AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene71289


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71289.t1 MTR_7g031160 77.487 191 43 0 1 191 1 191 1.95e-112 326
MS.gene71289.t1 MTR_6g033460 43.147 197 104 5 1 191 1 195 6.62e-43 149
MS.gene71289.t1 MTR_7g031230 80.519 77 15 0 115 191 113 189 2.42e-39 137
MS.gene71289.t1 MTR_5g454250 40.541 185 100 4 1 177 139 321 3.05e-39 140
MS.gene71289.t1 MTR_2g009940 39.779 181 104 2 1 176 87 267 1.63e-38 138
MS.gene71289.t1 MTR_7g024810 39.227 181 105 2 1 176 110 290 1.01e-37 136
MS.gene71289.t1 MTR_2g083020 39.227 181 105 2 1 176 281 461 1.27e-37 137
MS.gene71289.t1 MTR_6g014585 39.227 181 105 2 1 176 36 216 1.38e-37 136
MS.gene71289.t1 MTR_6g012930 39.227 181 105 2 1 176 58 238 1.47e-37 136
MS.gene71289.t1 MTR_3g030280 39.227 181 105 2 1 176 8 188 2.15e-37 136
MS.gene71289.t1 MTR_7g029850 39.264 163 98 1 1 162 26 188 9.86e-36 129
MS.gene71289.t1 MTR_0019s0170 39.891 183 93 5 1 169 69 248 4.75e-34 124
MS.gene71289.t1 MTR_0039s0050 38.519 135 75 3 50 177 48 181 1.07e-24 95.9
MS.gene71289.t1 MTR_7g045330 36.842 114 71 1 1 113 72 185 1.36e-20 88.6
MS.gene71289.t1 MTR_5g095400 28.272 191 124 7 6 190 262 445 3.07e-17 79.3
MS.gene71289.t1 MTR_7g016020 30.435 138 83 4 1 132 235 365 4.95e-12 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 64 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGCTTTCTGTTGATTCTT+AGG 0.202112 3.2:-71798999 None:intergenic
CCATCATTCAGAAGCGAAAA+TGG 0.226812 3.2:+71799201 MS.gene71289:CDS
TTCAACAAAACAAAGGGAAT+TGG 0.318155 3.2:+71799429 MS.gene71289:CDS
TTCTAGATGGTTTGAGCAAT+GGG 0.324430 3.2:-71799548 None:intergenic
TGCGAACGCCATGCCTTTAG+AGG 0.341762 3.2:+71799280 MS.gene71289:CDS
CTTGTCTCATACCCCTTTCC+CGG 0.341952 3.2:-71799485 None:intergenic
ATTTCCCTTCAGCTGAGATT+TGG 0.348120 3.2:-71799163 None:intergenic
CGATTTCAGTGTTGATTTGA+GGG 0.394788 3.2:-71799244 None:intergenic
TGAAATGGACAGAGTTCATC+AGG 0.395241 3.2:-71799404 None:intergenic
GAACAGGATCAATTTCTAGA+TGG 0.396420 3.2:-71799561 None:intergenic
TCAAGCAACCATTCTGCAAC+CGG 0.415380 3.2:+71799466 MS.gene71289:CDS
ACCATTCTGCAACCGGGAAA+GGG 0.417546 3.2:+71799473 MS.gene71289:CDS
AACTATGTAAACGGAAGCTT+TGG 0.426298 3.2:+71799126 MS.gene71289:CDS
AGATTGCTTTCTCTTGCCTC+TGG 0.428618 3.2:-71799030 None:intergenic
CTGTGCTCGTCATAAGGTCT+TGG 0.434602 3.2:-71799068 None:intergenic
