AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880041898.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880041898.01.T01 MTR_8g005900 94.602 352 18 1 1 352 1 351 0.0 618
MsG0880041898.01.T01 MTR_5g012680 58.306 307 115 3 29 332 40 336 1.02e-124 363
MsG0880041898.01.T01 MTR_5g036410 46.580 307 151 5 39 337 54 355 6.59e-94 285
MsG0880041898.01.T01 MTR_8g062770 46.207 290 137 5 38 313 47 331 9.32e-80 249
MsG0880041898.01.T01 MTR_6g008480 38.127 299 147 7 37 307 41 329 5.93e-59 194
MsG0880041898.01.T01 MTR_5g036080 35.563 284 162 6 31 310 55 321 7.95e-49 167
MsG0880041898.01.T01 MTR_5g036087 32.530 332 181 13 7 312 7 321 4.73e-36 134
MsG0880041898.01.T01 MTR_5g036083 34.182 275 140 10 45 312 38 278 1.22e-35 132
MsG0880041898.01.T01 MTR_5g036093 31.894 301 171 9 53 343 35 311 9.64e-34 127
MsG0880041898.01.T01 MTR_5g036360 32.210 267 147 8 51 309 81 321 6.48e-33 126
MsG0880041898.01.T01 MTR_5g036290 31.439 264 155 8 51 309 89 331 8.64e-31 120
MsG0880041898.01.T01 MTR_5g036270 28.882 322 162 11 48 312 2 313 3.87e-28 112
MsG0880041898.01.T01 MTR_5g036310 28.076 317 159 10 3 312 26 280 4.98e-22 95.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880041898.01.T01 AT2G45040 50.432 347 153 6 6 350 10 339 6.15e-119 348
MsG0880041898.01.T01 AT4G16640 55.986 284 114 4 33 314 51 325 1.82e-109 324
MsG0880041898.01.T01 AT1G70170 45.329 289 139 5 39 313 46 329 3.97e-85 263
MsG0880041898.01.T01 AT1G59970 45.693 267 133 5 46 307 54 313 3.29e-79 247
MsG0880041898.01.T01 AT1G24140 42.173 313 154 7 39 330 48 354 1.06e-78 246

Find 69 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGGTGTACAATCTCTTTA+TGG 0.178172 8:+894069 MsG0880041898.01.T01:CDS
TTGAATATTGATGATATTAA+AGG 0.231900 8:+894051 MsG0880041898.01.T01:CDS
AAAGATACCTATCTCGTTTC+GGG 0.242215 8:+893335 MsG0880041898.01.T01:CDS
AGTTTGGAGTTGACACTTTC+GGG 0.242633 8:+894160 MsG0880041898.01.T01:CDS
GAGAAATGTGAAGGAGTATC+TGG 0.292363 8:-893182 None:intergenic
ATGGTTTGTGATGGATATTT+TGG 0.295126 8:-893251 None:intergenic
CTTGAAGTCCAAGATTTCTT+TGG 0.299528 8:-893426 None:intergenic
ACAAATCATGGTGCAAAGTT+TGG 0.322005 8:+894144 MsG0880041898.01.T01:CDS
ATACAGGGAAATTGCAATAA+TGG 0.322978 8:-894199 None:intergenic
GAGCCATTTGATGGAGTTCT+TGG 0.328970 8:+893811 MsG0880041898.01.T01:CDS
AAGTTTGGAGTTGACACTTT+CGG 0.334864 8:+894159 MsG0880041898.01.T01:CDS
ACCTCGATGCAGCCGAGACT+TGG 0.336587 8:+893875 MsG0880041898.01.T01:CDS
