AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene77780

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene77780.t1 MTR_8g045400 95.513 156 7 0 1 156 1 156 1.52e-109 308
MS.gene77780.t1 MTR_8g045520 79.618 157 31 1 1 156 1 157 2.06e-89 257
MS.gene77780.t1 MTR_8g045490 77.707 157 33 2 1 156 1 156 2.48e-88 254
MS.gene77780.t1 MTR_8g045695 73.885 157 39 2 1 156 1 156 1.93e-83 242
MS.gene77780.t1 MTR_8g045570 73.026 152 40 1 1 151 1 152 1.17e-80 235
MS.gene77780.t1 MTR_8g045640 73.885 157 39 2 1 156 1 156 2.89e-80 234
MS.gene77780.t1 MTR_8g045300 69.872 156 46 1 1 155 1 156 2.85e-79 232
MS.gene77780.t1 MTR_8g045665 71.975 157 42 2 1 156 1 156 3.88e-79 231
MS.gene77780.t1 MTR_8g045555 71.711 152 42 1 1 151 1 152 8.71e-79 230
MS.gene77780.t1 MTR_8g045735 70.323 155 44 2 1 154 1 154 1.03e-78 230
MS.gene77780.t1 MTR_8g045560 71.975 157 42 2 1 156 1 156 1.63e-78 230
MS.gene77780.t1 MTR_1g030810 41.176 153 86 3 1 150 1 152 7.57e-38 127
MS.gene77780.t1 MTR_1g030820 38.562 153 90 3 1 150 1 152 7.86e-37 124
MS.gene77780.t1 MTR_1g030840 40.127 157 83 6 1 148 1 155 7.45e-30 107
MS.gene77780.t1 MTR_1g031640 38.776 147 82 4 7 151 7 147 4.81e-28 101
MS.gene77780.t1 MTR_8g012550 35.862 145 89 4 6 148 8 150 4.02e-26 97.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene77780.t1 AT5G28010 36.667 150 91 4 3 149 15 163 1.23e-26 99.0
MS.gene77780.t1 AT5G28010 36.667 150 91 4 3 149 15 163 1.23e-26 99.0
MS.gene77780.t1 AT1G70840 38.000 150 89 4 3 149 20 168 2.76e-26 98.2
MS.gene77780.t1 AT1G70830 38.667 150 88 4 3 149 22 170 6.96e-26 97.1
MS.gene77780.t1 AT1G70830 38.667 150 88 4 3 149 22 170 1.24e-25 97.1
MS.gene77780.t1 AT1G70890 37.333 150 90 4 3 149 7 155 2.87e-25 95.1
MS.gene77780.t1 AT1G70830 38.667 150 88 4 3 149 22 170 5.88e-25 96.7
MS.gene77780.t1 AT1G70830 38.667 150 88 4 3 149 22 170 1.69e-24 97.1
MS.gene77780.t1 AT1G70830 38.000 150 89 4 3 149 184 332 1.31e-23 94.7
MS.gene77780.t1 AT1G70830 38.000 150 89 4 3 149 137 285 2.87e-24 95.5
MS.gene77780.t1 AT1G70830 35.484 93 58 2 59 149 31 123 8.14e-12 62.0
MS.gene77780.t1 AT5G28000 35.333 150 93 4 3 149 13 161 2.38e-23 90.1
MS.gene77780.t1 AT1G70850 36.667 150 91 4 3 149 9 157 1.42e-22 90.1
MS.gene77780.t1 AT1G23120 28.859 149 102 2 1 149 1 145 1.77e-22 87.4
MS.gene77780.t1 AT1G23120 29.371 143 97 2 7 149 57 195 4.06e-22 87.8
MS.gene77780.t1 AT1G70850 36.667 150 91 4 3 149 9 157 4.25e-22 90.1
