AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039653.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039653.01.T01 MTR_7g076760 93.557 357 23 0 1 357 1 357 0.0 692
MsG0780039653.01.T01 MTR_4g088845 67.978 356 109 2 1 356 1 351 1.19e-175 497
MsG0780039653.01.T01 MTR_7g076570 68.627 357 103 3 1 357 29 376 4.42e-174 494
MsG0780039653.01.T01 MTR_7g050670 66.854 356 116 1 1 356 1 354 2.39e-173 491
MsG0780039653.01.T01 MTR_0049s0110 23.851 348 228 12 25 348 12 346 4.09e-12 67.4
MsG0780039653.01.T01 MTR_0049s0110 26.519 181 126 4 25 200 12 190 1.25e-11 65.1
MsG0780039653.01.T01 MTR_0049s0110 26.519 181 126 4 25 200 12 190 1.96e-11 65.1
MsG0780039653.01.T01 MTR_0049s0110 26.519 181 126 4 25 200 12 190 2.57e-11 64.7
MsG0780039653.01.T01 MTR_1g013560 22.901 262 162 8 16 264 14 248 6.48e-11 63.5
MsG0780039653.01.T01 MTR_1g021820 26.432 227 148 7 5 219 12 231 8.37e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039653.01.T01 AT1G61330 30.149 335 229 4 26 356 15 348 5.70e-47 166
MsG0780039653.01.T01 AT1G61320 27.811 338 236 7 25 356 25 360 4.77e-37 139

Find 48 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATCAAACTTCATGTAGTTT+TGG 0.210988 7:-67268520 None:intergenic
TTTCTTTGGGAAATTGCTTT+TGG 0.212440 7:-67267734 None:intergenic
TCAAATTCGCAAAGCAATAT+TGG 0.219202 7:-67269371 None:intergenic
CAAGTTGAAAACACTGAAAT+TGG 0.233263 7:+67268148 MsG0780039653.01.T01:CDS
CTACATGAAGTTTGATCATT+TGG 0.273273 7:+67268526 MsG0780039653.01.T01:CDS
TACCAATCAAAGATGCAATA+AGG 0.289516 7:+67267823 MsG0780039653.01.T01:CDS
ATTACAAGGTGAATCGGTTT+TGG 0.317402 7:-67267763 None:intergenic
GCAAACATTGTGATATCATA+TGG 0.322315 7:-67269435 None:intergenic
CAAATTCGCAAAGCAATATT+GGG 0.323631 7:-67269370 None:intergenic
CATAATCGTCAATTCTTGTT+TGG 0.329887 7:+67267888 MsG0780039653.01.T01:CDS
TCCTGTTGGGATTGAAGCTT+TGG 0.333846 7:+67268019 MsG0780039653.01.T01:CDS
ATCCTTATTGCATCTTTGAT+TGG 0.342883 7:-67267825 None:intergenic
TGCAAGCCATTGGGAACGTC+TGG 0.408404 7:-67268191 None:intergenic
TTGAAGCTTTGGTAAGGAAA+TGG 0.411081 7:+67268030 MsG0780039653.01.T01:CDS
TTGCAGAAATTGCAAGCCAT+TGG 0.432338 7:-67268201 None:intergenic
TGCAGAAATTGCAAGCCATT+GGG 0.453050 7:-67268200 None:intergenic
TCAATAGTTCGAATTATTCA+AGG 0.462893 7:+67268458 MsG0780039653.01.T01:CDS
TCGTCAATTCTTGTTTGGTA+AGG 0.464726 7:+67267893 MsG0780039653.01.T01:CDS