GAGACTTGGGCGGTTGATTT+CGG 0.337997 8:+893889 MsG0880041898.01.T01:CDS
ATCAAATACCAAAGAAATCT+TGG 0.341782 8:+893418 MsG0880041898.01.T01:CDS
GACCACTGAGATCTAAAATT+AGG 0.342679 8:-894099 None:intergenic
TAGATGGAGTTCAGTTATTC+CGG 0.350190 8:+893711 MsG0880041898.01.T01:CDS
AAAAGATACCTATCTCGTTT+CGG 0.355227 8:+893334 MsG0880041898.01.T01:CDS
ACATGAGATTGGACATTTGT+TGG 0.375194 8:+893957 MsG0880041898.01.T01:CDS
AAAGGTTCAAATTATAATAC+AGG 0.381220 8:-894215 None:intergenic
TAGATCTCAGTGGTCTTCAT+TGG 0.382448 8:+894107 MsG0880041898.01.T01:CDS
AATCTTGGACTTCAAGTAAC+TGG 0.389374 8:+893433 MsG0880041898.01.T01:CDS
CATGAGATTGGACATTTGTT+GGG 0.392912 8:+893958 MsG0880041898.01.T01:CDS
TCAAACGAGCATTCTCTAGA+TGG 0.397604 8:+893695 MsG0880041898.01.T01:CDS
AAACTTTGCACCATGATTTG+TGG 0.402827 8:-894142 None:intergenic
ACTTTCGGGTTCTCTATGAT+TGG 0.405044 8:+894174 MsG0880041898.01.T01:CDS
TAATGTACCCGAAACGAGAT+AGG 0.407063 8:-893342 None:intergenic
AAGCCATAGGTTAGTGTCAT+TGG 0.410592 8:-893619 None:intergenic
TTATCTCTTGGCCTCAAACT+TGG 0.420331 8:-894018 None:intergenic
CATTCGTTCTCACCGGAGAT+AGG 0.424201 8:+893844 MsG0880041898.01.T01:CDS
GTCACATAGTTCTTTGAAAG+AGG 0.449261 8:+893984 MsG0880041898.01.T01:CDS
TGAAGGAGTATCTGGGTGAT+AGG 0.455918 8:-893174 None:intergenic
TGATTTCGGTGTAACGAAAT+CGG 0.459611 8:+893903 MsG0880041898.01.T01:CDS
GGTGATGGTGAGCCATTTGA+TGG 0.470162 8:+893802 MsG0880041898.01.T01:CDS
TTTGTCGAATCAGAGGATTA+TGG 0.472195 8:+893739 MsG0880041898.01.T01:CDS
TCTGATTCGACAAAACTAAC+CGG 0.479344 8:-893730 None:intergenic
ATCAGAGGATTATGGTTTCA+CGG 0.480189 8:+893747 MsG0880041898.01.T01:CDS
TCTGATATCTCCACAAATCA+TGG 0.490593 8:+894132 MsG0880041898.01.T01:CDS
ATTCATAGCTTCACCAATGC+TGG 0.494960 8:+893277 MsG0880041898.01.T01:CDS
TCAGTAGCAACACATGAGAT+TGG 0.504027 8:+893946 MsG0880041898.01.T01:CDS
CCTCGATGCAGCCGAGACTT+GGG 0.504734 8:+893876 MsG0880041898.01.T01:CDS
AGCTTCACCAATGCTGGCAG+AGG 0.514014 8:+893283 MsG0880041898.01.T01:CDS
ACACCAAGAACTCCATCAAA+TGG 0.514511 8:-893814 None:intergenic
CGGTGTAACGAAATCGGAGG+TGG 0.518632 8:+893909 MsG0880041898.01.T01:CDS
GTTGTTGCCTCTGCCAGCAT+TGG 0.520249 8:-893290 None:intergenic
CTATCTCCGGTGAGAACGAA+TGG 0.521976 8:-893843 None:intergenic
ACTTGAGCATACAAGAGATA+AGG 0.535220 8:+893665 MsG0880041898.01.T01:CDS
AGAAATGTGAAGGAGTATCT+GGG 0.543003 8:-893181 None:intergenic
GAAATCAACCGCCCAAGTCT+CGG 0.544382 8:-893887 None:intergenic
