AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018463.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018463.01.T01 MTR_4g011960 96.618 207 7 0 1 207 49 255 1.79e-148 413
MsG0480018463.01.T01 MTR_2g090045 32.039 206 131 3 1 203 61 260 1.86e-35 126
MsG0480018463.01.T01 MTR_5g024800 36.364 165 98 2 42 203 63 223 3.74e-35 124
MsG0480018463.01.T01 MTR_2g090035 30.065 153 93 4 51 203 59 197 1.03e-19 83.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018463.01.T01 AT1G04940 70.202 198 58 1 10 207 78 274 8.78e-104 300
MsG0480018463.01.T01 AT1G04945 67.039 179 58 1 10 188 78 255 3.02e-84 262
MsG0480018463.01.T01 AT4G03320 36.181 199 118 3 10 203 77 271 2.13e-38 134

Find 58 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAAAATTGGAATGCATTTC+TGG 0.102228 4:-5236089 MsG0480018463.01.T01:CDS
CCTATGGTTCGTATGGTATT+TGG 0.157275 4:+5235962 None:intergenic
GGGTTCTATTGGGGTAAAAT+TGG 0.263879 4:-5236102 MsG0480018463.01.T01:CDS
GGATGCCACATGGGTTCTAT+TGG 0.270757 4:-5236113 MsG0480018463.01.T01:CDS
GAGATAGCCTTGCAAGTTAC+AGG 0.289946 4:-5236150 MsG0480018463.01.T01:CDS
GATGCCACATGGGTTCTATT+GGG 0.302344 4:-5236112 MsG0480018463.01.T01:CDS
CTTCGCTGCGCAAGTCTTGT+AGG 0.317793 4:-5236497 MsG0480018463.01.T01:CDS
AACTCGAATGCCTCGATAAA+CGG 0.330825 4:+5236318 None:intergenic
TGCGTTAGGTGTGCCCTTAC+TGG 0.332762 4:-5236027 MsG0480018463.01.T01:CDS
GGCACACCTAACGCATTCTA+TGG 0.349633 4:+5236035 None:intergenic
CTATGGAAGTAAAGAGATAA+AGG 0.387946 4:+5236052 None:intergenic
ACTCGAATGCCTCGATAAAC+GGG 0.406627 4:+5236319 None:intergenic
TTATCTGTTGCCCATCCATC+AGG 0.432477 4:-5236376 MsG0480018463.01.T01:CDS
TTACTTCCATAGAATGCGTT+AGG 0.433427 4:-5236041 MsG0480018463.01.T01:CDS
GATGGATGGGCAACAGATAA+GGG 0.457522 4:+5236379 None:intergenic
AATGTTCTCCACCACCATCT+TGG 0.458872 4:+5236411 None:intergenic
TGATGGATGGGCAACAGATA+AGG 0.461145 4:+5236378 None:intergenic
CAATTGGCAGTCTACCTAGA+TGG 0.478255 4:-5236272 MsG0480018463.01.T01:CDS
TATGCTGCATCACAGACAAA+AGG 0.482262 4:+5235988 None:intergenic
TTCGCTGCGCAAGTCTTGTA+GGG 0.489910 4:-5236496 MsG0480018463.01.T01:CDS
ATGAAGGAAGGCTCATCTGC+TGG 0.500226 4:-5236462 MsG0480018463.01.T01:CDS
CCAAATACCATACGAACCAT+AGG 0.510277 4:-5235962 None:intergenic
TAGGGCCCCTCGAGCAATGA+AGG 0.513500 4:-5236478 MsG0480018463.01.T01:CDS
GAGCCTTCCTTCATTGCTCG+AGG 0.525595 4:+5236471 None:intergenic
TATCCGCATACATACCAGTA+AGG 0.527566 4:+5236013 None:intergenic
CTTAAACCCTATGGTTCGTA+TGG 0.530367 4:+5235955 None:intergenic
AGCCTTCCTTCATTGCTCGA+GGG 0.536520 4:+5236472 None:intergenic
TACATCCACACCTGATGGAT+GGG 0.538571 4:+5236366 None:intergenic
ATGCTGCATCACAGACAAAA+GGG 0.543856 4:+5235989 None:intergenic
GTGAGCCGTTGGATGCCACA+TGG 0.546183 4:-5236123 MsG0480018463.01.T01:CDS
TTCAGATTTCATGTTGCCGT+CGG 0.547601 4:-5236183 MsG0480018463.01.T01:CDS
