AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91968


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91968.t1 MTR_5g098060 90.114 263 24 2 1 262 1 262 1.24e-139 393
MS.gene91968.t1 MTR_7g101080 40.237 169 90 4 33 195 26 189 2.77e-32 119
MS.gene91968.t1 MTR_2g090765 33.043 230 151 3 31 259 22 249 4.56e-27 105
MS.gene91968.t1 MTR_4g059720 35.789 190 111 4 8 194 8 189 1.48e-24 99.0
MS.gene91968.t1 MTR_4g059840 32.787 244 146 8 28 261 55 290 2.49e-23 96.3
MS.gene91968.t1 MTR_4g059790 32.174 230 138 8 28 247 55 276 1.89e-21 91.3
MS.gene91968.t1 MTR_2g093990 36.667 150 90 2 48 194 41 188 3.53e-21 89.7
MS.gene91968.t1 MTR_7g075453 33.714 175 110 4 47 219 183 353 3.81e-20 89.4
MS.gene91968.t1 MTR_4g053380 29.461 241 154 7 28 260 59 291 7.19e-20 87.0
MS.gene91968.t1 MTR_8g087470 32.086 187 106 5 22 190 56 239 1.36e-19 86.7
MS.gene91968.t1 MTR_8g087460 31.551 187 107 5 22 190 56 239 5.68e-19 85.1
MS.gene91968.t1 MTR_2g017960 29.381 194 128 4 48 237 68 256 2.33e-18 82.8
MS.gene91968.t1 MTR_2g017970 30.244 205 129 5 48 243 68 267 2.96e-18 82.4
MS.gene91968.t1 MTR_8g087450 31.098 164 104 4 31 190 63 221 1.49e-17 80.5
MS.gene91968.t1 MTR_2g437700 34.395 157 96 3 46 197 193 347 1.51e-17 82.0
MS.gene91968.t1 MTR_2g017950 28.378 222 125 7 1 190 2 221 1.68e-16 77.8
MS.gene91968.t1 MTR_2g093980 32.026 153 98 3 48 196 69 219 1.10e-15 75.5
MS.gene91968.t1 MTR_4g059780 32.984 191 106 8 26 196 52 240 1.22e-15 75.5
MS.gene91968.t1 MTR_2g093970 28.365 208 122 5 8 190 8 213 7.52e-15 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91968.t1 AT2G04780 65.079 189 66 0 47 235 45 233 1.71e-77 235
MS.gene91968.t1 AT2G04780 65.079 189 66 0 47 235 45 233 1.71e-77 235
MS.gene91968.t1 AT5G44130 34.359 195 120 4 47 237 35 225 1.25e-31 117
MS.gene91968.t1 AT1G03870 33.333 219 130 6 47 262 38 243 5.26e-31 115
MS.gene91968.t1 AT2G20520 36.444 225 125 6 16 224 1 223 1.00e-30 115
MS.gene91968.t1 AT5G03170 36.842 171 104 3 37 204 26 195 1.71e-28 109
MS.gene91968.t1 AT5G60490 34.054 185 109 2 48 230 39 212 8.87e-23 94.0
MS.gene91968.t1 AT3G46550 34.694 196 113 7 22 211 187 373 3.22e-21 92.4
MS.gene91968.t1 AT3G60900 34.659 176 105 5 39 208 180 351 1.98e-18 84.3
MS.gene91968.t1 AT2G45470 32.889 225 133 5 29 240 170 389 1.27e-16 79.3