GATCATTTGAGAAACTGTAT+TGG 0.546404 8:-893467 None:intergenic
CAGTAATGTATCCAAGTTTG+AGG 0.553005 8:+894007 MsG0880041898.01.T01:CDS
AGGTGAAGTCTTCCTATCTC+CGG 0.553302 8:-893856 None:intergenic
ATGCCAATGACACTAACCTA+TGG 0.555029 8:+893616 MsG0880041898.01.T01:CDS
TATCTCCGGTGAGAACGAAT+GGG 0.562042 8:-893842 None:intergenic
AGTAGTGAAGAGAAATGTGA+AGG 0.574185 8:-893191 None:intergenic
GGCAGAGGCAACAACATCAC+AGG 0.587313 8:+893298 MsG0880041898.01.T01:CDS
GTTAGCCCATTCGTTCTCAC+CGG 0.599027 8:+893837 MsG0880041898.01.T01:CDS
CAAATGATCACACCGAGATG+TGG 0.601148 8:+893481 MsG0880041898.01.T01:CDS
TATAGTGGTGACCATGGTGA+TGG 0.605121 8:+893787 MsG0880041898.01.T01:CDS
ATGAATGTCATGGTTTGTGA+TGG 0.608360 8:-893260 None:intergenic
GTGTCTGGGACACCACATCT+CGG 0.625938 8:-893493 None:intergenic
GTAGTCACTTGAGAAGCCAT+AGG 0.626586 8:-893632 None:intergenic
TGGTGAAGCTATGAATGTCA+TGG 0.644473 8:-893270 None:intergenic
AAGGTTCAAATTATAATACA+GGG 0.646428 8:-894214 None:intergenic
CGATGCAGCCGAGACTTGGG+CGG 0.658498 8:+893879 MsG0880041898.01.T01:CDS
CCCAAGTCTCGGCTGCATCG+AGG 0.685523 8:-893876 None:intergenic
TTTCGGTGTAACGAAATCGG+AGG 0.702180 8:+893906 MsG0880041898.01.T01:CDS
CAAATGGCTCACCATCACCA+TGG 0.702776 8:-893798 None:intergenic
GTGAAGATGATGATAATGTG+AGG 0.703519 8:-893219 None:intergenic
GGCATGTCACGTGACCAACG+TGG 0.753244 8:-893598 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAAAATAGGATTTTATAG+TGG + Chr8:893772-893791 MsG0880041898.01.T01:CDS 15.0%
!!! TTGAATATTGATGATATTAA+AGG + Chr8:894051-894070 MsG0880041898.01.T01:CDS 15.0%
!! AAAGGTTCAAATTATAATAC+AGG - Chr8:894218-894237 None:intergenic 20.0%
!! AAGGTTCAAATTATAATACA+GGG - Chr8:894217-894236 None:intergenic 20.0%
!!! TGTTATGAATATGATTTTGA+TGG - Chr8:893549-893568 None:intergenic 20.0%
! ATCAAATACCAAAGAAATCT+TGG + Chr8:893418-893437 MsG0880041898.01.T01:CDS 25.0%
!!! ACGAATTTTGTTTATTTTCC+TGG + Chr8:893571-893590 MsG0880041898.01.T01:CDS 25.0%
AAAAGATACCTATCTCGTTT+CGG + Chr8:893334-893353 MsG0880041898.01.T01:CDS 30.0%
ATACAGGGAAATTGCAATAA+TGG - Chr8:894202-894221 None:intergenic 30.0%
GATCATTTGAGAAACTGTAT+TGG - Chr8:893470-893489 None:intergenic 30.0%
GGTTTCACGGATATAAAAAT+AGG + Chr8:893760-893779 MsG0880041898.01.T01:CDS 30.0%
! AAAGGTGTACAATCTCTTTA+TGG + Chr8:894069-894088 MsG0880041898.01.T01:CDS 30.0%
! AAATCAGCTCTTTTATCTCT+TGG - Chr8:894033-894052 None:intergenic 30.0%
