1.11e-34 122
MsG0380016476.01.T01 AT2G33470 37.158 183 110 2 40 222 25 202 1.11e-34 122

Find 41 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCCTTAACAAATTCAAATT+TGG 0.154699 3:-83980053 MsG0380016476.01.T01:CDS
ATTTGGTTACCTTAATATTC+TGG 0.236559 3:+83980333 None:intergenic
TAAATAAGCTTGGTGAGTTT+TGG 0.262198 3:-83980690 MsG0380016476.01.T01:five_prime_UTR
CCAGCCTCATGATCTTCTTC+AGG 0.264906 3:+83980552 None:intergenic
AACCAAATTTGAATTTGTTA+AGG 0.324351 3:+83980051 None:intergenic
AGTGTGTACTGTATATAGTT+TGG 0.325358 3:-83979002 MsG0380016476.01.T01:three_prime_UTR
ACCAAATTTGAATTTGTTAA+GGG 0.329032 3:+83980052 None:intergenic
TACATGGTTCTACAAGTTCT+TGG 0.339211 3:-83980492 MsG0380016476.01.T01:intron
AGACATTCACCAGAATATTA+AGG 0.371673 3:-83980342 MsG0380016476.01.T01:intron
AAAGATAGGAAAGGCTTTGT+TGG 0.395007 3:+83980519 None:intergenic
GCGGCAGTAAATCCTTTGTT+TGG 0.397158 3:-83979979 MsG0380016476.01.T01:CDS
GAACCATGTAACATAAAGAT+AGG 0.421906 3:+83980505 None:intergenic
TTTGTATCAGAGAAAGTATA+AGG 0.423428 3:-83980659 MsG0380016476.01.T01:five_prime_UTR
CTTTGAAACCATGGCATGGA+TGG 0.431560 3:-83979726 MsG0380016476.01.T01:CDS
CGAAGACTGTGACACCCTAA+TGG 0.438068 3:-83979256 MsG0380016476.01.T01:CDS
AAGATAGGAAAGGCTTTGTT+GGG 0.447613 3:+83980520 None:intergenic
TTTCCTATCTTTATGTTACA+TGG 0.447670 3:-83980508 MsG0380016476.01.T01:CDS
TGTCTCAAAACAGCCATTGT+TGG 0.448554 3:+83980365 None:intergenic
AATCCTTTGTTTGGCTCACT+AGG 0.459588 3:-83979970 MsG0380016476.01.T01:intron
AGAAAGTGTATAACTTGGAC+AGG 0.511125 3:-83979074 MsG0380016476.01.T01:CDS
TTTGCAGAAAGTGTATAACT+TGG 0.513854 3:-83979079 MsG0380016476.01.T01:intron
CAATGGATATCCTCAAGAAA+AGG 0.520025 3:+83979201 None:intergenic
GTTATTTACATGAAAACAGC+AGG 0.522414 3:+83978971 None:intergenic
AAAGTATAAGGAAAATGAAG+AGG 0.529810 3:-83980647 MsG0380016476.01.T01:exon
AAGCACTGAAAGCTCTTCAA+TGG 0.530059 3:+83980587 None:intergenic
GATTGTCTTGCAGATAAGGT+AGG 0.536852 3:-83980389 MsG0380016476.01.T01:intron
ACAATGCTGATGTGAAATCC+AGG 0.552433 3:+83979818 None:intergenic
TGTGCCACTATGTAGATCCC+TGG 0.554714 3:-83979836 MsG0380016476.01.T01:intron
ATTGTCTTGCAGATAAGGTA+GGG 0.565172 3:-83980388 MsG0380016476.01.T01:intron
CCTGAAGAAGATCATGAGGC+TGG 0.568689 3:-83980552 MsG0380016476.01.T01:CDS
ATGATGCAACTTTGAAACCA+TGG 0.590512 3:-83979735 MsG0380016476.01.T01:CDS
AATGCAAAGAAGAGAGTTAG+CGG 0.596549 3:-83979998 MsG0380016476.01.T01:CDS
GATGCAATCCATCCATGCCA+TGG 0.623186 3:+83979718 None:intergenic
CAATGCTGATGTGAAATCCA+GGG 0.628144 3:+83979819 None:intergenic
TTCAAGTCAGAAACTAGCAA+AGG 0.631092 3:-83980022 MsG0380016476.01.T01:CDS