TGAAAGATTACAAGGTGAAT+CGG 0.480117 7:-67267769 None:intergenic
ACCAAAGCTTCAATCCCAAC+AGG 0.483189 7:-67268020 None:intergenic
CGAATTGAATAAACGATCAA+TGG 0.487226 7:-67267955 None:intergenic
TGTTACATATCGATCCTGTT+GGG 0.487344 7:+67268006 MsG0780039653.01.T01:CDS
TAGAGGTGTAGTGGTGAGAA+CGG 0.489344 7:-67268579 None:intergenic
GAGCTTCAATTGTTTATGAA+AGG 0.492053 7:+67269396 MsG0780039653.01.T01:CDS
CTTCAATTGTTTATGAAAGG+AGG 0.492437 7:+67269399 MsG0780039653.01.T01:CDS
TTCAATTGTTTATGAAAGGA+GGG 0.511253 7:+67269400 MsG0780039653.01.T01:CDS
CTCCTAGTTACAAAAGATCA+TGG 0.512233 7:+67267862 MsG0780039653.01.T01:CDS
ATGTTACATATCGATCCTGT+TGG 0.516673 7:+67268005 MsG0780039653.01.T01:CDS
CACTACACCTCTACTTATTG+AGG 0.526106 7:+67268589 MsG0780039653.01.T01:CDS
CTCAATAAGTAGAGGTGTAG+TGG 0.529559 7:-67268588 None:intergenic
TTGGGATTGAAGCTTTGGTA+AGG 0.534126 7:+67268024 MsG0780039653.01.T01:CDS
CGTTTATTCAATTCGCACGA+AGG 0.536162 7:+67267963 MsG0780039653.01.T01:CDS
TGGTTTCGATAATTGGCCAT+TGG 0.544210 7:-67267708 None:intergenic
CAATAGTTCGAATTATTCAA+GGG 0.569503 7:+67268459 MsG0780039653.01.T01:CDS
AATTTCAGAGTGTGGCGGCA+AGG 0.572038 7:+67269322 MsG0780039653.01.T01:intron
ATATCCTCTGAAAGATTACA+AGG 0.573506 7:-67267777 None:intergenic
TTCACCTTGTAATCTTTCAG+AGG 0.575767 7:+67267773 MsG0780039653.01.T01:CDS
TGGCGGCAAGGATTCGTGAT+GGG 0.585739 7:+67269334 MsG0780039653.01.T01:CDS
CATTGGGAACGTCTGGACAC+TGG 0.599479 7:-67268184 None:intergenic
CAAACATATCTTTAGTCATG+TGG 0.605774 7:-67268244 None:intergenic
ACATATCTTTAGTCATGTGG+AGG 0.622853 7:-67268241 None:intergenic
GTGGCGGCAAGGATTCGTGA+TGG 0.623364 7:+67269333 MsG0780039653.01.T01:CDS
CAGTGTCCAGACGTTCCCAA+TGG 0.634468 7:+67268185 MsG0780039653.01.T01:CDS
GAATATACCTCAATAAGTAG+AGG 0.639371 7:-67268596 None:intergenic
AATCAACTGTGAAACCAGGT+TGG 0.644451 7:-67268103 None:intergenic
CTTATAATTTCAGAGTGTGG+CGG 0.645885 7:+67269317 MsG0780039653.01.T01:intron
TTAAAATCAACTGTGAAACC+AGG 0.680903 7:-67268107 None:intergenic
GTTACAAATATGCACTCACA+AGG 0.693702 7:+67268052 MsG0780039653.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCAAAAAATTAAAAATTGT+AGG + Chr7:67268365-67268384 MsG0780039653.01.T01:CDS 10.0%
!!! TTAATTAAACAACTATTTTT+GGG + Chr7:67268746-67268765 MsG0780039653.01.T01:intron 10.0%