! ATCCTAATTTTAGATCTCAG+TGG + Chr8:894097-894116 MsG0880041898.01.T01:CDS 30.0%
!!! ATGGTTTGTGATGGATATTT+TGG - Chr8:893254-893273 None:intergenic 30.0%
AAACTTTGCACCATGATTTG+TGG - Chr8:894145-894164 None:intergenic 35.0%
AAAGATACCTATCTCGTTTC+GGG + Chr8:893335-893354 MsG0880041898.01.T01:CDS 35.0%
AATCTTGGACTTCAAGTAAC+TGG + Chr8:893433-893452 MsG0880041898.01.T01:CDS 35.0%
ACAAATCATGGTGCAAAGTT+TGG + Chr8:894144-894163 MsG0880041898.01.T01:CDS 35.0%
ACATGAGATTGGACATTTGT+TGG + Chr8:893957-893976 MsG0880041898.01.T01:CDS 35.0%
ACTTGAGCATACAAGAGATA+AGG + Chr8:893665-893684 MsG0880041898.01.T01:CDS 35.0%
AGTAGTGAAGAGAAATGTGA+AGG - Chr8:893194-893213 None:intergenic 35.0%
ATCAGAGGATTATGGTTTCA+CGG + Chr8:893747-893766 MsG0880041898.01.T01:CDS 35.0%
CAGTAATGTATCCAAGTTTG+AGG + Chr8:894007-894026 MsG0880041898.01.T01:CDS 35.0%
CATGAGATTGGACATTTGTT+GGG + Chr8:893958-893977 MsG0880041898.01.T01:CDS 35.0%
CTTGAAGTCCAAGATTTCTT+TGG - Chr8:893429-893448 None:intergenic 35.0%
TAGATGGAGTTCAGTTATTC+CGG + Chr8:893711-893730 MsG0880041898.01.T01:CDS 35.0%
TCTGATATCTCCACAAATCA+TGG + Chr8:894132-894151 MsG0880041898.01.T01:CDS 35.0%
TTTGTCGAATCAGAGGATTA+TGG + Chr8:893739-893758 MsG0880041898.01.T01:CDS 35.0%
! AAGTTTGGAGTTGACACTTT+CGG + Chr8:894159-894178 MsG0880041898.01.T01:CDS 35.0%
! ATGAATGTCATGGTTTGTGA+TGG - Chr8:893263-893282 None:intergenic 35.0%
! GACCACTGAGATCTAAAATT+AGG - Chr8:894102-894121 None:intergenic 35.0%
! GTCACATAGTTCTTTGAAAG+AGG + Chr8:893984-894003 MsG0880041898.01.T01:CDS 35.0%
! GTGAAGATGATGATAATGTG+AGG - Chr8:893222-893241 None:intergenic 35.0%
! TCTGATTCGACAAAACTAAC+CGG - Chr8:893733-893752 None:intergenic 35.0%
! TGATTTCGGTGTAACGAAAT+CGG + Chr8:893903-893922 MsG0880041898.01.T01:CDS 35.0%
!! AGAAATGTGAAGGAGTATCT+GGG - Chr8:893184-893203 None:intergenic 35.0%
!! GATGAGTTTTTGTTGTGTCT+GGG - Chr8:893510-893529 None:intergenic 35.0%
!! TGATGAGTTTTTGTTGTGTC+TGG - Chr8:893511-893530 None:intergenic 35.0%
!!! GTTTGTGATGGATATTTTGG+TGG - Chr8:893251-893270 None:intergenic 35.0%
AAGCCATAGGTTAGTGTCAT+TGG - Chr8:893622-893641 None:intergenic 40.0%
ACACCAAGAACTCCATCAAA+TGG - Chr8:893817-893836 None:intergenic 40.0%
ATGCCAATGACACTAACCTA+TGG + Chr8:893616-893635 MsG0880041898.01.T01:CDS 40.0%
ATTCATAGCTTCACCAATGC+TGG + Chr8:893277-893296 MsG0880041898.01.T01:CDS 40.0%
TAATGTACCCGAAACGAGAT+AGG - Chr8:893345-893364 None:intergenic 40.0%