CTACAAGACTTGCGCAGCGA+AGG 0.549633 4:+5236498 None:intergenic
TAGCATACATCCACACCTGA+TGG 0.551833 4:+5236361 None:intergenic
TTACAGGGCTTGTGAGCCGT+TGG 0.554372 4:-5236134 MsG0480018463.01.T01:CDS
ATGCCACATGGGTTCTATTG+GGG 0.558465 4:-5236111 MsG0480018463.01.T01:CDS
CAAATACCATACGAACCATA+GGG 0.572247 4:-5235961 None:intergenic
AGATAGCCTTGCAAGTTACA+GGG 0.572582 4:-5236149 MsG0480018463.01.T01:CDS
ATACATCCACACCTGATGGA+TGG 0.577680 4:+5236365 None:intergenic
CCAGAAAACCAAGATGGTGG+TGG 0.582114 4:-5236419 MsG0480018463.01.T01:CDS
TATGCTATGAGAGACCATCT+AGG 0.591244 4:+5236258 None:intergenic
CACAAGCCCTGTAACTTGCA+AGG 0.594415 4:+5236143 None:intergenic
TTGCGCAGCGAAGGTAACAC+AGG 0.597116 4:+5236507 None:intergenic
ACATGAAATCTGAAGAAATG+AGG 0.597342 4:+5236192 None:intergenic
TTGCGTATCTTACCATTGTG+AGG 0.599587 4:-5236227 MsG0480018463.01.T01:CDS
GCCTTCCTTCATTGCTCGAG+GGG 0.601540 4:+5236473 None:intergenic
GCCCCTCGAGCAATGAAGGA+AGG 0.617175 4:-5236474 MsG0480018463.01.T01:CDS
CAATCTTCACCCGTTTATCG+AGG 0.617293 4:-5236328 MsG0480018463.01.T01:CDS
TGAGCCGTTGGATGCCACAT+GGG 0.621237 4:-5236122 MsG0480018463.01.T01:CDS
TGTTGCCCATCCATCAGGTG+TGG 0.625370 4:-5236371 MsG0480018463.01.T01:CDS
AGAACCCATGTGGCATCCAA+CGG 0.627299 4:+5236118 None:intergenic
CGATGACCAGAAAACCAAGA+TGG 0.627736 4:-5236425 MsG0480018463.01.T01:CDS
CCATTGTGAGGAGAAAAGAA+TGG 0.645047 4:-5236215 MsG0480018463.01.T01:CDS
TGCCCTTACTGGTATGTATG+CGG 0.645316 4:-5236016 MsG0480018463.01.T01:CDS
ATCCGCATACATACCAGTAA+GGG 0.651307 4:+5236014 None:intergenic
TGACCAGAAAACCAAGATGG+TGG 0.673799 4:-5236422 MsG0480018463.01.T01:CDS
TGCGCAGCGAAGGTAACACA+GGG 0.711989 4:+5236508 None:intergenic
TTACCCCAATAGAACCCATG+TGG 0.719204 4:+5236108 None:intergenic
TATCTCGATTAACATTCCGA+CGG 0.723472 4:+5236167 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACATGAAATCTGAAGAAATG+AGG + Chr4:5236341-5236360 None:intergenic 30.0%
CTATGGAAGTAAAGAGATAA+AGG + Chr4:5236481-5236500 None:intergenic 30.0%
GTAAAATTGGAATGCATTTC+TGG - Chr4:5236441-5236460 MsG0480018463.01.T01:CDS 30.0%
TGCCAATTGACCTAAAAAAA+GGG + Chr4:5236247-5236266 None:intergenic 30.0%
!!! TACCCTTTTTTTAGGTCAAT+TGG - Chr4:5236242-5236261 MsG0480018463.01.T01:CDS 30.0%
!!! TCTTAACGTACCCTTTTTTT+AGG - Chr4:5236234-5236253 MsG0480018463.01.T01:CDS 30.0%
CTGCCAATTGACCTAAAAAA+AGG + Chr4:5236248-5236267 None:intergenic 35.0%
TATCTCGATTAACATTCCGA+CGG + Chr4:5236366-5236385 None:intergenic 35.0%
TTACTTCCATAGAATGCGTT+AGG - Chr4:5236489-5236508 MsG0480018463.01.T01:CDS 35.0%
!! ATCAAGCCTACTTTTAAGTG+GGG - Chr4:5235974-5235993 MsG0480018463.01.T01:CDS 35.0%
!! CATCAAGCCTACTTTTAAGT+GGG - Chr4:5235973-5235992 MsG0480018463.01.T01:CDS 35.0%
AACTCGAATGCCTCGATAAA+CGG + Chr4:5236215-5236234 None:intergenic 40.0%