ATGTAACATAAAGATAGGAA+AGG 0.631348 3:+83980510 None:intergenic
TCACCTAGTGAGCCAAACAA+AGG 0.631414 3:+83979967 None:intergenic
TCAAGCTTACTAGAATACAA+TGG 0.631531 3:+83979184 None:intergenic
GCAACTTTGAAACCATGGCA+TGG 0.637985 3:-83979730 MsG0380016476.01.T01:CDS
CAAACCTGAAGAAGATCATG+AGG 0.654696 3:-83980556 MsG0380016476.01.T01:CDS
AGATAAGGTAGGGCCAACAA+TGG 0.678454 3:-83980378 MsG0380016476.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATAAATAAATATTCATC+AGG + Chr3:83980534-83980553 None:intergenic 10.0%
!! AAAAAAAAAAAAGGAAGAAA+TGG + Chr3:83979961-83979980 None:intergenic 15.0%
!!! AAACATACTTTAAATTTGTT+TGG + Chr3:83979211-83979230 None:intergenic 15.0%
!!! TTTTCAAGAAAAATAACTTA+TGG - Chr3:83979706-83979725 MsG0380016476.01.T01:CDS 15.0%
!! AAAAGATCCTAAAAAGAATA+TGG - Chr3:83979851-83979870 MsG0380016476.01.T01:intron 20.0%
!! AGTGGGAAAAAAAAAAAAAA+AGG + Chr3:83979970-83979989 None:intergenic 20.0%
!! CTAAACTCAAAATAATAGAA+AGG - Chr3:83980141-83980160 MsG0380016476.01.T01:intron 20.0%
!!! AACCAAATTTGAATTTGTTA+AGG + Chr3:83979582-83979601 None:intergenic 20.0%
!!! ACCAAATTTGAATTTGTTAA+GGG + Chr3:83979581-83979600 None:intergenic 20.0%
!!! ATTTTGCTTATAAATAAGCT+TGG - Chr3:83978930-83978949 MsG0380016476.01.T01:three_prime_UTR 20.0%
!!! CTTTCTATTATTTTGAGTTT+AGG + Chr3:83980143-83980162 None:intergenic 20.0%
! AAAGTATAAGGAAAATGAAG+AGG - Chr3:83978983-83979002 MsG0380016476.01.T01:three_prime_UTR 25.0%
! ACATATAGTTAGTTACACAT+TGG - Chr3:83979465-83979484 MsG0380016476.01.T01:intron 25.0%
! ATGTAACATAAAGATAGGAA+AGG + Chr3:83979123-83979142 None:intergenic 25.0%
! ATTTGGTTACCTTAATATTC+TGG + Chr3:83979300-83979319 None:intergenic 25.0%
! TCAAATTATTACATGTGTGA+AGG + Chr3:83979350-83979369 None:intergenic 25.0%
! TCCCTTAACAAATTCAAATT+TGG - Chr3:83979577-83979596 MsG0380016476.01.T01:intron 25.0%
! TTCTTGAAAAATTTATGAGC+TGG + Chr3:83979696-83979715 None:intergenic 25.0%
! TTTCCTATCTTTATGTTACA+TGG - Chr3:83979122-83979141 MsG0380016476.01.T01:intron 25.0%
!! ACAACTCACAATTTCAATTT+TGG + Chr3:83980005-83980024 None:intergenic 25.0%
!! TTTGGTAACTATTGAAAAGT+GGG + Chr3:83979987-83980006 None:intergenic 25.0%
!! TTTGTATCAGAGAAAGTATA+AGG - Chr3:83978971-83978990 MsG0380016476.01.T01:three_prime_UTR 25.0%
!!! TTTTGGTAACTATTGAAAAG+TGG + Chr3:83979988-83980007 None:intergenic 25.0%
AGACATTCACCAGAATATTA+AGG - Chr3:83979288-83979307 MsG0380016476.01.T01:CDS 30.0%
AGTGTGTACTGTATATAGTT+TGG - Chr3:83980628-83980647 MsG0380016476.01.T01:CDS 30.0%
GAACCATGTAACATAAAGAT+AGG + Chr3:83979128-83979147 None:intergenic 30.0%
GCTATTCTAACATGAACTAA+CGG - Chr3:83980278-83980297 MsG0380016476.01.T01:intron 30.0%