TAGATCTCAGTGGTCTTCAT+TGG + Chr8:894107-894126 MsG0880041898.01.T01:CDS 40.0%
TCAAACGAGCATTCTCTAGA+TGG + Chr8:893695-893714 MsG0880041898.01.T01:CDS 40.0%
TCAGTAGCAACACATGAGAT+TGG + Chr8:893946-893965 MsG0880041898.01.T01:CDS 40.0%
TGGTGAAGCTATGAATGTCA+TGG - Chr8:893273-893292 None:intergenic 40.0%
TTATCTCTTGGCCTCAAACT+TGG - Chr8:894021-894040 None:intergenic 40.0%
! AGTTTGGAGTTGACACTTTC+GGG + Chr8:894160-894179 MsG0880041898.01.T01:CDS 40.0%
! ATTTTCCTGGAAAACCACGT+TGG + Chr8:893584-893603 MsG0880041898.01.T01:CDS 40.0%
! GGATTTTATAGTGGTGACCA+TGG + Chr8:893781-893800 MsG0880041898.01.T01:CDS 40.0%
!! ACTTTCGGGTTCTCTATGAT+TGG + Chr8:894174-894193 MsG0880041898.01.T01:CDS 40.0%
!! GAGAAATGTGAAGGAGTATC+TGG - Chr8:893185-893204 None:intergenic 40.0%
!!! ATGGATATTTTGGTGGCTAG+TGG - Chr8:893244-893263 None:intergenic 40.0%
!!! GGTTAGTTTTGTCGAATCAG+AGG + Chr8:893732-893751 MsG0880041898.01.T01:CDS 40.0%
AGGTGAAGTCTTCCTATCTC+CGG - Chr8:893859-893878 None:intergenic 45.0%
CAAATGATCACACCGAGATG+TGG + Chr8:893481-893500 MsG0880041898.01.T01:CDS 45.0%
GAGCCATTTGATGGAGTTCT+TGG + Chr8:893811-893830 MsG0880041898.01.T01:CDS 45.0%
GTAGTCACTTGAGAAGCCAT+AGG - Chr8:893635-893654 None:intergenic 45.0%
TATAGTGGTGACCATGGTGA+TGG + Chr8:893787-893806 MsG0880041898.01.T01:CDS 45.0%
TATCTCCGGTGAGAACGAAT+GGG - Chr8:893845-893864 None:intergenic 45.0%
! TTTCGGTGTAACGAAATCGG+AGG + Chr8:893906-893925 MsG0880041898.01.T01:CDS 45.0%
!! TGAAGGAGTATCTGGGTGAT+AGG - Chr8:893177-893196 None:intergenic 45.0%
CAAATGGCTCACCATCACCA+TGG - Chr8:893801-893820 None:intergenic 50.0%
CATTCGTTCTCACCGGAGAT+AGG + Chr8:893844-893863 MsG0880041898.01.T01:CDS 50.0%
CTATCTCCGGTGAGAACGAA+TGG - Chr8:893846-893865 None:intergenic 50.0%
GAAATCAACCGCCCAAGTCT+CGG - Chr8:893890-893909 None:intergenic 50.0%
GTTAGCCCATTCGTTCTCAC+CGG + Chr8:893837-893856 MsG0880041898.01.T01:CDS 50.0%
! GAGACTTGGGCGGTTGATTT+CGG + Chr8:893889-893908 MsG0880041898.01.T01:CDS 50.0%
! GGTGATGGTGAGCCATTTGA+TGG + Chr8:893802-893821 MsG0880041898.01.T01:CDS 50.0%
AGCTTCACCAATGCTGGCAG+AGG + Chr8:893283-893302 MsG0880041898.01.T01:CDS 55.0%
CGGTGTAACGAAATCGGAGG+TGG + Chr8:893909-893928 MsG0880041898.01.T01:CDS 55.0%
GGCAGAGGCAACAACATCAC+AGG + Chr8:893298-893317 MsG0880041898.01.T01:CDS 55.0%
GTTGTTGCCTCTGCCAGCAT+TGG - Chr8:893293-893312 None:intergenic 55.0%
! CGTGACCAACGTGGTTTTCC+AGG - Chr8:893592-893611 None:intergenic 55.0%
