AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005949.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005949.01.T01 MTR_1g110370 91.758 182 15 0 1 182 58 239 1.55e-117 333
MsG0180005949.01.T01 MTR_6g008660 61.905 189 53 6 1 181 66 243 2.78e-63 196
MsG0180005949.01.T01 MTR_5g083820 67.204 186 43 6 1 178 66 241 6.19e-60 188
MsG0180005949.01.T01 MTR_1g110360 61.905 189 48 7 1 181 68 240 9.33e-60 186
MsG0180005949.01.T01 MTR_6g083920 35.533 197 77 7 19 177 46 230 2.45e-26 100
MsG0180005949.01.T01 MTR_5g056040 34.503 171 90 5 23 181 90 250 1.03e-22 92.0
MsG0180005949.01.T01 MTR_5g056110 37.888 161 73 6 20 173 73 213 1.39e-22 90.9
MsG0180005949.01.T01 MTR_4g100570 40.268 149 61 4 45 173 98 238 5.07e-22 89.7
MsG0180005949.01.T01 MTR_8g005205 36.290 124 57 3 62 179 445 552 5.27e-13 66.6
MsG0180005949.01.T01 MTR_8g070650 45.614 57 31 0 115 171 171 227 1.73e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005949.01.T01 AT1G25370 38.418 177 85 4 16 173 92 263 2.69e-27 103
MsG0180005949.01.T01 AT1G25370 38.418 177 85 4 16 173 92 263 2.69e-27 103
MsG0180005949.01.T01 AT1G68340 36.842 190 90 7 3 173 61 239 8.24e-26 99.8
MsG0180005949.01.T01 AT1G68340 36.842 190 90 7 3 173 61 239 9.66e-26 99.4
MsG0180005949.01.T01 AT3G60410 41.304 138 66 4 53 175 187 324 1.58e-21 89.7
MsG0180005949.01.T01 AT3G60410 41.304 138 66 4 53 175 187 324 1.58e-21 89.7
MsG0180005949.01.T01 AT3G60410 41.304 138 66 4 53 175 187 324 1.58e-21 89.7
MsG0180005949.01.T01 AT1G68340 36.257 171 79 7 3 154 61 220 1.86e-19 82.8
MsG0180005949.01.T01 AT3G18295 44.025 159 69 6 28 175 65 214 4.53e-18 78.6
MsG0180005949.01.T01 AT4G17440 32.283 127 65 3 66 171 83 209 3.60e-13 65.5
MsG0180005949.01.T01 AT4G17440 32.283 127 65 3 66 171 83 209 3.60e-13 65.5
MsG0180005949.01.T01 AT4G17440 32.283 127 65 3 66 171 83 209 4.58e-13 65.5
MsG0180005949.01.T01 AT1G48770 42.478 113 56 3 59 169 71 176 1.45e-12 63.2
MsG0180005949.01.T01 AT1G48770 42.478 113 56 3 59 169 71 176 1.45e-12 63.2
MsG0180005949.01.T01 AT1G48770 42.478 113 56 3 59 169 71 176 1.45e-12 63.2
MsG0180005949.01.T01 AT4G17440 31.298 131 65 4 66 171 83 213 5.38e-11 59.7
MsG0180005949.01.T01 AT4G20300 43.860 57 32 0 115 171 270 326 8.02e-11 60.1
MsG0180005949.01.T01 AT4G20300 43.860 57 32 0 115 171 270 326 8.20e-11 60.1

Find 51 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTGCTTCTGAACATTTCT+AGG 0.189823 1:-97937758 None:intergenic
CTCTCGGTTTGTCGCCGTTA+AGG 0.320855 1:+97937591 MsG0180005949.01.T01:CDS
AACATCATCAGGAACCTTAT+AGG 0.333378 1:-97937910 None:intergenic