Find 63 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATCGTCAGCTATGGAATT+TGG 0.201670 5.2:+82523843 MS.gene91968:CDS
CAGTGTTGTTTGCTTGGTTT+TGG 0.217264 5.2:-82523349 None:intergenic
AACCTTATGTTGGCAACTTT+TGG 0.238678 5.2:+82523869 MS.gene91968:CDS
CCTTCAATCCACAAAAGTTT+TGG 0.254005 5.2:+82523319 MS.gene91968:CDS
TCAGCTGCAGGCGCAATTTC+AGG 0.267157 5.2:-82523746 None:intergenic
CTTCTTCAGTGTTGTTTGCT+TGG 0.268289 5.2:-82523355 None:intergenic
GATGCAAAGGAACTGTCTTT+TGG 0.284786 5.2:-82523395 None:intergenic
CTCCCAGCACTTTGGTCAGC+TGG 0.303486 5.2:-82523773 None:intergenic
GATCGTCAGCTATGGAATTT+GGG 0.308948 5.2:+82523844 MS.gene91968:CDS
GGAACTGTCAAAATTAATTC+AGG 0.309797 5.2:+82523590 MS.gene91968:CDS
CACTGATATTCCTCCTGTTC+CGG 0.318299 5.2:+82523709 MS.gene91968:CDS
TTGAATTTCACCGATAATTC+CGG 0.349314 5.2:+82523569 MS.gene91968:CDS
AATCTCATCAGCTTTGAGTT+TGG 0.359351 5.2:-82523438 None:intergenic
GCCTCAACTCCAACATTTGC+CGG 0.365489 5.2:+82523533 MS.gene91968:CDS
TTTGACAGTTCCGGAATTAT+CGG 0.367204 5.2:-82523579 None:intergenic
AGAGGGTGGACTTACAGTTT+TGG 0.375027 5.2:-82523189 None:intergenic
GTGGGTGCAGGAGCCGGAAC+AGG 0.376931 5.2:-82523722 None:intergenic
ACTGAATTACTCACTGTTGC+TGG 0.384658 5.2:+82523272 MS.gene91968:CDS
GGAGCCGGAGTTGGACTCTC+GGG 0.395594 5.2:-82523215 None:intergenic
TGCAATTTATCAAGTTGATA+AGG 0.410347 5.2:+82523661 MS.gene91968:CDS
TCAACTTGATAAATTGCAAC+AGG 0.410462 5.2:-82523656 None:intergenic
TTGTAAGAAGACGAACTATC+TGG 0.433149 5.2:-82523821 None:intergenic
ATGTTGGAGTTGAGGCAGTT+TGG 0.434404 5.2:-82523526 None:intergenic
GCTGGTGCCGGAGCCGGAGT+TGG 0.438953 5.2:-82523224 None:intergenic
TATTGAAGAAAAGTGTGAAA+TGG 0.451994 5.2:-82523296 None:intergenic
AACCAAAAGTTGCCAACATA+AGG 0.457676 5.2:-82523871 None:intergenic
GTAGGTGCTGGTGCCGGAGC+CGG 0.464353 5.2:-82523230 None:intergenic
GAGTTGAGGCAGTTTGGCTA+AGG 0.468259 5.2:-82523520 None:intergenic
TCAGGTGTGGGTGCAGGAGC+CGG 0.468971 5.2:-82523728 None:intergenic
TCTCCAGCTGACCAAAGTGC+TGG 0.473142 5.2:+82523770 MS.gene91968:CDS
CGGAGCCGGAGTTGGACTCT+CGG 0.473204 5.2:-82523216 None:intergenic
GCAATTTCAGGTGTGGGTGC+AGG 0.479601 5.2:-82523734 None:intergenic
CGAGAGTCCAACTCCGGCTC+CGG 0.489134 5.2:+82523217 MS.gene91968:CDS
TGCAGGCGCAATTTCAGGTG+TGG 0.492103 5.2:-82523741 None:intergenic