!! TATATTTCTTTGTATATCTT+TGG - Chr7:67268788-67268807 None:intergenic 15.0%
!!! AGTCAACTTTTTTTATAAAT+AGG - Chr7:67268942-67268961 None:intergenic 15.0%
!!! ATAACAAGTTATAATTTGTA+TGG - Chr7:67268669-67268688 None:intergenic 15.0%
!!! GTTAATTAAACAACTATTTT+TGG + Chr7:67268745-67268764 MsG0780039653.01.T01:intron 15.0%
!! ACAAAGAAATATATTTCCTT+TGG + Chr7:67268795-67268814 MsG0780039653.01.T01:intron 20.0%
!! GTTCAATTTCTTAATATAAC+CGG + Chr7:67269097-67269116 MsG0780039653.01.T01:intron 20.0%
!! TAAAAAATTGAATGAAGAGT+TGG - Chr7:67268425-67268444 None:intergenic 20.0%
!!! AATTATAAGGTTTGATAGTT+AGG - Chr7:67269306-67269325 None:intergenic 20.0%
!!! ACTTTTTTTATAAATAGGAC+CGG - Chr7:67268937-67268956 None:intergenic 20.0%
!!! ATCAATGAACAATTTTTCTA+AGG - Chr7:67269475-67269494 None:intergenic 20.0%
!!! CTTCATTCAATTTTTTATCA+TGG + Chr7:67268428-67268447 MsG0780039653.01.T01:CDS 20.0%
!!! TATTTTCTTATAAATGTGAC+CGG + Chr7:67269126-67269145 MsG0780039653.01.T01:intron 20.0%
!!! TTAATAATAAAGGCATCATT+TGG - Chr7:67268718-67268737 None:intergenic 20.0%
! AACACACCTCTTAATAATAA+AGG - Chr7:67268728-67268747 None:intergenic 25.0%
! ATGATGCCTTTATTATTAAG+AGG + Chr7:67268719-67268738 MsG0780039653.01.T01:intron 25.0%
! ATGTTAATACATACTCTATC+CGG - Chr7:67269148-67269167 None:intergenic 25.0%
! ATGTTTCTTATAATAGTGAC+CGG + Chr7:67269045-67269064 MsG0780039653.01.T01:intron 25.0%
! CAATAGTTCGAATTATTCAA+GGG + Chr7:67268459-67268478 MsG0780039653.01.T01:CDS 25.0%
! CATTAAATAACTTATGTACC+TGG + Chr7:67268852-67268871 MsG0780039653.01.T01:intron 25.0%
! CATTGAGTAATTAATGTACT+TGG + Chr7:67268971-67268990 MsG0780039653.01.T01:intron 25.0%
! TCAATAGTTCGAATTATTCA+AGG + Chr7:67268458-67268477 MsG0780039653.01.T01:CDS 25.0%
! TTATAAGAAAATACTCTCTC+CGG - Chr7:67269119-67269138 None:intergenic 25.0%
! TTCAATTGTTTATGAAAGGA+GGG + Chr7:67269400-67269419 MsG0780039653.01.T01:CDS 25.0%
!! ATCAAACTTCATGTAGTTTT+GGG - Chr7:67268522-67268541 None:intergenic 25.0%
!!! ATGAACAATTTTTCTAAGGA+TGG - Chr7:67269471-67269490 None:intergenic 25.0%
!!! GTTTTGGTTTTCTTTTCTTT+GGG - Chr7:67267750-67267769 None:intergenic 25.0%
AACCTTATAATTTCAGAGTG+TGG + Chr7:67269314-67269333 MsG0780039653.01.T01:intron 30.0%
ATCCTTATTGCATCTTTGAT+TGG - Chr7:67267828-67267847 None:intergenic 30.0%
CAAACATATCTTTAGTCATG+TGG - Chr7:67268247-67268266 None:intergenic 30.0%