AACCATTCTGCAACCGGGAA+AGG 0.439893 3.2:+71799472 MS.gene71289:CDS
TCAACAAAACAAAGGGAATT+GGG 0.439975 3.2:+71799430 MS.gene71289:CDS
AAGAATCTGTGCTCGTCATA+AGG 0.452116 3.2:-71799074 None:intergenic
CAAGGTAGTCATTAATGCCT+TGG 0.457105 3.2:-71799358 None:intergenic
GAAGCGAAAATGGGAACAAC+TGG 0.458894 3.2:+71799211 MS.gene71289:CDS
ACGATTTCAGTGTTGATTTG+AGG 0.463765 3.2:-71799245 None:intergenic
TTCACCTTCAACAAAACAAA+GGG 0.472719 3.2:+71799423 MS.gene71289:CDS
GTTTACATAGTTCGTGATAC+CGG 0.475853 3.2:-71799115 None:intergenic
TAGCTTCAAAACCATGATAC+GGG 0.477285 3.2:+71799313 MS.gene71289:CDS
ATTCTTTACTGTTGCTCACC+AGG 0.478766 3.2:+71799091 MS.gene71289:CDS
TCAGTGTTGATTTGAGGGTG+AGG 0.482065 3.2:-71799239 None:intergenic
CAGTGTTGATTTGAGGGTGA+GGG 0.482910 3.2:-71799238 None:intergenic
GGTCATGTTACACTTCTTAA+CGG 0.485329 3.2:-71799525 None:intergenic
GGGTATGAGACAAGTGTGAC+CGG 0.490803 3.2:+71799494 MS.gene71289:CDS
TTAGCTTCAAAACCATGATA+CGG 0.499906 3.2:+71799312 MS.gene71289:CDS
TTTCTAGATGGTTTGAGCAA+TGG 0.503182 3.2:-71799549 None:intergenic
CATCATTCAGAAGCGAAAAT+GGG 0.505061 3.2:+71799202 MS.gene71289:CDS
CCCCTTTCCCGGTTGCAGAA+TGG 0.509924 3.2:-71799474 None:intergenic
AAGGCATTAATGACTACCTT+GGG 0.510007 3.2:+71799360 MS.gene71289:CDS
CAAGGCATTAATGACTACCT+TGG 0.511639 3.2:+71799359 MS.gene71289:CDS
ATAGTTCGTGATACCGGTCC+TGG 0.517281 3.2:-71799109 None:intergenic
TTACTGTTGCTCACCAGGAC+CGG 0.519800 3.2:+71799096 MS.gene71289:CDS
GATCACCCTACCCCGTATCA+TGG 0.533388 3.2:-71799324 None:intergenic
CAGTTCCAAATCTCAGCTGA+AGG 0.536831 3.2:+71799158 MS.gene71289:CDS
ATTAATGCCTTGGCGATCAA+AGG 0.538491 3.2:-71799348 None:intergenic
GGTATCACGAACTATGTAAA+CGG 0.542192 3.2:+71799117 MS.gene71289:CDS
TTGCTTTCTCTTGCCTCTGG+CGG 0.547552 3.2:-71799027 None:intergenic
CCATTCTGCAACCGGGAAAG+GGG 0.554644 3.2:+71799474 MS.gene71289:CDS
TTTCACCTTCAACAAAACAA+AGG 0.558062 3.2:+71799422 MS.gene71289:CDS
AGTGTTGATTTGAGGGTGAG+GGG 0.563551 3.2:-71799237 None:intergenic
GCGAACGCCATGCCTTTAGA+GGG 0.570183 3.2:+71799281 MS.gene71289:CDS
CAAAACCATGATACGGGGTA+GGG 0.571288 3.2:+71799319 MS.gene71289:CDS
CTTCTTAACGGTATCACGCC+CGG 0.573605 3.2:-71799513 None:intergenic
TCAAAACCATGATACGGGGT+AGG 0.574363 3.2:+71799318 MS.gene71289:CDS
CAAGCAACCATTCTGCAACC+GGG 0.575960 3.2:+71799467 MS.gene71289:CDS
TGAGTTTGTAAGGTTTCCCA+AGG 0.586778 3.2:-71799376 None:intergenic