GATTAATGCTGATTCCTATA+AGG 0.358878 1:+97937896 MsG0180005949.01.T01:CDS
AGGGTCGTCGGCGGCTGCGG+CGG 0.358935 1:+97937487 MsG0180005949.01.T01:CDS
AGAAGGGTCGTCGGCGGCTG+CGG 0.377657 1:+97937484 MsG0180005949.01.T01:CDS
AAAGAGAATGGTGGTGGAGA+AGG 0.384258 1:+97937467 MsG0180005949.01.T01:CDS
GTAAACTTCACCTTCTTCTC+AGG 0.414913 1:-97937653 None:intergenic
CCGCCGTTACCATTCCTTAA+CGG 0.425360 1:-97937605 None:intergenic
GGGTCGTCGGCGGCTGCGGC+GGG 0.434545 1:+97937488 MsG0180005949.01.T01:CDS
AAGAGAATGGTGGTGGAGAA+GGG 0.452542 1:+97937468 MsG0180005949.01.T01:CDS
TTGAAGAAGGAGAAAGAGAA+TGG 0.453989 1:+97937455 MsG0180005949.01.T01:CDS
CACACCTTGCCGTTATTCTC+AGG 0.454028 1:-97937933 None:intergenic
TGGTGTCACCGCCGGAGAAT+AGG 0.459611 1:+97937327 MsG0180005949.01.T01:CDS
TACTTTGTCATTGATGAAGA+AGG 0.461580 1:+97937673 MsG0180005949.01.T01:CDS
AAGGAGAAAGAGAATGGTGG+TGG 0.478905 1:+97937461 MsG0180005949.01.T01:CDS
GAAGATTTCATCACGATGAC+TGG 0.482101 1:+97937704 MsG0180005949.01.T01:CDS
TTATTCTCAGGAACATCATC+AGG 0.482796 1:-97937921 None:intergenic
AGAATCGATGGTGGTGATGA+TGG 0.483584 1:+97937362 MsG0180005949.01.T01:CDS
TAGAAATGTTCAGAAGCAAA+TGG 0.488562 1:+97937760 MsG0180005949.01.T01:CDS
GGCGGCTGCGGCGGGAGAGA+AGG 0.491775 1:+97937496 MsG0180005949.01.T01:CDS
ATCTCAGACAACCACATACC+AGG 0.508509 1:-97937876 None:intergenic
AAGGTTGATGTTTGATCTGA+AGG 0.512312 1:+97937403 MsG0180005949.01.T01:CDS
AACGGCGGTGGTAAGTTAAG+AGG 0.518465 1:+97937620 MsG0180005949.01.T01:CDS
AGGTGTGGAATTTGAGAACA+AGG 0.527843 1:+97937516 MsG0180005949.01.T01:CDS
GGTTTGTCGCCGTTAAGGAA+TGG 0.536117 1:+97937596 MsG0180005949.01.T01:CDS
GATGATGTTCCTGAGAATAA+CGG 0.555714 1:+97937924 MsG0180005949.01.T01:CDS
TTCGTCGATGGTGTCACCGC+CGG 0.556041 1:+97937319 None:intergenic
CTGGTCAAAAGCCTCATAGA+AGG 0.556564 1:+97937723 MsG0180005949.01.T01:CDS
TGGTGGTTGTCCTGAGAAGA+AGG 0.564497 1:+97937643 MsG0180005949.01.T01:CDS
AGTCTGTTCATCCTATTCTC+CGG 0.565451 1:-97937338 None:intergenic
TGGTGGTGGAGAAGGGTCGT+CGG 0.571110 1:+97937475 MsG0180005949.01.T01:CDS
TTAAGGAATGGTAACGGCGG+TGG 0.572770 1:+97937608 MsG0180005949.01.T01:CDS
CTGCGGCGGGAGAGAAGGTG+TGG 0.573569 1:+97937501 MsG0180005949.01.T01:CDS
GGTGGTAAGTTAAGAGGTGG+TGG 0.580505 1:+97937626 MsG0180005949.01.T01:CDS
GGATCGATGCTATGCGTGAA+AGG 0.580862 1:+97937384 MsG0180005949.01.T01:CDS
TTTGATCTGAAGGTTGAAGC+TGG 0.588078 1:+97937413 MsG0180005949.01.T01:CDS
ATGAACAGACTGAGAATCGA+TGG 0.604081 1:+97937350 MsG0180005949.01.T01:CDS
TGGAATTTGAGAACAAGGAG+AGG 0.605032 1:+97937521 MsG0180005949.01.T01:CDS
TGGTGGAGAAGGGTCGTCGG+CGG 0.613413 1:+97937478 MsG0180005949.01.T01:CDS