ATCCGCATACATACCAGTAA+GGG + Chr4:5236519-5236538 None:intergenic 40.0%
ATGCTGCATCACAGACAAAA+GGG + Chr4:5236544-5236563 None:intergenic 40.0%
CCATTGTGAGGAGAAAAGAA+TGG - Chr4:5236315-5236334 MsG0480018463.01.T01:CDS 40.0%
GGGTTCTATTGGGGTAAAAT+TGG - Chr4:5236428-5236447 MsG0480018463.01.T01:CDS 40.0%
TATCCGCATACATACCAGTA+AGG + Chr4:5236520-5236539 None:intergenic 40.0%
TATGCTATGAGAGACCATCT+AGG + Chr4:5236275-5236294 None:intergenic 40.0%
TATGCTGCATCACAGACAAA+AGG + Chr4:5236545-5236564 None:intergenic 40.0%
TTCAGATTTCATGTTGCCGT+CGG - Chr4:5236347-5236366 MsG0480018463.01.T01:CDS 40.0%
TTGCGTATCTTACCATTGTG+AGG - Chr4:5236303-5236322 MsG0480018463.01.T01:CDS 40.0%
TTTGACCCCCACTTAAAAGT+AGG + Chr4:5235983-5236002 None:intergenic 40.0%
! AGATAGCCTTGCAAGTTACA+GGG - Chr4:5236381-5236400 MsG0480018463.01.T01:CDS 40.0%
! CCATTCTTTTCTCCTCACAA+TGG + Chr4:5236318-5236337 None:intergenic 40.0%
!! CATCTTGGTTTTCTGGTCAT+CGG + Chr4:5236107-5236126 None:intergenic 40.0%
!! GCATCAAGCCTACTTTTAAG+TGG - Chr4:5235972-5235991 MsG0480018463.01.T01:CDS 40.0%
!! TCAAGCCTACTTTTAAGTGG+GGG - Chr4:5235975-5235994 MsG0480018463.01.T01:CDS 40.0%
AATGTTCTCCACCACCATCT+TGG + Chr4:5236122-5236141 None:intergenic 45.0%
ACTCGAATGCCTCGATAAAC+GGG + Chr4:5236214-5236233 None:intergenic 45.0%
ATACATCCACACCTGATGGA+TGG + Chr4:5236168-5236187 None:intergenic 45.0%
ATGCCACATGGGTTCTATTG+GGG - Chr4:5236419-5236438 MsG0480018463.01.T01:CDS 45.0%
CAATCTTCACCCGTTTATCG+AGG - Chr4:5236202-5236221 MsG0480018463.01.T01:CDS 45.0%
CAATTGGCAGTCTACCTAGA+TGG - Chr4:5236258-5236277 MsG0480018463.01.T01:CDS 45.0%
CGATGACCAGAAAACCAAGA+TGG - Chr4:5236105-5236124 MsG0480018463.01.T01:CDS 45.0%
GATGCCACATGGGTTCTATT+GGG - Chr4:5236418-5236437 MsG0480018463.01.T01:CDS 45.0%
GATGGATGGGCAACAGATAA+GGG + Chr4:5236154-5236173 None:intergenic 45.0%
TAGCATACATCCACACCTGA+TGG + Chr4:5236172-5236191 None:intergenic 45.0%
TGACCAGAAAACCAAGATGG+TGG - Chr4:5236108-5236127 MsG0480018463.01.T01:CDS 45.0%
TGCCCTTACTGGTATGTATG+CGG - Chr4:5236514-5236533 MsG0480018463.01.T01:CDS 45.0%
TTACCCCAATAGAACCCATG+TGG + Chr4:5236425-5236444 None:intergenic 45.0%
TTATCTGTTGCCCATCCATC+AGG - Chr4:5236154-5236173 MsG0480018463.01.T01:CDS 45.0%
! GAGATAGCCTTGCAAGTTAC+AGG - Chr4:5236380-5236399 MsG0480018463.01.T01:CDS 45.0%
! TACATCCACACCTGATGGAT+GGG + Chr4:5236167-5236186 None:intergenic 45.0%
! TGATGGATGGGCAACAGATA+AGG + Chr4:5236155-5236174 None:intergenic 45.0%
AGAACCCATGTGGCATCCAA+CGG + Chr4:5236415-5236434 None:intergenic 50.0%
AGCCTTCCTTCATTGCTCGA+GGG + Chr4:5236061-5236080 None:intergenic 50.0%
ATGAAGGAAGGCTCATCTGC+TGG - Chr4:5236068-5236087 MsG0480018463.01.T01:CDS 50.0%
GGATGCCACATGGGTTCTAT+TGG - Chr4:5236417-5236436 MsG0480018463.01.T01:CDS 50.0%
GGCACACCTAACGCATTCTA+TGG + Chr4:5236498-5236517 None:intergenic 50.0%