TCGTCATAAGGTCTTGGAGT+CGG 0.596159 3.2:-71799062 None:intergenic
TGGTTGCTTGAATGAGTGAA+TGG 0.601299 3.2:-71799454 None:intergenic
CTAGATGGTTTGAGCAATGG+GGG 0.602525 3.2:-71799546 None:intergenic
AGTTCCAAATCTCAGCTGAA+GGG 0.607927 3.2:+71799159 MS.gene71289:CDS
AAAGCATCAGCTTCCGCCAG+AGG 0.618001 3.2:+71799014 MS.gene71289:CDS
GTGATCACCTTTGATCGCCA+AGG 0.624948 3.2:+71799341 MS.gene71289:CDS
GGTATGAGACAAGTGTGACC+GGG 0.636850 3.2:+71799495 MS.gene71289:CDS
GAACGCCATGCCTTTAGAGG+GGG 0.642642 3.2:+71799283 MS.gene71289:CDS
TCTAGATGGTTTGAGCAATG+GGG 0.662758 3.2:-71799547 None:intergenic
GAAATGGACAGAGTTCATCA+GGG 0.670511 3.2:-71799403 None:intergenic
AAATGGACAGAGTTCATCAG+GGG 0.680123 3.2:-71799402 None:intergenic
CGAACGCCATGCCTTTAGAG+GGG 0.684578 3.2:+71799282 MS.gene71289:CDS
AGCTTCAAAACCATGATACG+GGG 0.691193 3.2:+71799314 MS.gene71289:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TCAACAAAACAAAGGGAATT+GGG + chr3.2:71799430-71799449 MS.gene71289:CDS 30.0%
TTAGCTTCAAAACCATGATA+CGG + chr3.2:71799312-71799331 MS.gene71289:CDS 30.0%
TTCAACAAAACAAAGGGAAT+TGG + chr3.2:71799429-71799448 MS.gene71289:CDS 30.0%
TTCACCTTCAACAAAACAAA+GGG + chr3.2:71799423-71799442 MS.gene71289:CDS 30.0%
TTTCACCTTCAACAAAACAA+AGG + chr3.2:71799422-71799441 MS.gene71289:CDS 30.0%
!! TTGTTTTGTTGAAGGTGAAA+TGG - chr3.2:71799422-71799441 None:intergenic 30.0%
!!! AATTCCCTTTGTTTTGTTGA+AGG - chr3.2:71799430-71799449 None:intergenic 30.0%
AACTATGTAAACGGAAGCTT+TGG + chr3.2:71799126-71799145 MS.gene71289:CDS 35.0%
CATCATTCAGAAGCGAAAAT+GGG + chr3.2:71799202-71799221 MS.gene71289:CDS 35.0%
GGTATCACGAACTATGTAAA+CGG + chr3.2:71799117-71799136 MS.gene71289:CDS 35.0%
GGTCATGTTACACTTCTTAA+CGG - chr3.2:71799528-71799547 None:intergenic 35.0%
GTTTACATAGTTCGTGATAC+CGG - chr3.2:71799118-71799137 None:intergenic 35.0%
TAGCTTCAAAACCATGATAC+GGG + chr3.2:71799313-71799332 MS.gene71289:CDS 35.0%
! AAGGCATTAATGACTACCTT+GGG + chr3.2:71799360-71799379 MS.gene71289:CDS 35.0%
!! ACGATTTCAGTGTTGATTTG+AGG - chr3.2:71799248-71799267 None:intergenic 35.0%
!! CGATTTCAGTGTTGATTTGA+GGG - chr3.2:71799247-71799266 None:intergenic 35.0%
!! GATGCTTTCTGTTGATTCTT+AGG - chr3.2:71799002-71799021 None:intergenic 35.0%
AAATGGACAGAGTTCATCAG+GGG - chr3.2:71799405-71799424 None:intergenic 40.0%
AAGAATCTGTGCTCGTCATA+AGG - chr3.2:71799077-71799096 None:intergenic 40.0%