TCTCAGACAACCACATACCA+GGG 0.619276 1:-97937875 None:intergenic
GAATCGATGGTGGTGATGAT+GGG 0.621168 1:+97937363 MsG0180005949.01.T01:CDS
TCGCCGTTAAGGAATGGTAA+CGG 0.633228 1:+97937602 MsG0180005949.01.T01:CDS
AAGAAGGAGAAAGAGAATGG+TGG 0.634822 1:+97937458 MsG0180005949.01.T01:CDS
GGCGGTGGTAAGTTAAGAGG+TGG 0.646062 1:+97937623 MsG0180005949.01.T01:CDS
CTGTTCATCCTATTCTCCGG+CGG 0.656983 1:-97937335 None:intergenic
CTTAACGGCGACAAACCGAG+AGG 0.678447 1:-97937590 None:intergenic
TGTTCCTGAGAATAACGGCA+AGG 0.698747 1:+97937929 MsG0180005949.01.T01:CDS
ATCTGAAGGTTGAAGCTGGT+AGG 0.709950 1:+97937417 MsG0180005949.01.T01:CDS
AACAGACTGAGAATCGATGG+TGG 0.737234 1:+97937353 MsG0180005949.01.T01:CDS
CCGTTAAGGAATGGTAACGG+CGG 0.752215 1:+97937605 MsG0180005949.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCAAAATGAAATTAAAAATT+AGG - Chr1:97937813-97937832 None:intergenic 10.0%
ATTGATGAGAAAAAACCTCT+CGG + Chr1:97937575-97937594 MsG0180005949.01.T01:CDS 30.0%
ATTTGCTTCTGAACATTTCT+AGG - Chr1:97937761-97937780 None:intergenic 30.0%
GCTAAATTAAGTGTTCTGAT+TGG + Chr1:97938005-97938024 MsG0180005949.01.T01:intron 30.0%
TACTTTGTCATTGATGAAGA+AGG + Chr1:97937673-97937692 MsG0180005949.01.T01:CDS 30.0%
TAGAAATGTTCAGAAGCAAA+TGG + Chr1:97937760-97937779 MsG0180005949.01.T01:CDS 30.0%
!! AACATTTCTAGGTCTCTTTT+TGG - Chr1:97937750-97937769 None:intergenic 30.0%
!! ACATTTCTAGGTCTCTTTTT+GGG - Chr1:97937749-97937768 None:intergenic 30.0%
!! GATTAATGCTGATTCCTATA+AGG + Chr1:97937896-97937915 MsG0180005949.01.T01:CDS 30.0%
AACATCATCAGGAACCTTAT+AGG - Chr1:97937913-97937932 None:intergenic 35.0%
GATGATGTTCCTGAGAATAA+CGG + Chr1:97937924-97937943 MsG0180005949.01.T01:CDS 35.0%
TTATTCTCAGGAACATCATC+AGG - Chr1:97937924-97937943 None:intergenic 35.0%
TTGAAGAAGGAGAAAGAGAA+TGG + Chr1:97937455-97937474 MsG0180005949.01.T01:CDS 35.0%
!! AAGGTTGATGTTTGATCTGA+AGG + Chr1:97937403-97937422 MsG0180005949.01.T01:CDS 35.0%
!! GAAAGATGCGATTTTGAAGA+AGG + Chr1:97937442-97937461 MsG0180005949.01.T01:CDS 35.0%
!! TGTTCTGATTGGTTTGAACT+TGG + Chr1:97938016-97938035 MsG0180005949.01.T01:intron 35.0%
!! TTTGAACTTGGTTTTTGCAG+AGG + Chr1:97938028-97938047 MsG0180005949.01.T01:intron 35.0%
!! TTTTCTGGAGAGAATGGAAA+GGG + Chr1:97937545-97937564 MsG0180005949.01.T01:CDS 35.0%
!! TTTTTCTGGAGAGAATGGAA+AGG + Chr1:97937544-97937563 MsG0180005949.01.T01:CDS 35.0%
AAGAAGGAGAAAGAGAATGG+TGG + Chr1:97937458-97937477 MsG0180005949.01.T01:CDS 40.0%
AGGTGTGGAATTTGAGAACA+AGG + Chr1:97937516-97937535 MsG0180005949.01.T01:CDS 40.0%
AGTCTGTTCATCCTATTCTC+CGG - Chr1:97937341-97937360 None:intergenic 40.0%