! CACAAGCCCTGTAACTTGCA+AGG + Chr4:5236390-5236409 None:intergenic 50.0%
! CCAGAAAACCAAGATGGTGG+TGG - Chr4:5236111-5236130 MsG0480018463.01.T01:CDS 50.0%
! TTCGCTGCGCAAGTCTTGTA+GGG - Chr4:5236034-5236053 MsG0480018463.01.T01:CDS 50.0%
!! CCACCACCATCTTGGTTTTC+TGG + Chr4:5236114-5236133 None:intergenic 50.0%
!! CTTGGTTTTCTGGTCATCGG+AGG + Chr4:5236104-5236123 None:intergenic 50.0%
CTACAAGACTTGCGCAGCGA+AGG + Chr4:5236035-5236054 None:intergenic 55.0%
GAGCCTTCCTTCATTGCTCG+AGG + Chr4:5236062-5236081 None:intergenic 55.0%
GCCTTCCTTCATTGCTCGAG+GGG + Chr4:5236060-5236079 None:intergenic 55.0%
TGAGCCGTTGGATGCCACAT+GGG - Chr4:5236408-5236427 MsG0480018463.01.T01:CDS 55.0%
TGCGCAGCGAAGGTAACACA+GGG + Chr4:5236025-5236044 None:intergenic 55.0%
TGCGTTAGGTGTGCCCTTAC+TGG - Chr4:5236503-5236522 MsG0480018463.01.T01:CDS 55.0%
TGTTGCCCATCCATCAGGTG+TGG - Chr4:5236159-5236178 MsG0480018463.01.T01:CDS 55.0%
TTACAGGGCTTGTGAGCCGT+TGG - Chr4:5236396-5236415 MsG0480018463.01.T01:CDS 55.0%
TTGCGCAGCGAAGGTAACAC+AGG + Chr4:5236026-5236045 None:intergenic 55.0%
! CTTCGCTGCGCAAGTCTTGT+AGG - Chr4:5236033-5236052 MsG0480018463.01.T01:CDS 55.0%
GCCCCTCGAGCAATGAAGGA+AGG - Chr4:5236056-5236075 MsG0480018463.01.T01:CDS 60.0%
GTGAGCCGTTGGATGCCACA+TGG - Chr4:5236407-5236426 MsG0480018463.01.T01:CDS 60.0%
TAGGGCCCCTCGAGCAATGA+AGG - Chr4:5236052-5236071 MsG0480018463.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 5235963 5236589 5235963 ID=MsG0480018463.01;Name=MsG0480018463.01
Chr4 mRNA 5235963 5236589 5235963 ID=MsG0480018463.01.T01;Parent=MsG0480018463.01;Name=MsG0480018463.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|208
Chr4 exon 5235963 5236589 5235963 ID=MsG0480018463.01.T01:exon:1917;Parent=MsG0480018463.01.T01
Chr4 CDS 5235963 5236589 5235963 ID=MsG0480018463.01.T01:cds;Parent=MsG0480018463.01.T01
Gene Sequence

>MsG0480018463.01.T01

ATGTCTTCTGCATCAAGCCTACTTTTAAGTGGGGGTCAAAATCTTCTATCTCGTACTATCCCTGTGTTACCTTCGCTGCGCAAGTCTTGTAGGGCCCCTCGAGCAATGAAGGAAGGCTCATCTGCTGGCTTTAAGTTTCCTCCGATGACCAGAAAACCAAGATGGTGGTGGAGAACATTAGCATGCATCCCTTATCTGTTGCCCATCCATCAGGTGTGGATGTATGCTAAGACAGCATACAATCTTCACCCGTTTATCGAGGCATTCGAGTTCTTAACGTACCCTTTTTTTAGGTCAATTGGCAGTCTACCTAGATGGTCTCTCATAGCATACTTCTTGATTGCGTATCTTACCATTGTGAGGAGAAAAGAATGGCCTCATTTCTTCAGATTTCATGTTGCCGTCGGAATGTTAATCGAGATAGCCTTGCAAGTTACAGGGCTTGTGAGCCGTTGGATGCCACATGGGTTCTATTGGGGTAAAATTGGAATGCATTTCTGGACTACTGCATTTTTCCTTTATCTCTTTACTTCCATAGAATGCGTTAGGTGTGCCCTTACTGGTATGTATGCGGATATCCCTTTTGTCTGTGATGCAGCATATATCCAAATACCATACGAACCATAG

Protein sequence

>MsG0480018463.01.T01

MSSASSLLLSGGQNLLSRTIPVLPSLRKSCRAPRAMKEGSSAGFKFPPMTRKPRWWWRTLACIPYLLPIHQVWMYAKTAYNLHPFIEAFEFLTYPFFRSIGSLPRWSLIAYFLIAYLTIVRRKEWPHFFRFHVAVGMLIEIALQVTGLVSRWMPHGFYWGKIGMHFWTTAFFLYLFTSIECVRCALTGMYADIPFVCDAAYIQIPYEP*