AGCTTCAAAACCATGATACG+GGG + chr3.2:71799314-71799333 MS.gene71289:CDS 40.0%
AGTTCCAAATCTCAGCTGAA+GGG + chr3.2:71799159-71799178 MS.gene71289:CDS 40.0%
ATTAATGCCTTGGCGATCAA+AGG - chr3.2:71799351-71799370 None:intergenic 40.0%
ATTCTTTACTGTTGCTCACC+AGG + chr3.2:71799091-71799110 MS.gene71289:CDS 40.0%
ATTTCCCTTCAGCTGAGATT+TGG - chr3.2:71799166-71799185 None:intergenic 40.0%
CAAGGTAGTCATTAATGCCT+TGG - chr3.2:71799361-71799380 None:intergenic 40.0%
CCATCATTCAGAAGCGAAAA+TGG + chr3.2:71799201-71799220 MS.gene71289:CDS 40.0%
CTAAATTCTTCCCCCTCTAA+AGG - chr3.2:71799296-71799315 None:intergenic 40.0%
GAAATGGACAGAGTTCATCA+GGG - chr3.2:71799406-71799425 None:intergenic 40.0%
TGAAATGGACAGAGTTCATC+AGG - chr3.2:71799407-71799426 None:intergenic 40.0%
TGAGTTTGTAAGGTTTCCCA+AGG - chr3.2:71799379-71799398 None:intergenic 40.0%
TGGTTGCTTGAATGAGTGAA+TGG - chr3.2:71799457-71799476 None:intergenic 40.0%
! CAAGGCATTAATGACTACCT+TGG + chr3.2:71799359-71799378 MS.gene71289:CDS 40.0%
! CCATTTTCGCTTCTGAATGA+TGG - chr3.2:71799204-71799223 None:intergenic 40.0%
!!! TCAGGGGTTTTGAGTTTGTA+AGG - chr3.2:71799389-71799408 None:intergenic 40.0%
AGATTGCTTTCTCTTGCCTC+TGG - chr3.2:71799033-71799052 None:intergenic 45.0%
CAAAACCATGATACGGGGTA+GGG + chr3.2:71799319-71799338 MS.gene71289:CDS 45.0%
CAGTTCCAAATCTCAGCTGA+AGG + chr3.2:71799158-71799177 MS.gene71289:CDS 45.0%
CTAGATGGTTTGAGCAATGG+GGG - chr3.2:71799549-71799568 None:intergenic 45.0%
GAAGCGAAAATGGGAACAAC+TGG + chr3.2:71799211-71799230 MS.gene71289:CDS 45.0%
TCAAAACCATGATACGGGGT+AGG + chr3.2:71799318-71799337 MS.gene71289:CDS 45.0%
TCAAGCAACCATTCTGCAAC+CGG + chr3.2:71799466-71799485 MS.gene71289:CDS 45.0%
TCGTCATAAGGTCTTGGAGT+CGG - chr3.2:71799065-71799084 None:intergenic 45.0%
!! AGTGTTGATTTGAGGGTGAG+GGG - chr3.2:71799240-71799259 None:intergenic 45.0%
!! CAGTGTTGATTTGAGGGTGA+GGG - chr3.2:71799241-71799260 None:intergenic 45.0%
!! TCAGTGTTGATTTGAGGGTG+AGG - chr3.2:71799242-71799261 None:intergenic 45.0%
AACCATTCTGCAACCGGGAA+AGG + chr3.2:71799472-71799491 MS.gene71289:CDS 50.0%
ACCATTCTGCAACCGGGAAA+GGG + chr3.2:71799473-71799492 MS.gene71289:CDS 50.0%
ATAGTTCGTGATACCGGTCC+TGG - chr3.2:71799112-71799131 None:intergenic 50.0%
CAAGCAACCATTCTGCAACC+GGG + chr3.2:71799467-71799486 MS.gene71289:CDS 50.0%
CTGTGCTCGTCATAAGGTCT+TGG - chr3.2:71799071-71799090 None:intergenic 50.0%