! GTGTCTGGGACACCACATCT+CGG - Chr8:893496-893515 None:intergenic 55.0%
ACCTCGATGCAGCCGAGACT+TGG + Chr8:893875-893894 MsG0880041898.01.T01:CDS 60.0%
CCTCGATGCAGCCGAGACTT+GGG + Chr8:893876-893895 MsG0880041898.01.T01:CDS 60.0%
GGCATGTCACGTGACCAACG+TGG - Chr8:893601-893620 None:intergenic 60.0%
CCCAAGTCTCGGCTGCATCG+AGG - Chr8:893879-893898 None:intergenic 65.0%
CGATGCAGCCGAGACTTGGG+CGG + Chr8:893879-893898 MsG0880041898.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr8 gene 893169 894242 893169 ID=MsG0880041898.01;Name=MsG0880041898.01
Chr8 mRNA 893169 894242 893169 ID=MsG0880041898.01.T01;Parent=MsG0880041898.01;Name=MsG0880041898.01.T01;_AED=0.08;_eAED=0.08;_QI=0|-1|0|1|-1|1|1|0|357
Chr8 exon 893169 894242 893169 ID=MsG0880041898.01.T01:exon:112;Parent=MsG0880041898.01.T01
Chr8 CDS 893169 894242 893169 ID=MsG0880041898.01.T01:cds;Parent=MsG0880041898.01.T01
Gene Sequence

>MsG0880041898.01.T01

ATGTTCCTATCACCCAGATACTCCTTCACATTTCTCTTCACTACTCTTCTCCTCACATTATCATCATCTTCACCACTAGCCACCAAAATATCCATCACAAACCATGACATTCATAGCTTCACCAATGCTGGCAGAGGCAACAACATCACAGGAATATCACAATTCAAAAGATACCTATCTCGTTTCGGGTACATTAAAAACAATGACACATTCAGCGACGAATTTGATGCGAATTTTGAATCAGCTATCATCAAATACCAAAGAAATCTTGGACTTCAAGTAACTGGTAAACTCGATTCCAATACAGTTTCTCAAATGATCACACCGAGATGTGGTGTCCCAGACACAACAAAAACTCATCATCATCATCATAATCACCATCAAAATCATATTCATAACATGACGAATTTTGTTTATTTTCCTGGAAAACCACGTTGGTCACGTGACATGCCAATGACACTAACCTATGGCTTCTCAAGTGACTACATGATTCATAACTTGAGCATACAAGAGATAAGGAAAGCATTCAAACGAGCATTCTCTAGATGGAGTTCAGTTATTCCGGTTAGTTTTGTCGAATCAGAGGATTATGGTTTCACGGATATAAAAATAGGATTTTATAGTGGTGACCATGGTGATGGTGAGCCATTTGATGGAGTTCTTGGTGTGTTAGCCCATTCGTTCTCACCGGAGATAGGAAGACTTCACCTCGATGCAGCCGAGACTTGGGCGGTTGATTTCGGTGTAACGAAATCGGAGGTGGCAATTGATTTAGAGTCAGTAGCAACACATGAGATTGGACATTTGTTGGGTTTGTCACATAGTTCTTTGAAAGAGGCAGTAATGTATCCAAGTTTGAGGCCAAGAGATAAAAGAGCTGATTTGAATATTGATGATATTAAAGGTGTACAATCTCTTTATGGTTCTAATCCTAATTTTAGATCTCAGTGGTCTTCATTGGAATCTGATATCTCCACAAATCATGGTGCAAAGTTTGGAGTTGACACTTTCGGGTTCTCTATGATTGGTTCCATTATTGCAATTTCCCTGTATTATAATTTGAACCTTTTTTAA
Protein sequence

>MsG0880041898.01.T01

MFLSPRYSFTFLFTTLLLTLSSSSPLATKISITNHDIHSFTNAGRGNNITGISQFKRYLSRFGYIKNNDTFSDEFDANFESAIIKYQRNLGLQVTGKLDSNTVSQMITPRCGVPDTTKTHHHHHNHHQNHIHNMTNFVYFPGKPRWSRDMPMTLTYGFSSDYMIHNLSIQEIRKAFKRAFSRWSSVIPVSFVESEDYGFTDIKIGFYSGDHGDGEPFDGVLGVLAHSFSPEIGRLHLDAAETWAVDFGVTKSEVAIDLESVATHEIGHLLGLSHSSLKEAVMYPSLRPRDKRADLNIDDIKGVQSLYGSNPNFRSQWSSLESDISTNHGAKFGVDTFGFSMIGSIIAISLYYNLNLF*