MS.gene77780.t1 AT1G70850 36.429 140 85 4 13 149 175 313 2.20e-20 85.5
MS.gene77780.t1 AT1G70850 36.667 150 91 4 3 149 9 157 4.25e-22 90.1
MS.gene77780.t1 AT1G70850 36.429 140 85 4 13 149 175 313 2.20e-20 85.5
MS.gene77780.t1 AT1G70870 38.542 96 59 0 55 150 43 138 2.50e-21 84.3
MS.gene77780.t1 AT1G14930 30.769 156 106 2 1 155 1 155 3.93e-21 84.3
MS.gene77780.t1 AT1G23130 31.544 149 99 3 3 149 10 157 4.34e-21 84.3
MS.gene77780.t1 AT4G23670 32.895 152 100 2 1 151 1 151 5.25e-21 84.0
MS.gene77780.t1 AT2G01520 30.263 152 104 2 1 151 1 151 5.93e-20 81.3
MS.gene77780.t1 AT4G14060 29.605 152 105 2 1 151 1 151 1.30e-18 77.8
MS.gene77780.t1 AT2G01530 29.605 152 105 2 1 151 1 151 3.39e-18 76.6
MS.gene77780.t1 AT1G70880 30.667 150 100 4 3 149 8 156 4.54e-18 76.6
MS.gene77780.t1 AT1G14940 28.846 156 109 2 1 155 1 155 4.76e-18 76.3
MS.gene77780.t1 AT4G23680 29.139 151 105 2 1 150 1 150 1.42e-17 75.1
MS.gene77780.t1 AT1G30990 30.000 150 102 3 1 149 1 148 4.95e-17 73.6
MS.gene77780.t1 AT1G14950 28.846 156 109 2 1 155 1 155 5.65e-17 73.6
MS.gene77780.t1 AT1G35260 30.137 146 97 4 7 149 6 149 7.43e-17 73.2
MS.gene77780.t1 AT3G26450 28.105 153 107 3 1 151 1 152 6.11e-15 68.2
MS.gene77780.t1 AT1G14960 28.477 151 106 2 1 150 1 150 1.67e-14 67.0
MS.gene77780.t1 AT3G26460 27.451 153 108 3 1 151 1 152 6.75e-14 65.5
MS.gene77780.t1 AT1G35310 27.338 139 97 4 13 149 12 148 1.66e-13 64.3
MS.gene77780.t1 AT1G24020 30.263 152 103 3 1 150 1 151 3.87e-12 60.8
MS.gene77780.t1 AT1G24020 30.263 152 103 3 1 150 1 151 3.87e-12 60.8
MS.gene77780.t1 AT1G14940 25.641 156 98 2 1 155 1 139 6.56e-11 57.4

Find 31 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTCACCTTCATGAAGTT+TGG 0.299460 8.1:-60092857 None:intergenic
AAGTTCAGTACTAAGTTTAC+CGG 0.399540 8.1:-60092746 None:intergenic
AACATTAGCGAAAGAGTTCA+TGG 0.404572 8.1:+60092832 MS.gene77780:CDS
AACAAGTCCATCCAGCCATT+TGG 0.409540 8.1:-60093457 None:intergenic
ATCATTGAAGTAATTGATAA+TGG 0.438898 8.1:+60093370 MS.gene77780:CDS
ATGGCAGTGGAGCTGCAAAA+TGG 0.452179 8.1:+60093395 MS.gene77780:CDS
AAACTCACTTTCAAGCTCTT+CGG 0.455962 8.1:+60093310 MS.gene77780:CDS
AATGGCTGGATGGACTTGTT+AGG 0.459576 8.1:+60093460 MS.gene77780:CDS
AAACACTGGACTTATGTCAT+AGG 0.470664 8.1:+60092901 MS.gene77780:CDS
AACTTCATGAAGGTGAAGAT+TGG 0.494334 8.1:+60092860 MS.gene77780:CDS
AGACATTGATGAGCACTATA+AGG 0.495099 8.1:+60093336 MS.gene77780:CDS