CAAATTCGCAAAGCAATATT+GGG - Chr7:67269373-67269392 None:intergenic 30.0%
CATAATCGTCAATTCTTGTT+TGG + Chr7:67267888-67267907 MsG0780039653.01.T01:CDS 30.0%
CGAATTGAATAAACGATCAA+TGG - Chr7:67267958-67267977 None:intergenic 30.0%
CTACATGAAGTTTGATCATT+TGG + Chr7:67268526-67268545 MsG0780039653.01.T01:CDS 30.0%
CTTCAATTGTTTATGAAAGG+AGG + Chr7:67269399-67269418 MsG0780039653.01.T01:CDS 30.0%
GAATATACCTCAATAAGTAG+AGG - Chr7:67268599-67268618 None:intergenic 30.0%
GAGCTTCAATTGTTTATGAA+AGG + Chr7:67269396-67269415 MsG0780039653.01.T01:CDS 30.0%
GCAAACATTGTGATATCATA+TGG - Chr7:67269438-67269457 None:intergenic 30.0%
TACCAATCAAAGATGCAATA+AGG + Chr7:67267823-67267842 MsG0780039653.01.T01:CDS 30.0%
TCAAATTCGCAAAGCAATAT+TGG - Chr7:67269374-67269393 None:intergenic 30.0%
TCTGCATTATAATATTGTCC+AGG - Chr7:67268873-67268892 None:intergenic 30.0%
TGAAAGATTACAAGGTGAAT+CGG - Chr7:67267772-67267791 None:intergenic 30.0%
TTAAAATCAACTGTGAAACC+AGG - Chr7:67268110-67268129 None:intergenic 30.0%
TTGCTTATAAATGTGACCAA+AGG - Chr7:67268814-67268833 None:intergenic 30.0%
! ATATCCTCTGAAAGATTACA+AGG - Chr7:67267780-67267799 None:intergenic 30.0%
! CAAGTTGAAAACACTGAAAT+TGG + Chr7:67268148-67268167 MsG0780039653.01.T01:CDS 30.0%
! CAATTTCAGTGTTTTCAACT+TGG - Chr7:67268150-67268169 None:intergenic 30.0%
! GATCAAACTTCATGTAGTTT+TGG - Chr7:67268523-67268542 None:intergenic 30.0%
! TTACGTTATGCTCTTACTTT+TGG - Chr7:67269234-67269253 None:intergenic 30.0%
! TTTTTATAAATAGGACCGGA+GGG - Chr7:67268933-67268952 None:intergenic 30.0%
!! TACGTTATGCTCTTACTTTT+GGG - Chr7:67269233-67269252 None:intergenic 30.0%
!! TTCTAAGGATGGACAATTTT+TGG - Chr7:67269460-67269479 None:intergenic 30.0%
!! TTTCTTTGGGAAATTGCTTT+TGG - Chr7:67267737-67267756 None:intergenic 30.0%
!!! GGTTTTGGTTTTCTTTTCTT+TGG - Chr7:67267751-67267770 None:intergenic 30.0%
!!! TTGGTTTTGGTTTCGATAAT+TGG - Chr7:67267718-67267737 None:intergenic 30.0%
!!! TTTTTTATAAATAGGACCGG+AGG - Chr7:67268934-67268953 None:intergenic 30.0%
ACATATCTTTAGTCATGTGG+AGG - Chr7:67268244-67268263 None:intergenic 35.0%
ATGTTACATATCGATCCTGT+TGG + Chr7:67268005-67268024 MsG0780039653.01.T01:CDS 35.0%
CTCCTAGTTACAAAAGATCA+TGG + Chr7:67267862-67267881 MsG0780039653.01.T01:CDS 35.0%
CTTATAATTTCAGAGTGTGG+CGG + Chr7:67269317-67269336 MsG0780039653.01.T01:intron 35.0%