CAAGCAAACAACACTGAAGA+AGG 0.495908 5.2:+82523356 MS.gene91968:CDS
AATGTGGCAAAGCATGGAAA+AGG 0.503046 5.2:-82523472 None:intergenic
ACGATTTGCTCCCAGCACTT+TGG 0.511706 5.2:-82523781 None:intergenic
GCAGGCGCAATTTCAGGTGT+GGG 0.518557 5.2:-82523740 None:intergenic
ACGAAATCTAATGTAGGTGC+TGG 0.520967 5.2:-82523242 None:intergenic
TCAGCTGGAGAATCAGCTGC+AGG 0.533442 5.2:-82523758 None:intergenic
TCTTACAAGATCGTCAGCTA+TGG 0.536563 5.2:+82523836 MS.gene91968:CDS
GAGCCGGAGTTGGACTCTCG+GGG 0.539393 5.2:-82523214 None:intergenic
CTCCAGCTGACCAAAGTGCT+GGG 0.544197 5.2:+82523771 MS.gene91968:CDS
AATAGAAATGTGGCAAAGCA+TGG 0.549806 5.2:-82523478 None:intergenic
TTCAGGATGGTCAATCACTA+AGG 0.555642 5.2:+82523607 MS.gene91968:CDS
TAATCACCACCGGCAAATGT+TGG 0.556429 5.2:-82523542 None:intergenic
GGTGCAGGAGCCGGAACAGG+AGG 0.561308 5.2:-82523719 None:intergenic
GCTTTGAGTTTGGATAAAGA+AGG 0.566467 5.2:-82523428 None:intergenic
AATTTGGGGCAACCTTATGT+TGG 0.567248 5.2:+82523859 MS.gene91968:CDS
GAACTATCTGGTGAAGATGA+AGG 0.574002 5.2:-82523809 None:intergenic
AGGTTTCTTCAATGATGCAA+AGG 0.576849 5.2:-82523408 None:intergenic
TCTAATGTAGGTGCTGGTGC+CGG 0.581815 5.2:-82523236 None:intergenic
ACCGGCAAATGTTGGAGTTG+AGG 0.585382 5.2:-82523534 None:intergenic
AGGTTTACGAAATCTAATGT+AGG 0.597963 5.2:-82523248 None:intergenic
CTGTCAAAATTAATTCAGGA+TGG 0.599822 5.2:+82523594 MS.gene91968:CDS
ATTCAAAGTGTAATCACCAC+CGG 0.611570 5.2:-82523552 None:intergenic
ATAAATTGCAACAGGATCAG+TGG 0.614239 5.2:-82523648 None:intergenic
GCCGGAGTTGGACTCTCGGG+GGG 0.624804 5.2:-82523212 None:intergenic
AGCCGGAGTTGGACTCTCGG+GGG 0.649411 5.2:-82523213 None:intergenic
ATCGTCAGCTATGGAATTTG+GGG 0.659891 5.2:+82523845 MS.gene91968:CDS
TCAGCTAGTGAATAGAAATG+TGG 0.662953 5.2:-82523488 None:intergenic
TCAACTCCAACATTTGCCGG+TGG 0.688338 5.2:+82523536 MS.gene91968:CDS
CAACAGTGAGTAATTCAGTG+AGG 0.724352 5.2:-82523268 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTGAAGAAAAGTGTGAAA+TGG - chr5.2:82523299-82523318 None:intergenic 25.0%
!!! TGAATTAATTTTGACAGTTC+CGG - chr5.2:82523591-82523610 None:intergenic 25.0%
!!! TGCAATTTATCAAGTTGATA+AGG + chr5.2:82523661-82523680 MS.gene91968:CDS 25.0%
AGGTTTACGAAATCTAATGT+AGG - chr5.2:82523251-82523270 None:intergenic 30.0%
CTGTCAAAATTAATTCAGGA+TGG + chr5.2:82523594-82523613 MS.gene91968:CDS 30.0%
