AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280006750.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006750.01.T01 MTR_2g014290 88.608 316 6 1 1 286 29 344 0.0 568
MsG0280006750.01.T01 MTR_1g093630 30.990 313 175 11 2 278 39 346 6.92e-33 127
MsG0280006750.01.T01 MTR_5g053610 31.529 314 158 12 2 266 26 331 2.54e-30 120
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006750.01.T01 AT1G28340 61.587 315 91 1 1 285 29 343 1.56e-141 412
MsG0280006750.01.T01 AT1G25570 31.962 316 164 11 3 278 32 336 9.82e-37 138

Find 64 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATAGTAAAGCTTATTATTT+TGG 0.087880 2:+5820518 MsG0280006750.01.T01:CDS
AATAAAACTGTTCCTGTTAA+TGG 0.120222 2:+5820985 MsG0280006750.01.T01:CDS
GTCTTTGACATTATGATTAA+TGG 0.178729 2:+5820895 MsG0280006750.01.T01:CDS
CTCTAGGAGGGGACAGATTT+TGG 0.181711 2:+5820635 MsG0280006750.01.T01:intron
GCTGATCGATAAAGAGTTTC+TGG 0.213011 2:-5820748 None:intergenic
TCAAACTGCTACAAGATTAA+TGG 0.243418 2:+5820242 MsG0280006750.01.T01:CDS
ATAAAACTGTTCCTGTTAAT+GGG 0.308905 2:+5820986 MsG0280006750.01.T01:CDS
AGAGTTTCTGGATAAAAGTT+TGG 0.326833 2:-5820736 None:intergenic
TGAAGCCCAAGTGTTTCTTA+TGG 0.353556 2:+5820418 MsG0280006750.01.T01:CDS
GCTAAAGACCTCCCATTAAC+AGG 0.368349 2:-5820997 None:intergenic
CGAAACCAACCACTACTCTA+TGG 0.372169 2:+5820111 MsG0280006750.01.T01:CDS
ATTCTAGTTTCAACGGATCT+TGG 0.383587 2:-5820694 None:intergenic
CGCTATTTCCCCTTGTCTGA+AGG 0.401992 2:+5820215 MsG0280006750.01.T01:CDS
CTGACTGAGTAATGCCCCTT+TGG 0.423548 2:-5820269 None:intergenic
TTAATCTTGTAGCAGTTTGA+AGG 0.429694 2:-5820239 None:intergenic
TCCAATGTATATGATAAATC+AGG 0.436999 2:-5820793 None:intergenic
TATAAAGACTTTGGTTCTAC+AGG 0.443828 2:+5820134 MsG0280006750.01.T01:CDS
ATATATTTGAGTGCCTTGTA+TGG 0.443878 2:-5820351 None:intergenic
GTCAAAGACCCTTTGACCTA+TGG 0.446983 2:-5820881 None:intergenic
ATCTCAATTGAAAGAATAGC+TGG 0.454604 2:-5820485 None:intergenic
TGGCAGCATACTAAAACGTT+CGG 0.467452 2:+5820655 MsG0280006750.01.T01:CDS
TTGCTATGCGCATAAGCTGT+GGG 0.467669 2:+5820069 None:intergenic
ACTCTATGGTATAAAGACTT+TGG 0.467785 2:+5820125 MsG0280006750.01.T01:CDS
CACAATGTCAACATCTCTAA+AGG 0.474558 2:-5820926 None:intergenic
CAAAGGGGCATTACTCAGTC+AGG 0.478613 2:+5820270 MsG0280006750.01.T01:CDS
AAGATTAATGGAGTGCCAAA+GGG 0.494737 2:+5820254 MsG0280006750.01.T01:CDS
GCCTGATTTATCATATACAT+TGG 0.497031 2:+5820792 MsG0280006750.01.T01:CDS
GCATACTAAAACGTTCGGTC+AGG 0.514754 2:+5820660 MsG0280006750.01.T01:CDS
TGTTTCCATAGCACTGGTCA+TGG 0.516253 2:+5820458 MsG0280006750.01.T01:CDS
TCATCCTGAGTGGTCCAACC+TGG 0.517297 2:-5820383 None:intergenic
TATATACTTTGAAACCAGGT+TGG 0.517855 2:+5820369 MsG0280006750.01.T01:CDS