AGATTGGCATCACACTGATT+CGG 0.519723 8.1:+60092876 MS.gene77780:CDS
ATATTGACCCTCCAAATGGC+TGG 0.527845 8.1:+60093446 MS.gene77780:CDS
GAGGATATTGACCCTCCAAA+TGG 0.539495 8.1:+60093442 MS.gene77780:CDS
GGTAAACTTAGTACTGAACT+TGG 0.549891 8.1:+60092748 MS.gene77780:CDS
AAGTCCATCCAGCCATTTGG+AGG 0.551025 8.1:-60093454 None:intergenic
CTCACTTTCAAGCTCTTCGG+TGG 0.553344 8.1:+60093313 MS.gene77780:CDS
TGACATCACAACAGATGGTA+AGG 0.554203 8.1:+60093243 MS.gene77780:intron
CATTCAGAAATGGTGCTCGC+CGG 0.555555 8.1:+60092727 None:intergenic
ATTGATAATGGTGATGGCAG+TGG 0.556824 8.1:+60093382 MS.gene77780:CDS
TGACCCTCCAAATGGCTGGA+TGG 0.557517 8.1:+60093450 MS.gene77780:CDS
ATTGATCTTCTCATATTCAA+CGG 0.576809 8.1:-60093419 None:intergenic
GTTGATGCTCATCTTGTCAA+AGG 0.600604 8.1:+60093499 MS.gene77780:CDS
ACACTGATTCGGTTAAACAC+TGG 0.614381 8.1:+60092887 MS.gene77780:CDS
GAAGTAATTGATAATGGTGA+TGG 0.618480 8.1:+60093376 MS.gene77780:CDS
TAGTTTGAAGAACTTGTCGA+CGG 0.618944 8.1:-60092782 None:intergenic
GTAAACTTAGTACTGAACTT+GGG 0.625486 8.1:+60092749 MS.gene77780:CDS
AGTTTGAAGAACTTGTCGAC+GGG 0.627390 8.1:-60092781 None:intergenic
CATGGTGCCAAACTTCATGA+AGG 0.632424 8.1:+60092850 MS.gene77780:CDS
AGTCCATCCAGCCATTTGGA+GGG 0.644461 8.1:-60093453 None:intergenic
TGAATATGAGAAGATCAATG+AGG 0.699788 8.1:+60093423 MS.gene77780:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAAGGATCAATATATAA+AGG - chr8.1:60093023-60093042 None:intergenic 15.0%
!! ATAGAGTTATGAAAAATATA+TGG - chr8.1:60093187-60093206 None:intergenic 15.0%
!! ATTAAGGATCAATATATAAA+GGG - chr8.1:60093022-60093041 None:intergenic 15.0%
!! TATAAATAAACAAGATGATA+TGG - chr8.1:60092959-60092978 None:intergenic 15.0%
!!! ATACACTGTTTTAATTTAAT+TGG + chr8.1:60093207-60093226 MS.gene77780:intron 15.0%
!!! CATCTTGTTTATTTATATAT+GGG + chr8.1:60092962-60092981 MS.gene77780:intron 15.0%
!!! TCATCTTGTTTATTTATATA+TGG + chr8.1:60092961-60092980 MS.gene77780:intron 15.0%
!! ACTTTATCTTTATCATCTTT+AGG - chr8.1:60093091-60093110 None:intergenic 20.0%
!! ATCATTGAAGTAATTGATAA+TGG + chr8.1:60093370-60093389 MS.gene77780:CDS 20.0%
!! CATAATCTTCATATAAAGTA+TGG - chr8.1:60093067-60093086 None:intergenic 20.0%
!! TGCTCTTATTAATTGAATTA+AGG - chr8.1:60093038-60093057 None:intergenic 20.0%
!!! AATTCAATTAATAAGAGCAT+AGG + chr8.1:60093039-60093058 MS.gene77780:intron 20.0%
!!! ATTCAATTAATAAGAGCATA+GGG + chr8.1:60093040-60093059 MS.gene77780:intron 20.0%
! AAATAAACAAGATGATATGG+AGG - chr8.1:60092956-60092975 None:intergenic 25.0%