GGAACTGTCAAAATTAATTC+AGG + chr5.2:82523590-82523609 MS.gene91968:CDS 30.0%
TCAACTTGATAAATTGCAAC+AGG - chr5.2:82523659-82523678 None:intergenic 30.0%
TTGAATTTCACCGATAATTC+CGG + chr5.2:82523569-82523588 MS.gene91968:CDS 30.0%
AACCAAAAGTTGCCAACATA+AGG - chr5.2:82523874-82523893 None:intergenic 35.0%
AATAGAAATGTGGCAAAGCA+TGG - chr5.2:82523481-82523500 None:intergenic 35.0%
AGGTTTCTTCAATGATGCAA+AGG - chr5.2:82523411-82523430 None:intergenic 35.0%
ATAAATTGCAACAGGATCAG+TGG - chr5.2:82523651-82523670 None:intergenic 35.0%
ATTCAAAGTGTAATCACCAC+CGG - chr5.2:82523555-82523574 None:intergenic 35.0%
TCAGCTAGTGAATAGAAATG+TGG - chr5.2:82523491-82523510 None:intergenic 35.0%
TTGTAAGAAGACGAACTATC+TGG - chr5.2:82523824-82523843 None:intergenic 35.0%
TTTGACAGTTCCGGAATTAT+CGG - chr5.2:82523582-82523601 None:intergenic 35.0%
! AACCTTATGTTGGCAACTTT+TGG + chr5.2:82523869-82523888 MS.gene91968:CDS 35.0%
! CCTTCAATCCACAAAAGTTT+TGG + chr5.2:82523319-82523338 MS.gene91968:CDS 35.0%
! GAATGTGTCCAAAACTTTTG+TGG - chr5.2:82523330-82523349 None:intergenic 35.0%
! GCTTTGAGTTTGGATAAAGA+AGG - chr5.2:82523431-82523450 None:intergenic 35.0%
!! AATCTCATCAGCTTTGAGTT+TGG - chr5.2:82523441-82523460 None:intergenic 35.0%
!! CCAAAACTTTTGTGGATTGA+AGG - chr5.2:82523322-82523341 None:intergenic 35.0%
AATGTGGCAAAGCATGGAAA+AGG - chr5.2:82523475-82523494 None:intergenic 40.0%
ACGAAATCTAATGTAGGTGC+TGG - chr5.2:82523245-82523264 None:intergenic 40.0%
ACTGAATTACTCACTGTTGC+TGG + chr5.2:82523272-82523291 MS.gene91968:CDS 40.0%
AGATCGTCAGCTATGGAATT+TGG + chr5.2:82523843-82523862 MS.gene91968:CDS 40.0%
ATCGTCAGCTATGGAATTTG+GGG + chr5.2:82523845-82523864 MS.gene91968:CDS 40.0%
CAACAGTGAGTAATTCAGTG+AGG - chr5.2:82523271-82523290 None:intergenic 40.0%
CAAGCAAACAACACTGAAGA+AGG + chr5.2:82523356-82523375 MS.gene91968:CDS 40.0%
GAACTATCTGGTGAAGATGA+AGG - chr5.2:82523812-82523831 None:intergenic 40.0%
GATCGTCAGCTATGGAATTT+GGG + chr5.2:82523844-82523863 MS.gene91968:CDS 40.0%
TCTTACAAGATCGTCAGCTA+TGG + chr5.2:82523836-82523855 MS.gene91968:CDS 40.0%
TTCAGGATGGTCAATCACTA+AGG + chr5.2:82523607-82523626 MS.gene91968:CDS 40.0%
! AATTTGGGGCAACCTTATGT+TGG + chr5.2:82523859-82523878 MS.gene91968:CDS 40.0%
! GATGCAAAGGAACTGTCTTT+TGG - chr5.2:82523398-82523417 None:intergenic 40.0%