GATAATTCGGTGCATTCCAT+AGG 0.521781 2:+5820865 MsG0280006750.01.T01:CDS
TTTATCATATACATTGGATG+TGG 0.524658 2:+5820798 MsG0280006750.01.T01:CDS
CGGTGCATTCCATAGGTCAA+AGG 0.527093 2:+5820872 MsG0280006750.01.T01:CDS
TCAATCTGTTTCCATAGCAC+TGG 0.532938 2:+5820452 MsG0280006750.01.T01:CDS
TGTATGGATATGTCAAATAG+AGG 0.535924 2:-5820335 None:intergenic
TATGTCAAATAGAGGTTCGT+TGG 0.538249 2:-5820327 None:intergenic
CTATTTGACATATCCATACA+AGG 0.541929 2:+5820338 MsG0280006750.01.T01:CDS
GATCCCCATGACCAGTGCTA+TGG 0.547003 2:-5820463 None:intergenic
GTTTCCATAGCACTGGTCAT+GGG 0.547680 2:+5820459 MsG0280006750.01.T01:CDS
CAAGATTAATGGAGTGCCAA+AGG 0.552056 2:+5820253 MsG0280006750.01.T01:CDS
TACGGTCCATAAGAAACACT+TGG 0.553452 2:-5820424 None:intergenic
GGTGCATTCCATAGGTCAAA+GGG 0.553637 2:+5820873 MsG0280006750.01.T01:CDS
CAAATATATACTTTGAAACC+AGG 0.563061 2:+5820365 MsG0280006750.01.T01:CDS
TTTCCATAGCACTGGTCATG+GGG 0.563808 2:+5820460 MsG0280006750.01.T01:CDS
GAAACCAGGTTGGACCACTC+AGG 0.566235 2:+5820379 MsG0280006750.01.T01:CDS
TTGACATTGTGAAATTGAGT+GGG 0.569136 2:+5820938 MsG0280006750.01.T01:CDS
TAGTTTCAACGGATCTTGGT+CGG 0.572300 2:-5820690 None:intergenic
TTTGCTATGCGCATAAGCTG+TGG 0.587768 2:+5820068 None:intergenic
TTATACCATAGAGTAGTGGT+TGG 0.598501 2:-5820116 None:intergenic
ATGTATATGATAAATCAGGC+TGG 0.598523 2:-5820789 None:intergenic
GTTTGAAGGACCTTCAGACA+AGG 0.601318 2:-5820225 None:intergenic
GTCTTTATACCATAGAGTAG+TGG 0.603051 2:-5820120 None:intergenic
AAAGACTTTGGTTCTACAGG+AGG 0.604691 2:+5820137 MsG0280006750.01.T01:CDS
GGAAACAGATTGAGACAGTA+CGG 0.610548 2:-5820442 None:intergenic
TTGAAGGACCTTCAGACAAG+GGG 0.622500 2:-5820223 None:intergenic
TTTGAAGGACCTTCAGACAA+GGG 0.634339 2:-5820224 None:intergenic
TGCTATGCGCATAAGCTGTG+GGG 0.636800 2:+5820070 None:intergenic
GTTGACATTGTGAAATTGAG+TGG 0.648616 2:+5820937 MsG0280006750.01.T01:CDS
AAACTGTTCCTGTTAATGGG+AGG 0.659256 2:+5820989 MsG0280006750.01.T01:CDS
AGATTAATGGAGTGCCAAAG+GGG 0.663068 2:+5820255 MsG0280006750.01.T01:CDS
ACGGTCCATAAGAAACACTT+GGG 0.667875 2:-5820423 None:intergenic
TGACATTGTGAAATTGAGTG+GGG 0.720457 2:+5820939 MsG0280006750.01.T01:CDS
AAATGCTTGATCATCCTGAG+TGG 0.731870 2:-5820393 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAGTAAAGCTTATTATTTT+GGG + Chr2:5820519-5820538 MsG0280006750.01.T01:CDS 15.0%
!!! TTTTTTAATTCTAGTTTCAA+CGG - Chr2:5820704-5820723 None:intergenic 15.0%
!!! CAAATAGAATAGTTTTTGTT+GGG - Chr2:5820826-5820845 None:intergenic 20.0%
!!! GATAGTAAAGCTTATTATTT+TGG + Chr2:5820518-5820537 MsG0280006750.01.T01:CDS 20.0%
! AATAAAACTGTTCCTGTTAA+TGG + Chr2:5820985-5821004 MsG0280006750.01.T01:CDS 25.0%