GAGAAAATAAATACTCCCTC+CGG - Chr7:67269067-67269086 None:intergenic 35.0%
GTTACAAATATGCACTCACA+AGG + Chr7:67268052-67268071 MsG0780039653.01.T01:CDS 35.0%
TGTTACATATCGATCCTGTT+GGG + Chr7:67268006-67268025 MsG0780039653.01.T01:CDS 35.0%
TTCACCTTGTAATCTTTCAG+AGG + Chr7:67267773-67267792 MsG0780039653.01.T01:CDS 35.0%
TTCTTATAATAGTGACCGGA+GGG + Chr7:67269049-67269068 MsG0780039653.01.T01:intron 35.0%
TTTCTTATAATAGTGACCGG+AGG + Chr7:67269048-67269067 MsG0780039653.01.T01:intron 35.0%
! TCGTCAATTCTTGTTTGGTA+AGG + Chr7:67267893-67267912 MsG0780039653.01.T01:CDS 35.0%
! TTGAAGCTTTGGTAAGGAAA+TGG + Chr7:67268030-67268049 MsG0780039653.01.T01:CDS 35.0%
!! ATTACAAGGTGAATCGGTTT+TGG - Chr7:67267766-67267785 None:intergenic 35.0%
!!! AACTTCATGTAGTTTTGGGA+AGG - Chr7:67268518-67268537 None:intergenic 35.0%
!!! TGGGAAATTGCTTTTGGTTT+TGG - Chr7:67267731-67267750 None:intergenic 35.0%
AATCAACTGTGAAACCAGGT+TGG - Chr7:67268106-67268125 None:intergenic 40.0%
CACTACACCTCTACTTATTG+AGG + Chr7:67268589-67268608 MsG0780039653.01.T01:CDS 40.0%
CGTTTATTCAATTCGCACGA+AGG + Chr7:67267963-67267982 MsG0780039653.01.T01:CDS 40.0%
TGCAGAAATTGCAAGCCATT+GGG - Chr7:67268203-67268222 None:intergenic 40.0%
TTGCAGAAATTGCAAGCCAT+TGG - Chr7:67268204-67268223 None:intergenic 40.0%
! CGCCATGATCTTTTGTAACT+AGG - Chr7:67267867-67267886 None:intergenic 40.0%
! CTCAATAAGTAGAGGTGTAG+TGG - Chr7:67268591-67268610 None:intergenic 40.0%
! GAGTTGCATTTTTACCAACC+TGG + Chr7:67268089-67268108 MsG0780039653.01.T01:CDS 40.0%
! TTGGGATTGAAGCTTTGGTA+AGG + Chr7:67268024-67268043 MsG0780039653.01.T01:CDS 40.0%
!! CGCCACACTCTGAAATTATA+AGG - Chr7:67269319-67269338 None:intergenic 40.0%
ACCAAAGCTTCAATCCCAAC+AGG - Chr7:67268023-67268042 None:intergenic 45.0%
TCCTGTTGGGATTGAAGCTT+TGG + Chr7:67268019-67268038 MsG0780039653.01.T01:CDS 45.0%
TGAAAAAGCAATGCTCCCTC+CGG + Chr7:67268915-67268934 MsG0780039653.01.T01:intron 45.0%
! TAGAGGTGTAGTGGTGAGAA+CGG - Chr7:67268582-67268601 None:intergenic 45.0%
AATTTCAGAGTGTGGCGGCA+AGG + Chr7:67269322-67269341 MsG0780039653.01.T01:intron 50.0%
CAGTGTCCAGACGTTCCCAA+TGG + Chr7:67268185-67268204 MsG0780039653.01.T01:CDS 55.0%
CATTGGGAACGTCTGGACAC+TGG - Chr7:67268187-67268206 None:intergenic 55.0%
TGCAAGCCATTGGGAACGTC+TGG - Chr7:67268194-67268213 None:intergenic 55.0%
TGGCGGCAAGGATTCGTGAT+GGG + Chr7:67269334-67269353 MsG0780039653.01.T01:CDS 55.0%