ATGAACAGACTGAGAATCGA+TGG + Chr1:97937350-97937369 MsG0180005949.01.T01:CDS 40.0%
GAAGATTTCATCACGATGAC+TGG + Chr1:97937704-97937723 MsG0180005949.01.T01:CDS 40.0%
GTAAACTTCACCTTCTTCTC+AGG - Chr1:97937656-97937675 None:intergenic 40.0%
TGGAATTTGAGAACAAGGAG+AGG + Chr1:97937521-97937540 MsG0180005949.01.T01:CDS 40.0%
TTTGATCTGAAGGTTGAAGC+TGG + Chr1:97937413-97937432 MsG0180005949.01.T01:CDS 40.0%
! AGAACAAGGAGAGGTTTTTC+TGG + Chr1:97937530-97937549 MsG0180005949.01.T01:CDS 40.0%
!! AGAGGTTTTTCTGGAGAGAA+TGG + Chr1:97937539-97937558 MsG0180005949.01.T01:CDS 40.0%
AACAGACTGAGAATCGATGG+TGG + Chr1:97937353-97937372 MsG0180005949.01.T01:CDS 45.0%
AAGGAGAAAGAGAATGGTGG+TGG + Chr1:97937461-97937480 MsG0180005949.01.T01:CDS 45.0%
ATCTCAGACAACCACATACC+AGG - Chr1:97937879-97937898 None:intergenic 45.0%
ATCTGAAGGTTGAAGCTGGT+AGG + Chr1:97937417-97937436 MsG0180005949.01.T01:CDS 45.0%
CTGGTCAAAAGCCTCATAGA+AGG + Chr1:97937723-97937742 MsG0180005949.01.T01:CDS 45.0%
TCGCCGTTAAGGAATGGTAA+CGG + Chr1:97937602-97937621 MsG0180005949.01.T01:CDS 45.0%
TCTCAGACAACCACATACCA+GGG - Chr1:97937878-97937897 None:intergenic 45.0%
TGTTCCTGAGAATAACGGCA+AGG + Chr1:97937929-97937948 MsG0180005949.01.T01:CDS 45.0%
! AGAATCGATGGTGGTGATGA+TGG + Chr1:97937362-97937381 MsG0180005949.01.T01:CDS 45.0%
! AGACACTTTTCCCTGGTATG+TGG + Chr1:97937865-97937884 MsG0180005949.01.T01:intron 45.0%
! GAATCGATGGTGGTGATGAT+GGG + Chr1:97937363-97937382 MsG0180005949.01.T01:CDS 45.0%
! TTTGTGCAGACACTTTTCCC+TGG + Chr1:97937858-97937877 MsG0180005949.01.T01:intron 45.0%
!! AAAGAGAATGGTGGTGGAGA+AGG + Chr1:97937467-97937486 MsG0180005949.01.T01:CDS 45.0%
!! AAGAGAATGGTGGTGGAGAA+GGG + Chr1:97937468-97937487 MsG0180005949.01.T01:CDS 45.0%
!! CTCTTTTTGGGCCTTCTATG+AGG - Chr1:97937737-97937756 None:intergenic 45.0%
AACGGCGGTGGTAAGTTAAG+AGG + Chr1:97937620-97937639 MsG0180005949.01.T01:CDS 50.0%
CACACCTTGCCGTTATTCTC+AGG - Chr1:97937936-97937955 None:intergenic 50.0%
CCGCCGTTACCATTCCTTAA+CGG - Chr1:97937608-97937627 None:intergenic 50.0%
CTGTTCATCCTATTCTCCGG+CGG - Chr1:97937338-97937357 None:intergenic 50.0%
GGATCGATGCTATGCGTGAA+AGG + Chr1:97937384-97937403 MsG0180005949.01.T01:CDS 50.0%
GGTGGTAAGTTAAGAGGTGG+TGG + Chr1:97937626-97937645 MsG0180005949.01.T01:CDS 50.0%
GGTTTGTCGCCGTTAAGGAA+TGG + Chr1:97937596-97937615 MsG0180005949.01.T01:CDS 50.0%
TGGTGGTTGTCCTGAGAAGA+AGG + Chr1:97937643-97937662 MsG0180005949.01.T01:CDS 50.0%
!! CCGTTAAGGAATGGTAACGG+CGG + Chr1:97937605-97937624 MsG0180005949.01.T01:CDS 50.0%
!! TTAAGGAATGGTAACGGCGG+TGG + Chr1:97937608-97937627 MsG0180005949.01.T01:CDS 50.0%