! ATAAAACTGTTCCTGTTAAT+GGG + Chr2:5820986-5821005 MsG0280006750.01.T01:CDS 25.0%
! CCAACAAAAACTATTCTATT+TGG + Chr2:5820824-5820843 MsG0280006750.01.T01:CDS 25.0%
! GTCTTTGACATTATGATTAA+TGG + Chr2:5820895-5820914 MsG0280006750.01.T01:CDS 25.0%
! TCCAATGTATATGATAAATC+AGG - Chr2:5820796-5820815 None:intergenic 25.0%
! TTTATCATATACATTGGATG+TGG + Chr2:5820798-5820817 MsG0280006750.01.T01:CDS 25.0%
!! CCAAATAGAATAGTTTTTGT+TGG - Chr2:5820827-5820846 None:intergenic 25.0%
!!! AACAGTTTTATTAAGCACAA+GGG - Chr2:5820977-5820996 None:intergenic 25.0%
!!! CAAATATATACTTTGAAACC+AGG + Chr2:5820365-5820384 MsG0280006750.01.T01:CDS 25.0%
!!! TCAAAATTTGGTGTTGATTA+TGG + Chr2:5820605-5820624 MsG0280006750.01.T01:intron 25.0%
!!! TTTTGCTGAGATTGATAATT+CGG + Chr2:5820852-5820871 MsG0280006750.01.T01:CDS 25.0%
ACTCTATGGTATAAAGACTT+TGG + Chr2:5820125-5820144 MsG0280006750.01.T01:CDS 30.0%
ATATATTTGAGTGCCTTGTA+TGG - Chr2:5820354-5820373 None:intergenic 30.0%
ATCTCAATTGAAAGAATAGC+TGG - Chr2:5820488-5820507 None:intergenic 30.0%
ATGTATATGATAAATCAGGC+TGG - Chr2:5820792-5820811 None:intergenic 30.0%
CTATTTGACATATCCATACA+AGG + Chr2:5820338-5820357 MsG0280006750.01.T01:CDS 30.0%
GCCTGATTTATCATATACAT+TGG + Chr2:5820792-5820811 MsG0280006750.01.T01:CDS 30.0%
TCAAACTGCTACAAGATTAA+TGG + Chr2:5820242-5820261 MsG0280006750.01.T01:CDS 30.0%
TGTATGGATATGTCAAATAG+AGG - Chr2:5820338-5820357 None:intergenic 30.0%
TTAATCTTGTAGCAGTTTGA+AGG - Chr2:5820242-5820261 None:intergenic 30.0%
TTGACATTGTGAAATTGAGT+GGG + Chr2:5820938-5820957 MsG0280006750.01.T01:CDS 30.0%
! AGAGTTTCTGGATAAAAGTT+TGG - Chr2:5820739-5820758 None:intergenic 30.0%
!! TATAAAGACTTTGGTTCTAC+AGG + Chr2:5820134-5820153 MsG0280006750.01.T01:CDS 30.0%
!! TATATACTTTGAAACCAGGT+TGG + Chr2:5820369-5820388 MsG0280006750.01.T01:CDS 30.0%
!!! AAATAGCGAAGAGTTTTAAG+AGG - Chr2:5820203-5820222 None:intergenic 30.0%
!!! CTTATTATTTTGGGTCAAAC+TGG + Chr2:5820528-5820547 MsG0280006750.01.T01:CDS 30.0%
!!! GAACAGTTTTATTAAGCACA+AGG - Chr2:5820978-5820997 None:intergenic 30.0%
ACAGTTAAAAGACTGAGTTG+TGG + Chr2:5820572-5820591 MsG0280006750.01.T01:intron 35.0%
CACAATGTCAACATCTCTAA+AGG - Chr2:5820929-5820948 None:intergenic 35.0%
GTCTTTATACCATAGAGTAG+TGG - Chr2:5820123-5820142 None:intergenic 35.0%
GTTGACATTGTGAAATTGAG+TGG + Chr2:5820937-5820956 MsG0280006750.01.T01:CDS 35.0%
TATGTCAAATAGAGGTTCGT+TGG - Chr2:5820330-5820349 None:intergenic 35.0%
TGACATTGTGAAATTGAGTG+GGG + Chr2:5820939-5820958 MsG0280006750.01.T01:CDS 35.0%
TTATACCATAGAGTAGTGGT+TGG - Chr2:5820119-5820138 None:intergenic 35.0%
! AAGATTAATGGAGTGCCAAA+GGG + Chr2:5820254-5820273 MsG0280006750.01.T01:CDS 35.0%