CTTCTTAACGGTATCACGCC+CGG - chr3.2:71799516-71799535 None:intergenic 50.0%
CTTGTCTCATACCCCTTTCC+CGG - chr3.2:71799488-71799507 None:intergenic 50.0%
GGGTATGAGACAAGTGTGAC+CGG + chr3.2:71799494-71799513 MS.gene71289:CDS 50.0%
GGTATGAGACAAGTGTGACC+GGG + chr3.2:71799495-71799514 MS.gene71289:CDS 50.0%
GTGATCACCTTTGATCGCCA+AGG + chr3.2:71799341-71799360 MS.gene71289:CDS 50.0%
TTACTGTTGCTCACCAGGAC+CGG + chr3.2:71799096-71799115 MS.gene71289:CDS 50.0%
TTGCTTTCTCTTGCCTCTGG+CGG - chr3.2:71799030-71799049 None:intergenic 50.0%
! TTCTTCCCCCTCTAAAGGCA+TGG - chr3.2:71799291-71799310 None:intergenic 50.0%
CCATTCTGCAACCGGGAAAG+GGG + chr3.2:71799474-71799493 MS.gene71289:CDS 55.0%
GATCACCCTACCCCGTATCA+TGG - chr3.2:71799327-71799346 None:intergenic 55.0%
GCGAACGCCATGCCTTTAGA+GGG + chr3.2:71799281-71799300 MS.gene71289:CDS 55.0%
TGCGAACGCCATGCCTTTAG+AGG + chr3.2:71799280-71799299 MS.gene71289:CDS 55.0%
! AAAGCATCAGCTTCCGCCAG+AGG + chr3.2:71799014-71799033 MS.gene71289:CDS 55.0%
! CGAACGCCATGCCTTTAGAG+GGG + chr3.2:71799282-71799301 MS.gene71289:CDS 55.0%
! GAACGCCATGCCTTTAGAGG+GGG + chr3.2:71799283-71799302 MS.gene71289:CDS 55.0%
CCCCTTTCCCGGTTGCAGAA+TGG - chr3.2:71799477-71799496 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 71798993 71799568 71798993 ID=MS.gene71289
chr3.2 mRNA 71798993 71799568 71798993 ID=MS.gene71289.t1;Parent=MS.gene71289
chr3.2 exon 71798993 71799568 71798993 ID=MS.gene71289.t1.exon1;Parent=MS.gene71289.t1
chr3.2 CDS 71798993 71799568 71798993 ID=cds.MS.gene71289.t1;Parent=MS.gene71289.t1
Gene Sequence

>MS.gene71289

ATGGCACCTAAGAATCAACAGAAAGCATCAGCTTCCGCCAGAGGCAAGAGAAAGCAATCTGAAGCTGAACCGACTCCAAGACCTTATGACGAGCACAGATTCTTTACTGTTGCTCACCAGGACCGGTATCACGAACTATGTAAACGGAAGCTTTGGCATGACAAGCAGTTCCAAATCTCAGCTGAAGGGAAATACAAAGTGCTTGCTGCCATCATTCAGAAGCGAAAATGGGAACAACTGGTTGCCCCTCACCCTCAAATCAACACTGAAATCGTGCGTGAGTTCTATGCGAACGCCATGCCTTTAGAGGGGGAAGAATTTAGCTTCAAAACCATGATACGGGGTAGGGTGATCACCTTTGATCGCCAAGGCATTAATGACTACCTTGGGAAACCTTACAAACTCAAAACCCCTGATGAACTCTGTCCATTTCACCTTCAACAAAACAAAGGGAATTGGGACCATTCACTCATTCAAGCAACCATTCTGCAACCGGGAAAGGGGTATGAGACAAGTGTGACCGGGCGTGATACCGTTAAGAAGTGTAACATGACCCCCATTGCTCAAACCATCTAG

Protein sequence

>MS.gene71289.t1

MAPKNQQKASASARGKRKQSEAEPTPRPYDEHRFFTVAHQDRYHELCKRKLWHDKQFQISAEGKYKVLAAIIQKRKWEQLVAPHPQINTEIVREFYANAMPLEGEEFSFKTMIRGRVITFDRQGINDYLGKPYKLKTPDELCPFHLQQNKGNWDHSLIQATILQPGKGYETSVTGRDTVKKCNMTPIAQTI