! TGATAAGGTTTTGCTTCCTG+AGG + chr5.2:82523676-82523695 MS.gene91968:CDS 40.0%
!! CTTCTTCAGTGTTGTTTGCT+TGG - chr5.2:82523358-82523377 None:intergenic 40.0%
!! TTGCTTCCTGAGGCTATTTT+TGG + chr5.2:82523686-82523705 MS.gene91968:CDS 40.0%
!!! CAGTGTTGTTTGCTTGGTTT+TGG - chr5.2:82523352-82523371 None:intergenic 40.0%
!!! GTTGGCAACTTTTGGTTTGT+TGG + chr5.2:82523877-82523896 MS.gene91968:CDS 40.0%
ATGTTGGAGTTGAGGCAGTT+TGG - chr5.2:82523529-82523548 None:intergenic 45.0%
CACTGATATTCCTCCTGTTC+CGG + chr5.2:82523709-82523728 MS.gene91968:CDS 45.0%
TAATCACCACCGGCAAATGT+TGG - chr5.2:82523545-82523564 None:intergenic 45.0%
TCAGTGCCAAAAATAGCCTC+AGG - chr5.2:82523695-82523714 None:intergenic 45.0%
!! AGAGGGTGGACTTACAGTTT+TGG - chr5.2:82523192-82523211 None:intergenic 45.0%
!!! GGCAACTTTTGGTTTGTTGG+TGG + chr5.2:82523880-82523899 MS.gene91968:CDS 45.0%
ACCGGCAAATGTTGGAGTTG+AGG - chr5.2:82523537-82523556 None:intergenic 50.0%
GAGTTGAGGCAGTTTGGCTA+AGG - chr5.2:82523523-82523542 None:intergenic 50.0%
GCCTCAACTCCAACATTTGC+CGG + chr5.2:82523533-82523552 MS.gene91968:CDS 50.0%
TCAACTCCAACATTTGCCGG+TGG + chr5.2:82523536-82523555 MS.gene91968:CDS 50.0%
! ACGATTTGCTCCCAGCACTT+TGG - chr5.2:82523784-82523803 None:intergenic 50.0%
!! TCTAATGTAGGTGCTGGTGC+CGG - chr5.2:82523239-82523258 None:intergenic 50.0%
TCAGCTGCAGGCGCAATTTC+AGG - chr5.2:82523749-82523768 None:intergenic 55.0%
TCAGCTGGAGAATCAGCTGC+AGG - chr5.2:82523761-82523780 None:intergenic 55.0%
TCTCCAGCTGACCAAAGTGC+TGG + chr5.2:82523770-82523789 MS.gene91968:CDS 55.0%
! CTCCAGCTGACCAAAGTGCT+GGG + chr5.2:82523771-82523790 MS.gene91968:CDS 55.0%
! GCAATTTCAGGTGTGGGTGC+AGG - chr5.2:82523737-82523756 None:intergenic 55.0%
! GCAGGCGCAATTTCAGGTGT+GGG - chr5.2:82523743-82523762 None:intergenic 55.0%
! TGCAGGCGCAATTTCAGGTG+TGG - chr5.2:82523744-82523763 None:intergenic 55.0%
CTCCCAGCACTTTGGTCAGC+TGG - chr5.2:82523776-82523795 None:intergenic 60.0%
AGCCGGAGTTGGACTCTCGG+GGG - chr5.2:82523216-82523235 None:intergenic 65.0%
AGTTGGACTCTCGGGGGGAG+AGG - chr5.2:82523210-82523229 None:intergenic 65.0%
CGAGAGTCCAACTCCGGCTC+CGG + chr5.2:82523217-82523236 MS.gene91968:CDS 65.0%
CGGAGCCGGAGTTGGACTCT+CGG - chr5.2:82523219-82523238 None:intergenic 65.0%