GTTATTTACATGAAAACAGC+AGG + Chr3:83980662-83980681 None:intergenic 30.0%
TCAAGCTTACTAGAATACAA+TGG + Chr3:83980449-83980468 None:intergenic 30.0%
! AAATCTGCATCTTTTCCATT+AGG + Chr3:83980392-83980411 None:intergenic 30.0%
! AATCTGCATCTTTTCCATTA+GGG + Chr3:83980391-83980410 None:intergenic 30.0%
! TCCAAGAAAGTTTTTGTATC+AGG + Chr3:83980336-83980355 None:intergenic 30.0%
! TTTGCAGAAAGTGTATAACT+TGG - Chr3:83980551-83980570 MsG0380016476.01.T01:CDS 30.0%
!! ATAGCTTTACTCTTTTGAAC+CGG - Chr3:83980251-83980270 MsG0380016476.01.T01:intron 30.0%
!! TAAATAAGCTTGGTGAGTTT+TGG - Chr3:83978940-83978959 MsG0380016476.01.T01:three_prime_UTR 30.0%
AAACAATGAACCACGATGTT+TGG + Chr3:83980221-83980240 None:intergenic 35.0%
AATGCAAAGAAGAGAGTTAG+CGG - Chr3:83979632-83979651 MsG0380016476.01.T01:intron 35.0%
AATTTCGTTACCAAACATCG+TGG - Chr3:83980208-83980227 MsG0380016476.01.T01:intron 35.0%
ACAATGCCCAACTTGTATTA+CGG + Chr3:83980116-83980135 None:intergenic 35.0%
ATTGTCTTGCAGATAAGGTA+GGG - Chr3:83979242-83979261 MsG0380016476.01.T01:CDS 35.0%
CAATGGATATCCTCAAGAAA+AGG + Chr3:83980432-83980451 None:intergenic 35.0%
GCCTGATACAAAAACTTTCT+TGG - Chr3:83980332-83980351 MsG0380016476.01.T01:intron 35.0%
GCTCATAGCTACTAATAAGT+GGG - Chr3:83980046-83980065 MsG0380016476.01.T01:CDS 35.0%
TCATCAGGTATGTATATGAC+AGG + Chr3:83980519-83980538 None:intergenic 35.0%
TGACATTGAACTGTTGAGTA+TGG - Chr3:83980024-83980043 MsG0380016476.01.T01:CDS 35.0%
TTCAAGTCAGAAACTAGCAA+AGG - Chr3:83979608-83979627 MsG0380016476.01.T01:intron 35.0%
! AAAGATAGGAAAGGCTTTGT+TGG + Chr3:83979114-83979133 None:intergenic 35.0%
! AGAAAGTGTATAACTTGGAC+AGG - Chr3:83980556-83980575 MsG0380016476.01.T01:CDS 35.0%
! CATTGATTGTCTTGCAGATA+AGG - Chr3:83979237-83979256 MsG0380016476.01.T01:CDS 35.0%
! GCTTGCTCCATATTCTTTTT+AGG + Chr3:83979861-83979880 None:intergenic 35.0%
! TACATGGTTCTACAAGTTCT+TGG - Chr3:83979138-83979157 MsG0380016476.01.T01:intron 35.0%
! TTTACTTGTGCCTTTTCTTG+AGG - Chr3:83980419-83980438 MsG0380016476.01.T01:intron 35.0%
!! AAGATAGGAAAGGCTTTGTT+GGG + Chr3:83979113-83979132 None:intergenic 35.0%
!! ATGATGCAACTTTGAAACCA+TGG - Chr3:83979895-83979914 MsG0380016476.01.T01:intron 35.0%
AAATCCAGGGATCTACATAG+TGG + Chr3:83979801-83979820 None:intergenic 40.0%
ACAATGCTGATGTGAAATCC+AGG + Chr3:83979815-83979834 None:intergenic 40.0%
ACTAACGGAATTTGTACTGC+AGG - Chr3:83980293-83980312 MsG0380016476.01.T01:intron 40.0%
ATCAGGACCGTAATACAAGT+TGG - Chr3:83980106-83980125 MsG0380016476.01.T01:intron 40.0%
CAAACCTGAAGAAGATCATG+AGG - Chr3:83979074-83979093 MsG0380016476.01.T01:CDS 40.0%
CAATGCTGATGTGAAATCCA+GGG + Chr3:83979814-83979833 None:intergenic 40.0%