!! ATTCTAGTTTCAACGGATCT+TGG - Chr2:5820697-5820716 None:intergenic 35.0%
!!! CTTGTTTTAGATGCATTAGC+TGG - Chr2:5820167-5820186 None:intergenic 35.0%
!!! TACTCAGTCAGGATCTTTTT+TGG + Chr2:5820281-5820300 MsG0280006750.01.T01:CDS 35.0%
AAAAGACTGAGTTGTGGCTT+TGG + Chr2:5820578-5820597 MsG0280006750.01.T01:intron 40.0%
AAACTGTTCCTGTTAATGGG+AGG + Chr2:5820989-5821008 MsG0280006750.01.T01:CDS 40.0%
AAAGACTGAGTTGTGGCTTT+GGG + Chr2:5820579-5820598 MsG0280006750.01.T01:intron 40.0%
AAATGCTTGATCATCCTGAG+TGG - Chr2:5820396-5820415 None:intergenic 40.0%
ACGGTCCATAAGAAACACTT+GGG - Chr2:5820426-5820445 None:intergenic 40.0%
GCTGATCGATAAAGAGTTTC+TGG - Chr2:5820751-5820770 None:intergenic 40.0%
GGAAACAGATTGAGACAGTA+CGG - Chr2:5820445-5820464 None:intergenic 40.0%
TACGGTCCATAAGAAACACT+TGG - Chr2:5820427-5820446 None:intergenic 40.0%
TAGTTTCAACGGATCTTGGT+CGG - Chr2:5820693-5820712 None:intergenic 40.0%
TCAATCTGTTTCCATAGCAC+TGG + Chr2:5820452-5820471 MsG0280006750.01.T01:CDS 40.0%
TGAAGCCCAAGTGTTTCTTA+TGG + Chr2:5820418-5820437 MsG0280006750.01.T01:CDS 40.0%
TGGCAGCATACTAAAACGTT+CGG + Chr2:5820655-5820674 MsG0280006750.01.T01:CDS 40.0%
TTTGAAGGACCTTCAGACAA+GGG - Chr2:5820227-5820246 None:intergenic 40.0%
! AGATTAATGGAGTGCCAAAG+GGG + Chr2:5820255-5820274 MsG0280006750.01.T01:CDS 40.0%
! CAAGATTAATGGAGTGCCAA+AGG + Chr2:5820253-5820272 MsG0280006750.01.T01:CDS 40.0%
!! AAAGACTTTGGTTCTACAGG+AGG + Chr2:5820137-5820156 MsG0280006750.01.T01:CDS 40.0%
!! GATAATTCGGTGCATTCCAT+AGG + Chr2:5820865-5820884 MsG0280006750.01.T01:CDS 40.0%
!!! TAGCGAAGAGTTTTAAGAGG+AGG - Chr2:5820200-5820219 None:intergenic 40.0%
CGAAACCAACCACTACTCTA+TGG + Chr2:5820111-5820130 MsG0280006750.01.T01:CDS 45.0%
GCATACTAAAACGTTCGGTC+AGG + Chr2:5820660-5820679 MsG0280006750.01.T01:CDS 45.0%
GCTAAAGACCTCCCATTAAC+AGG - Chr2:5821000-5821019 None:intergenic 45.0%
GGTGCATTCCATAGGTCAAA+GGG + Chr2:5820873-5820892 MsG0280006750.01.T01:CDS 45.0%
GTCAAAGACCCTTTGACCTA+TGG - Chr2:5820884-5820903 None:intergenic 45.0%
GTTTGAAGGACCTTCAGACA+AGG - Chr2:5820228-5820247 None:intergenic 45.0%
TGATTATGGCGCAGATCTCT+AGG + Chr2:5820619-5820638 MsG0280006750.01.T01:intron 45.0%
TTGAAGGACCTTCAGACAAG+GGG - Chr2:5820226-5820245 None:intergenic 45.0%
!! GGCTTTGGGCAGTCAAAATT+TGG + Chr2:5820593-5820612 MsG0280006750.01.T01:intron 45.0%
!! GTTTCCATAGCACTGGTCAT+GGG + Chr2:5820459-5820478 MsG0280006750.01.T01:CDS 45.0%
!! TGTTTCCATAGCACTGGTCA+TGG + Chr2:5820458-5820477 MsG0280006750.01.T01:CDS 45.0%
!! TTTCCATAGCACTGGTCATG+GGG + Chr2:5820460-5820479 MsG0280006750.01.T01:CDS 45.0%
CGGTGCATTCCATAGGTCAA+AGG + Chr2:5820872-5820891 MsG0280006750.01.T01:CDS 50.0%