! AATAAACAAGATGATATGGA+GGG - chr8.1:60092955-60092974 None:intergenic 25.0%
! ATTGATCTTCTCATATTCAA+CGG - chr8.1:60093422-60093441 None:intergenic 25.0%
AAGTTCAGTACTAAGTTTAC+CGG - chr8.1:60092749-60092768 None:intergenic 30.0%
TGAATATGAGAAGATCAATG+AGG + chr8.1:60093423-60093442 MS.gene77780:CDS 30.0%
! GTAAACTTAGTACTGAACTT+GGG + chr8.1:60092749-60092768 MS.gene77780:CDS 30.0%
!! GAAGTAATTGATAATGGTGA+TGG + chr8.1:60093376-60093395 MS.gene77780:CDS 30.0%
AAACACTGGACTTATGTCAT+AGG + chr8.1:60092901-60092920 MS.gene77780:CDS 35.0%
AAACTCACTTTCAAGCTCTT+CGG + chr8.1:60093310-60093329 MS.gene77780:CDS 35.0%
AACATTAGCGAAAGAGTTCA+TGG + chr8.1:60092832-60092851 MS.gene77780:CDS 35.0%
AACTTCATGAAGGTGAAGAT+TGG + chr8.1:60092860-60092879 MS.gene77780:CDS 35.0%
AGACATTGATGAGCACTATA+AGG + chr8.1:60093336-60093355 MS.gene77780:CDS 35.0%
ATCTTCACCTTCATGAAGTT+TGG - chr8.1:60092860-60092879 None:intergenic 35.0%
TAGTTTGAAGAACTTGTCGA+CGG - chr8.1:60092785-60092804 None:intergenic 35.0%
! GGTAAACTTAGTACTGAACT+TGG + chr8.1:60092748-60092767 MS.gene77780:CDS 35.0%
ACCATCTGTTGTGATGTCAA+GGG - chr8.1:60093242-60093261 None:intergenic 40.0%
AGTTTGAAGAACTTGTCGAC+GGG - chr8.1:60092784-60092803 None:intergenic 40.0%
GTTGATGCTCATCTTGTCAA+AGG + chr8.1:60093499-60093518 MS.gene77780:CDS 40.0%
TACCATCTGTTGTGATGTCA+AGG - chr8.1:60093243-60093262 None:intergenic 40.0%
TGACATCACAACAGATGGTA+AGG + chr8.1:60093243-60093262 MS.gene77780:intron 40.0%
! AGATTGGCATCACACTGATT+CGG + chr8.1:60092876-60092895 MS.gene77780:CDS 40.0%
!! ACACTGATTCGGTTAAACAC+TGG + chr8.1:60092887-60092906 MS.gene77780:CDS 40.0%
!! ATTGATAATGGTGATGGCAG+TGG + chr8.1:60093382-60093401 MS.gene77780:CDS 40.0%
AACAAGTCCATCCAGCCATT+TGG - chr8.1:60093460-60093479 None:intergenic 45.0%
ATATTGACCCTCCAAATGGC+TGG + chr8.1:60093446-60093465 MS.gene77780:CDS 45.0%
GAGGATATTGACCCTCCAAA+TGG + chr8.1:60093442-60093461 MS.gene77780:CDS 45.0%
! AATGGCTGGATGGACTTGTT+AGG + chr8.1:60093460-60093479 MS.gene77780:CDS 45.0%
! CATGGTGCCAAACTTCATGA+AGG + chr8.1:60092850-60092869 MS.gene77780:CDS 45.0%
AAGTCCATCCAGCCATTTGG+AGG - chr8.1:60093457-60093476 None:intergenic 50.0%
AGTCCATCCAGCCATTTGGA+GGG - chr8.1:60093456-60093475 None:intergenic 50.0%
ATGGCAGTGGAGCTGCAAAA+TGG + chr8.1:60093395-60093414 MS.gene77780:CDS 50.0%
CTCACTTTCAAGCTCTTCGG+TGG + chr8.1:60093313-60093332 MS.gene77780:CDS 50.0%