CTTAACGGCGACAAACCGAG+AGG - Chr1:97937593-97937612 None:intergenic 55.0%
GGCGGTGGTAAGTTAAGAGG+TGG + Chr1:97937623-97937642 MsG0180005949.01.T01:CDS 55.0%
! CTCTCGGTTTGTCGCCGTTA+AGG + Chr1:97937591-97937610 MsG0180005949.01.T01:CDS 55.0%
!! TGGTGGTGGAGAAGGGTCGT+CGG + Chr1:97937475-97937494 MsG0180005949.01.T01:CDS 60.0%
!! TGGTGTCACCGCCGGAGAAT+AGG + Chr1:97937327-97937346 MsG0180005949.01.T01:CDS 60.0%
TGGTGGAGAAGGGTCGTCGG+CGG + Chr1:97937478-97937497 MsG0180005949.01.T01:CDS 65.0%
AGAAGGGTCGTCGGCGGCTG+CGG + Chr1:97937484-97937503 MsG0180005949.01.T01:CDS 70.0%
CTGCGGCGGGAGAGAAGGTG+TGG + Chr1:97937501-97937520 MsG0180005949.01.T01:CDS 70.0%
! AGGGTCGTCGGCGGCTGCGG+CGG + Chr1:97937487-97937506 MsG0180005949.01.T01:CDS 80.0%
! GGCGGCTGCGGCGGGAGAGA+AGG + Chr1:97937496-97937515 MsG0180005949.01.T01:CDS 80.0%
! GGGTCGTCGGCGGCTGCGGC+GGG + Chr1:97937488-97937507 MsG0180005949.01.T01:CDS 85.0%
Chromosome Type Strat End Strand Name
Chr1 gene 97937326 97938053 97937326 ID=MsG0180005949.01;Name=MsG0180005949.01
Chr1 mRNA 97937326 97938053 97937326 ID=MsG0180005949.01.T01;Parent=MsG0180005949.01;Name=MsG0180005949.01.T01;_AED=0.30;_eAED=0.31;_QI=0|0|0|1|0.5|0.66|3|0|182
Chr1 exon 97937326 97937784 97937326 ID=MsG0180005949.01.T01:exon:50761;Parent=MsG0180005949.01.T01
Chr1 exon 97937867 97937950 97937867 ID=MsG0180005949.01.T01:exon:50762;Parent=MsG0180005949.01.T01
Chr1 exon 97938048 97938053 97938048 ID=MsG0180005949.01.T01:exon:50763;Parent=MsG0180005949.01.T01
Chr1 CDS 97937326 97937784 97937326 ID=MsG0180005949.01.T01:cds;Parent=MsG0180005949.01.T01
Chr1 CDS 97937867 97937950 97937867 ID=MsG0180005949.01.T01:cds;Parent=MsG0180005949.01.T01
Chr1 CDS 97938048 97938053 97938048 ID=MsG0180005949.01.T01:cds;Parent=MsG0180005949.01.T01
Gene Sequence

>MsG0180005949.01.T01

ATGGTGTCACCGCCGGAGAATAGGATGAACAGACTGAGAATCGATGGTGGTGATGATGGGATCGATGCTATGCGTGAAAGGTTGATGTTTGATCTGAAGGTTGAAGCTGGTAGGATGAAAGATGCGATTTTGAAGAAGGAGAAAGAGAATGGTGGTGGAGAAGGGTCGTCGGCGGCTGCGGCGGGAGAGAAGGTGTGGAATTTGAGAACAAGGAGAGGTTTTTCTGGAGAGAATGGAAAGGGATTGAAGATTGATGAGAAAAAACCTCTCGGTTTGTCGCCGTTAAGGAATGGTAACGGCGGTGGTAAGTTAAGAGGTGGTGGTTGTCCTGAGAAGAAGGTGAAGTTTACTTTGTCATTGATGAAGAAGGAGATTGAAGAAGATTTCATCACGATGACTGGTCAAAAGCCTCATAGAAGGCCCAAAAAGAGACCTAGAAATGTTCAGAAGCAAATGGATACACTTTTCCCTGGTATGTGGTTGTCTGAGATTAATGCTGATTCCTATAAGGTTCCTGATGATGTTCCTGAGAATAACGGCAAGAGGTAG

Protein sequence

>MsG0180005949.01.T01

MVSPPENRMNRLRIDGGDDGIDAMRERLMFDLKVEAGRMKDAILKKEKENGGGEGSSAAAAGEKVWNLRTRRGFSGENGKGLKIDEKKPLGLSPLRNGNGGGKLRGGGCPEKKVKFTLSLMKKEIEEDFITMTGQKPHRRPKKRPRNVQKQMDTLFPGMWLSEINADSYKVPDDVPENNGKR*