GAGCCGGAGTTGGACTCTCG+GGG - chr5.2:82523217-82523236 None:intergenic 65.0%
GGAGCCGGAGTTGGACTCTC+GGG - chr5.2:82523218-82523237 None:intergenic 65.0%
GTTGGACTCTCGGGGGGAGA+GGG - chr5.2:82523209-82523228 None:intergenic 65.0%
TCAGGTGTGGGTGCAGGAGC+CGG - chr5.2:82523731-82523750 None:intergenic 65.0%
TCCCCCCGAGAGTCCAACTC+CGG + chr5.2:82523211-82523230 MS.gene91968:CDS 65.0%
GCCGGAGTTGGACTCTCGGG+GGG - chr5.2:82523215-82523234 None:intergenic 70.0%
GGTGCAGGAGCCGGAACAGG+AGG - chr5.2:82523722-82523741 None:intergenic 70.0%
GTGGGTGCAGGAGCCGGAAC+AGG - chr5.2:82523725-82523744 None:intergenic 70.0%
!! GTAGGTGCTGGTGCCGGAGC+CGG - chr5.2:82523233-82523252 None:intergenic 70.0%
GGACTCTCGGGGGGAGAGGG+TGG - chr5.2:82523206-82523225 None:intergenic 75.0%
! GCTGGTGCCGGAGCCGGAGT+TGG - chr5.2:82523227-82523246 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 82523125 82523913 82523125 ID=MS.gene91968
chr5.2 mRNA 82523125 82523913 82523125 ID=MS.gene91968.t1;Parent=MS.gene91968
chr5.2 exon 82523125 82523913 82523125 ID=MS.gene91968.t1.exon1;Parent=MS.gene91968.t1
chr5.2 CDS 82523125 82523913 82523125 ID=cds.MS.gene91968.t1;Parent=MS.gene91968.t1
Gene Sequence

>MS.gene91968

ATGAAGGTTTCAATGATTTTTCTTGTGAGCAGCACTCTGCTGCTTCTGAGCTCATCAGCATTTGCCAAAACTGTAAGTCCACCCTCTCCCCCCGAGAGTCCAACTCCGGCTCCGGCACCAGCACCTACATTAGATTTCGTAAACCTCACTGAATTACTCACTGTTGCTGGTCCATTTCACACTTTTCTTCAATACCTTCAATCCACAAAAGTTTTGGACACATTCCAAAACCAAGCAAACAACACTGAAGAAGGAATCACTATCTTTGTTCCAAAAGACAGTTCCTTTGCATCATTGAAGAAACCTTCTTTATCCAAACTCAAAGCTGATGAGATTAAACAAGTGATCCTTTTCCATGCTTTGCCACATTTCTATTCACTAGCTGATTTCAAAAACCTTAGCCAAACTGCCTCAACTCCAACATTTGCCGGTGGTGATTACACTTTGAATTTCACCGATAATTCCGGAACTGTCAAAATTAATTCAGGATGGTCAATCACTAAGGTGACTAGTGCAGTTCATGCCACTGATCCTGTTGCAATTTATCAAGTTGATAAGGTTTTGCTTCCTGAGGCTATTTTTGGCACTGATATTCCTCCTGTTCCGGCTCCTGCACCCACACCTGAAATTGCGCCTGCAGCTGATTCTCCAGCTGACCAAAGTGCTGGGAGCAAATCGTCTTCACCTTCATCTTCACCAGATAGTTCGTCTTCTTACAAGATCGTCAGCTATGGAATTTGGGGCAACCTTATGTTGGCAACTTTTGGTTTGTTGGTGGTACTCTTGTGA

Protein sequence

>MS.gene91968.t1

MKVSMIFLVSSTLLLLSSSAFAKTVSPPSPPESPTPAPAPAPTLDFVNLTELLTVAGPFHTFLQYLQSTKVLDTFQNQANNTEEGITIFVPKDSSFASLKKPSLSKLKADEIKQVILFHALPHFYSLADFKNLSQTASTPTFAGGDYTLNFTDNSGTVKINSGWSITKVTSAVHATDPVAIYQVDKVLLPEAIFGTDIPPVPAPAPTPEIAPAADSPADQSAGSKSSSPSSSPDSSSSYKIVSYGIWGNLMLATFGLLVVLL