GCCCTTGACATCACAACAGA+TGG + chr8.1:60093238-60093257 MS.gene77780:intron 50.0%
GTAATGTTAACCAGTGCCCC+CGG - chr8.1:60093000-60093019 None:intergenic 50.0%
TAATGTTAACCAGTGCCCCC+GGG - chr8.1:60092999-60093018 None:intergenic 50.0%
! ATATGGGTTAACCAGTGCCC+CGG + chr8.1:60092978-60092997 MS.gene77780:intron 50.0%
AATGTTAACCAGTGCCCCCG+GGG - chr8.1:60092998-60093017 None:intergenic 55.0%
TGACCCTCCAAATGGCTGGA+TGG + chr8.1:60093450-60093469 MS.gene77780:CDS 55.0%
! TATGGGTTAACCAGTGCCCC+GGG + chr8.1:60092979-60092998 MS.gene77780:intron 55.0%
! ATGGGTTAACCAGTGCCCCG+GGG + chr8.1:60092980-60092999 MS.gene77780:intron 60.0%
TGGGTTAACCAGTGCCCCGG+GGG + chr8.1:60092981-60093000 MS.gene77780:intron 65.0%
AACCAGTGCCCCCGGGGCAC+TGG - chr8.1:60092992-60093011 None:intergenic 75.0%
! AACCAGTGCCCCGGGGGCAC+TGG + chr8.1:60092987-60093006 MS.gene77780:intron 75.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 60092736 60093540 60092736 ID=MS.gene77780
chr8.1 mRNA 60092736 60093540 60092736 ID=MS.gene77780.t1;Parent=MS.gene77780
chr8.1 exon 60092736 60092922 60092736 ID=MS.gene77780.t1.exon1;Parent=MS.gene77780.t1
chr8.1 CDS 60092736 60092922 60092736 ID=cds.MS.gene77780.t1;Parent=MS.gene77780.t1
chr8.1 exon 60093257 60093540 60093257 ID=MS.gene77780.t1.exon2;Parent=MS.gene77780.t1
chr8.1 CDS 60093257 60093540 60093257 ID=cds.MS.gene77780.t1;Parent=MS.gene77780.t1
Gene Sequence

>MS.gene77780

ATGGTGCTCGCCGGTAAACTTAGTACTGAACTTGGGATCAAAACACCCGTCGACAAGTTCTTCAAACTATTTGCATCAGAACTTCACGAAGTGCAAAACATTAGCGAAAGAGTTCATGGTGCCAAACTTCATGAAGGTGAAGATTGGCATCACACTGATTCGGTTAAACACTGGACTTATGTCATAGGTAATTATGTTTCTAATTCAACTAACATGCCCTCCATATCATCTTGTTTATTTATATATGGGTTAACCAGTGCCCCGGGGGCACTGGTTAACATTACCCTTTATATATTGATCCTTAATTCAATTAATAAGAGCATAGGGACCATACTTTATATGAAGATTATGTCCTAAAGATGATAAAGATAAAGTTTTTCAGCTGTGATATTTAGACAAAAAAAAAAAGACATGTTTTAATTGATTAGTTATTTTAAAAAAAATGTGACCATATATTTTTCATAACTCTATATACACTGTTTTAATTTAATTGGTATTAATTGCCCTTGACATCACAACAGATGGTAAGGTACACACATGTCATGAGAGTATCGAAGTTGATGAACAGAACAAAAAACTCACTTTCAAGCTCTTCGGTGGAGACATTGATGAGCACTATAAGGTCTTTAATGTGATCATTGAAGTAATTGATAATGGTGATGGCAGTGGAGCTGCAAAATGGACCGTTGAATATGAGAAGATCAATGAGGATATTGACCCTCCAAATGGCTGGATGGACTTGTTAGGCAAAGTCACTCGAGAAGTTGATGCTCATCTTGTCAAAGGCGCAAACATAGCTCTATAA
Protein sequence

>MS.gene77780.t1

MVLAGKLSTELGIKTPVDKFFKLFASELHEVQNISERVHGAKLHEGEDWHHTDSVKHWTYVIDGKVHTCHESIEVDEQNKKLTFKLFGGDIDEHYKVFNVIIEVIDNGDGSGAAKWTVEYEKINEDIDPPNGWMDLLGKVTREVDAHLVKGANIAL