CTGACTGAGTAATGCCCCTT+TGG - Chr2:5820272-5820291 None:intergenic 50.0%
TTATGGCGCAGATCTCTAGG+AGG + Chr2:5820622-5820641 MsG0280006750.01.T01:intron 50.0%
! CGCTATTTCCCCTTGTCTGA+AGG + Chr2:5820215-5820234 MsG0280006750.01.T01:CDS 50.0%
! TATGGCGCAGATCTCTAGGA+GGG + Chr2:5820623-5820642 MsG0280006750.01.T01:intron 50.0%
!! CAAAGGGGCATTACTCAGTC+AGG + Chr2:5820270-5820289 MsG0280006750.01.T01:CDS 50.0%
!! CTCTAGGAGGGGACAGATTT+TGG + Chr2:5820635-5820654 MsG0280006750.01.T01:intron 50.0%
GATCCCCATGACCAGTGCTA+TGG - Chr2:5820466-5820485 None:intergenic 55.0%
TCATCCTGAGTGGTCCAACC+TGG - Chr2:5820386-5820405 None:intergenic 55.0%
! ATGGCGCAGATCTCTAGGAG+GGG + Chr2:5820624-5820643 MsG0280006750.01.T01:intron 55.0%
! GAAACCAGGTTGGACCACTC+AGG + Chr2:5820379-5820398 MsG0280006750.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 5820074 5821023 5820074 ID=MsG0280006750.01;Name=MsG0280006750.01
Chr2 mRNA 5820074 5821023 5820074 ID=MsG0280006750.01.T01;Parent=MsG0280006750.01;Name=MsG0280006750.01.T01;_AED=0.44;_eAED=0.44;_QI=0|0|0|1|1|1|2|0|286
Chr2 exon 5820074 5820551 5820074 ID=MsG0280006750.01.T01:exon:2356;Parent=MsG0280006750.01.T01
Chr2 exon 5820641 5821023 5820641 ID=MsG0280006750.01.T01:exon:2357;Parent=MsG0280006750.01.T01
Chr2 CDS 5820074 5820551 5820074 ID=MsG0280006750.01.T01:cds;Parent=MsG0280006750.01.T01
Chr2 CDS 5820641 5821023 5820641 ID=MsG0280006750.01.T01:cds;Parent=MsG0280006750.01.T01
Gene Sequence

>MsG0280006750.01.T01

ATGCGCATAAGCTGTGGGGCTCGTCAAAATGTTCAAACGAAACCAACCACTACTCTATGGTATAAAGACTTTGGTTCTACAGGAGGCATACCAGCTAATGCATCTAAAACAAGTTACATTACACCTCCTCTTAAAACTCTTCGCTATTTCCCCTTGTCTGAAGGTCCTTCAAACTGCTACAAGATTAATGGAGTGCCAAAGGGGCATTACTCAGTCAGGATCTTTTTTGGACTTGTTGCACAAGCTAGAGCTACCAACGAACCTCTATTTGACATATCCATACAAGGCACTCAAATATATACTTTGAAACCAGGTTGGACCACTCAGGATGATCAAGCATTTACTGAAGCCCAAGTGTTTCTTATGGACCGTACTGTCTCAATCTGTTTCCATAGCACTGGTCATGGGGATCCAGCTATTCTTTCAATTGAGATTCTTCAAATTGATAGTAAAGCTTATTATTTTGGGTCAAACTGGAGAGGGGACAGATTTTGGCAGCATACTAAAACGTTCGGTCAGGATTCTGACCGACCAAGATCCGTTGAAACTAGAATTAAAAAAACTTCACTTGCACCAAACTTTTATCCAGAAACTCTTTATCGATCAGCACTTGTTAGTACTAGTAGCCAGCCTGATTTATCATATACATTGGATGTGGATCCCAACAAAAACTATTCTATTTGGTTACATTTTGCTGAGATTGATAATTCGGTGCATTCCATAGGTCAAAGGGTCTTTGACATTATGATTAATGGTGATGTTGCCTTTAGAGATGTTGACATTGTGAAATTGAGTGGGGATCGTTTTACTGCCCTTGTGCTTAATAAAACTGTTCCTGTTAATGGGAGGTCTTTAGCATAA
Protein sequence

>MsG0280006750.01.T01

MRISCGARQNVQTKPTTTLWYKDFGSTGGIPANASKTSYITPPLKTLRYFPLSEGPSNCYKINGVPKGHYSVRIFFGLVAQARATNEPLFDISIQGTQIYTLKPGWTTQDDQAFTEAQVFLMDRTVSICFHSTGHGDPAILSIEILQIDSKAYYFGSNWRGDRFWQHTKTFGQDSDRPRSVETRIKKTSLAPNFYPETLYRSALVSTSSQPDLSYTLDVDPNKNYSIWLHFAEIDNSVHSIGQRVFDIMINGDVAFRDVDIVKLSGDRFTALVLNKTVPVNGRSLA*