CATCAATTGTTCATGCTCAC+TGG - Chr3:83980489-83980508 MsG0380016476.01.T01:intron 40.0%
CCAGAGGTAATGTTGTAATC+AGG - Chr3:83980089-83980108 MsG0380016476.01.T01:intron 40.0%
CCTGATTACAACATTACCTC+TGG + Chr3:83980092-83980111 None:intergenic 40.0%
GATTGTCTTGCAGATAAGGT+AGG - Chr3:83979241-83979260 MsG0380016476.01.T01:CDS 40.0%
GGCTCATAGCTACTAATAAG+TGG - Chr3:83980045-83980064 MsG0380016476.01.T01:CDS 40.0%
GTCATGTGTGTGTGAGTATT+TGG + Chr3:83979317-83979336 None:intergenic 40.0%
TCAGGACCGTAATACAAGTT+GGG - Chr3:83980107-83980126 MsG0380016476.01.T01:intron 40.0%
TCATGTTAGAATAGCAACGC+CGG + Chr3:83980273-83980292 None:intergenic 40.0%
TGAGACAATATCGACACATG+TGG + Chr3:83979396-83979415 None:intergenic 40.0%
TGTCGATATTGTCTCACTGT+CGG - Chr3:83979400-83979419 MsG0380016476.01.T01:intron 40.0%
TGTCTCAAAACAGCCATTGT+TGG + Chr3:83979268-83979287 None:intergenic 40.0%
! AATCCTTTGTTTGGCTCACT+AGG - Chr3:83979660-83979679 MsG0380016476.01.T01:intron 40.0%
! AGTCTTCGTCTTTTTCTCTG+AGG + Chr3:83980362-83980381 None:intergenic 40.0%
! TATGTGTCATTGCATTGCAG+AGG - Chr3:83979531-83979550 MsG0380016476.01.T01:intron 40.0%
!! AAGCACTGAAAGCTCTTCAA+TGG + Chr3:83979046-83979065 None:intergenic 40.0%
AACGGAATTTGTACTGCAGG+TGG - Chr3:83980296-83980315 MsG0380016476.01.T01:intron 45.0%
AGATAAGGTAGGGCCAACAA+TGG - Chr3:83979252-83979271 MsG0380016476.01.T01:CDS 45.0%
GCGGCAGTAAATCCTTTGTT+TGG - Chr3:83979651-83979670 MsG0380016476.01.T01:intron 45.0%
TCACCTAGTGAGCCAAACAA+AGG + Chr3:83979666-83979685 None:intergenic 45.0%
TGTCATTGCATTGCAGAGGT+TGG - Chr3:83979535-83979554 MsG0380016476.01.T01:intron 45.0%
!! CTTTGAAACCATGGCATGGA+TGG - Chr3:83979904-83979923 MsG0380016476.01.T01:intron 45.0%
!! GCAACTTTGAAACCATGGCA+TGG - Chr3:83979900-83979919 MsG0380016476.01.T01:intron 45.0%
CACTATGCAGTCAGAGACGT+AGG - Chr3:83980173-83980192 MsG0380016476.01.T01:intron 50.0%
CCAGCCTCATGATCTTCTTC+AGG + Chr3:83979081-83979100 None:intergenic 50.0%
CCTGAAGAAGATCATGAGGC+TGG - Chr3:83979078-83979097 MsG0380016476.01.T01:intron 50.0%
CGAAGACTGTGACACCCTAA+TGG - Chr3:83980374-83980393 MsG0380016476.01.T01:CDS 50.0%
GATGCAATCCATCCATGCCA+TGG + Chr3:83979915-83979934 None:intergenic 50.0%
GTCAGAGACGTAGGCACAAT+TGG - Chr3:83980182-83980201 MsG0380016476.01.T01:intron 50.0%
! TGTGCCACTATGTAGATCCC+TGG - Chr3:83979794-83979813 MsG0380016476.01.T01:CDS 50.0%
CATTACCTCTGGACCGTAGC+TGG + Chr3:83980081-83980100 None:intergenic 55.0%
TGGGCAAGTCGCTCCAGCTA+CGG - Chr3:83980065-83980084 MsG0380016476.01.T01:CDS 60.0%
TCGCTCCAGCTACGGTCCAG+AGG - Chr3:83980073-83980092 MsG0380016476.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 83978924 83980728 83978924 ID=MsG0380016476.01;Name=MsG0380016476.01