GTGGCGGCAAGGATTCGTGA+TGG + Chr7:67269333-67269352 MsG0780039653.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 67267711 67269527 67267711 ID=MsG0780039653.01;Name=MsG0780039653.01
Chr7 mRNA 67267711 67269527 67267711 ID=MsG0780039653.01.T01;Parent=MsG0780039653.01;Name=MsG0780039653.01.T01;_AED=0.50;_eAED=0.51;_QI=0|0|0|1|1|1|2|0|365
Chr7 exon 67267711 67268610 67267711 ID=MsG0780039653.01.T01:exon:13577;Parent=MsG0780039653.01.T01
Chr7 exon 67269330 67269527 67269330 ID=MsG0780039653.01.T01:exon:13578;Parent=MsG0780039653.01.T01
Chr7 CDS 67267711 67268610 67267711 ID=MsG0780039653.01.T01:cds;Parent=MsG0780039653.01.T01
Chr7 CDS 67269330 67269527 67269330 ID=MsG0780039653.01.T01:cds;Parent=MsG0780039653.01.T01
Gene Sequence

>MsG0780039653.01.T01

ATGGCCAATTATCGAAACCAAAACCAAAAGCAATTTCCCAAAGAAAAGAAAACCAAAACCGATTCACCTTGTAATCTTTCAGAGGATATCATTCAACACATTTTCACTTTTTTACCAATCAAAGATGCAATAAGGATTGCATCAACTATGTCTCCTAGTTACAAAAGATCATGGCGTCATAATCGTCAATTCTTGTTTGGTAAGGACTTCTATTTTCGATACACTCAACGATATCAAGCTGCAACCATTGATCGTTTATTCAATTCGCACGAAGGTGCAAAAATTAAATCATTTATGTTACATATCGATCCTGTTGGGATTGAAGCTTTGGTAAGGAAATGGTTACAAATATGCACTCACAAGGATCTAGAAGATCTTGAGTTGCATTTTTACCAACCTGGTTTCACAGTTGATTTTAATGTTTTTAATGCACTATCCAAGTTGAAAACACTGAAATTGGTTAAATGTGCGATCCAGTGTCCAGACGTTCCCAATGGCTTGCAATTTCTGCAAACGTTAAGTCTATGTAACCTCCACATGACTAAAGATATGTTTGATGTATTGATTAAGCATTGTAAAATGCTTAATGCTATTGATTTGATTAATTGCTCTACAATTAAGAAATTGAACATAATTGCTAGAGAAAATAAATATTTCAAAAAATTAAAAATTGTAGGCTGTCGAGATTTGAAAGAGATTGAAATTGATTCACCAACTCTTCATTCAATTTTTTATCATGGAAAATTTTCAATAGTTCGAATTATTCAAGGGATGCAATTGTATGAAGCTTTCTTTTACTTTATACCTTCCCAAAACTACATGAAGTTTGATCATTTGGAAGCTCTAGTCAAAGATCTCTCGCATGTCTCCGTTCTCACCACTACACCTCTACTTATTGAGAGTGTGGCGGCAAGGATTCGTGATGGGATATATCAAGAAGCCCAATATTGCTTTGCGAATTTGATTGAGCTTCAATTGTTTATGAAAGGAGGGATGTCTTGCAATCCATATGATATCACAATGTTTGCCAAAAATTGTCCATCCTTAGAAAAATTGTTCATTGATGTAAGTACAACTAATTCATTCTCAAATAACTAG
Protein sequence

>MsG0780039653.01.T01

MANYRNQNQKQFPKEKKTKTDSPCNLSEDIIQHIFTFLPIKDAIRIASTMSPSYKRSWRHNRQFLFGKDFYFRYTQRYQAATIDRLFNSHEGAKIKSFMLHIDPVGIEALVRKWLQICTHKDLEDLELHFYQPGFTVDFNVFNALSKLKTLKLVKCAIQCPDVPNGLQFLQTLSLCNLHMTKDMFDVLIKHCKMLNAIDLINCSTIKKLNIIARENKYFKKLKIVGCRDLKEIEIDSPTLHSIFYHGKFSIVRIIQGMQLYEAFFYFIPSQNYMKFDHLEALVKDLSHVSVLTTTPLLIESVAARIRDGIYQEAQYCFANLIELQLFMKGGMSCNPYDITMFAKNCPSLEKLFIDVSTTNSFSNN*