Chr3 mRNA 83978924 83980728 83978924 ID=MsG0380016476.01.T01;Parent=MsG0380016476.01;Name=MsG0380016476.01.T01;_AED=0.30;_eAED=0.30;_QI=73|1|1|1|1|1|6|135|222
Chr3 exon 83978924 83979094 83978924 ID=MsG0380016476.01.T01:exon:14217;Parent=MsG0380016476.01.T01
Chr3 exon 83979194 83979337 83979194 ID=MsG0380016476.01.T01:exon:14216;Parent=MsG0380016476.01.T01
Chr3 exon 83979705 83979843 83979705 ID=MsG0380016476.01.T01:exon:14215;Parent=MsG0380016476.01.T01
Chr3 exon 83979971 83980101 83979971 ID=MsG0380016476.01.T01:exon:14214;Parent=MsG0380016476.01.T01
Chr3 exon 83980343 83980398 83980343 ID=MsG0380016476.01.T01:exon:14213;Parent=MsG0380016476.01.T01
Chr3 exon 83980493 83980728 83980493 ID=MsG0380016476.01.T01:exon:14212;Parent=MsG0380016476.01.T01
Chr3 five_prime_UTR 83980656 83980728 83980656 ID=MsG0380016476.01.T01:five_prime_utr;Parent=MsG0380016476.01.T01
Chr3 CDS 83980493 83980655 83980493 ID=MsG0380016476.01.T01:cds;Parent=MsG0380016476.01.T01
Chr3 CDS 83980343 83980398 83980343 ID=MsG0380016476.01.T01:cds;Parent=MsG0380016476.01.T01
Chr3 CDS 83979971 83980101 83979971 ID=MsG0380016476.01.T01:cds;Parent=MsG0380016476.01.T01
Chr3 CDS 83979705 83979843 83979705 ID=MsG0380016476.01.T01:cds;Parent=MsG0380016476.01.T01
Chr3 CDS 83979194 83979337 83979194 ID=MsG0380016476.01.T01:cds;Parent=MsG0380016476.01.T01
Chr3 CDS 83979059 83979094 83979059 ID=MsG0380016476.01.T01:cds;Parent=MsG0380016476.01.T01
Chr3 three_prime_UTR 83978924 83979058 83978924 ID=MsG0380016476.01.T01:three_prime_utr;Parent=MsG0380016476.01.T01
Gene Sequence

>MsG0380016476.01.T01

ATGAAGAGGAGTAGAGATATAGAGAAGAGATCAGAGATAAACTCTGCCATTGAAGAGCTTTCAGTGCTTGTTATAGTCAAACCTGAAGAAGATCATGAGGCTGGTGCACACATCCCAACAAAGCCTTTCCTATCTTTATGTTACATGGTTCTACAAGTTCTTGATAAGGTAGGGCCAACAATGGCTGTTTTGAGACAAGACATTCACCAGAATATTAAGAGGTTGGAAGCAATACATGAATCAAATCCCTTAACAAATTCAAATTTGGTTGAGATATTCAAGTCAGAAACTAGCAAAGGCAATGCAAAGAAGAGAGTTAGCGGCAGTAAATCCTTTGTTTGGCTCACTAGATCCCTGGATTTCACATCAGCATTGTTACAAGCACTACTAGTAAAAGATCCTAAAAAGAATATGGAGCAAGCAGTTCAAGAGTCTTATGATGCAACTTTGAAACCATGGCATGGATGGATTGCATCAGCTGCTTTCAGAGTGGCTATAAAACTAGTGCCTGATACAAAAACTTTCTTGGATCTCCTCAGAGAAAAAGACGAAGACTGTGACACCCTAATGGAAAAGATGCAGATTTTAGTTTCTTTACTTGTGCCTTTTCTTGAGGATATCCATTGTATTCTAAAAGTGTATAACTTGGACAGGCTTAAGTCAAATTGA

Protein sequence

>MsG0380016476.01.T01

MKRSRDIEKRSEINSAIEELSVLVIVKPEEDHEAGAHIPTKPFLSLCYMVLQVLDKVGPTMAVLRQDIHQNIKRLEAIHESNPLTNSNLVEIFKSETSKGNAKKRVSGSKSFVWLTRSLDFTSALLQALLVKDPKKNMEQAVQESYDATLKPWHGWIASAAFRVAIKLVPDTKTFLDLLREKDEDCDTLMEKMQILVSLLVPFLEDIHCILKVYNLDRLKSN*