AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000452.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000452.01.T01 MTR_1g015650 95.510 245 3 3 12 254 57 295 2.13e-165 459
MsG0180000452.01.T01 MTR_3g105210 55.758 165 58 4 12 175 2 152 9.19e-54 172
MsG0180000452.01.T01 MTR_4g125330 41.916 167 78 7 77 233 66 223 3.39e-23 94.7
MsG0180000452.01.T01 MTR_1g045430 41.860 86 44 3 52 137 48 127 5.93e-14 68.6
MsG0180000452.01.T01 MTR_1g009640 43.023 86 44 2 52 137 52 132 6.74e-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
MsG0180000452.01.T01 AT5G21940 54.015 137 50 6 46 176 44 173 9.12e-33 120
MsG0180000452.01.T01 AT3G43850 49.606 127 38 5 46 172 30 130 6.84e-27 103
MsG0180000452.01.T01 AT3G43850 50.000 142 43 6 33 172 15 130 1.59e-26 104

Find 44 sgRNAs with CRISPR-Local

Find 107 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTTGTATATTTATAATAA+TGG 0.261116 1:-6247871 None:intergenic
TAGAAGAGGTTCTTCCTATT+AGG 0.287448 1:+6248190 MsG0180000452.01.T01:CDS
GCCACTTCCACCGCGTCATC+CGG 0.302841 1:+6249574 MsG0180000452.01.T01:CDS
ATAAGGAATGGTTACCTAAT+AGG 0.349508 1:-6248204 None:intergenic
CTTCTTGTGTATGCATTCTC+TGG 0.380516 1:-6249341 None:intergenic
AATTTGCTGGCTTTCAATCA+TGG 0.423862 1:+6249371 MsG0180000452.01.T01:CDS
AAGAAGACGTAGAAATTTGC+TGG 0.426140 1:+6249358 MsG0180000452.01.T01:CDS
GCTGGCTTTCAATCATGGTT+GGG 0.432602 1:+6249376 MsG0180000452.01.T01:CDS
AGTATCTCAAACTTCTATAG+TGG 0.435354 1:+6249251 MsG0180000452.01.T01:CDS
AAAGAAGACACTCTATTTCC+CGG 0.439102 1:-6249593 None:intergenic
CGCGGTGGAAGTGGCGAAGA+AGG 0.445270 1:-6249566 None:intergenic
GAAGCTGAGAGTAAATATAA+TGG 0.445348 1:+6248141 MsG0180000452.01.T01:CDS
TGCTGGCTTTCAATCATGGT+TGG 0.445425 1:+6249375 MsG0180000452.01.T01:CDS
TTCCCTTTGAGAAGCAATAG+TGG 0.449201 1:+6249413 MsG0180000452.01.T01:CDS
CCCGGATGACGCGGTGGAAG+TGG 0.453467 1:-6249575 None:intergenic
AGCTAGGCTTGTGAAGGACT+TGG 0.454561 1:-6249279 None:intergenic
CACCACTATTGCTTCTCAAA+GGG 0.472099 1:-6249415 None:intergenic
CTGTGTTATTTGACGCGCCG+AGG 0.485567 1:+6247989 MsG0180000452.01.T01:CDS
CCACCACTATTGCTTCTCAA+AGG 0.509782 1:-6249416 None:intergenic
TGTGTTATTTGACGCGCCGA+GGG 0.520967 1:+6247990 MsG0180000452.01.T01:CDS
CCACTTCCACCGCGTCATCC+GGG 0.531769 1:+6249575 MsG0180000452.01.T01:CDS
AGAAGGTGCTGAAGAATATG+AGG 0.542161 1:-6249549 None:intergenic
GAGAGATCAATGGATGAGAA+TGG 0.545446 1:+6248111 MsG0180000452.01.T01:CDS
GAAAAGAAATTCCTCTGCAA+AGG 0.546535 1:-6249623 None:intergenic
TGGTGGTGCTTTAGATTGCA+TGG 0.548478 1:+6248161 MsG0180000452.01.T01:CDS
GTATATTTATAATAATGGAA+AGG 0.553135 1:-6247866 None:intergenic
GATGATTATGGAGCTTGAAA+CGG 0.556496 1:+6247936 MsG0180000452.01.T01:exon
AACGGTGGCGATTAAGCGCG+TGG 0.559763 1:+6247954 MsG0180000452.01.T01:CDS
CTTTAGCATCTCCTTTGCAG+AGG 0.570257 1:+6249612 MsG0180000452.01.T01:CDS
GGTTTCATCAGAGAGATCAA+TGG 0.590893 1:+6248101 MsG0180000452.01.T01:CDS
TCATCATCGTCATGATCCCT+CGG 0.599874 1:-6248006 None:intergenic
CCTTTGAGAAGCAATAGTGG+TGG 0.600401 1:+6249416 MsG0180000452.01.T01:CDS
TTGCATGGAAGCTTTAGAAG+AGG 0.606872 1:+6248176 MsG0180000452.01.T01:CDS
CTATTTCCCGGATGACGCGG+TGG 0.613883 1:-6249581 None:intergenic
ACAATGATGCAGATCAGCCA+AGG 0.617708 1:-6249645 None:intergenic
AACATCAGCTAGGCTTGTGA+AGG 0.619105 1:-6249285 None:intergenic
ACGACGTCGTCTTCATCGAT+CGG 0.620053 1:+6248054 MsG0180000452.01.T01:CDS
GTGTTGTGACAACATCAGCT+AGG 0.640480 1:-6249295 None:intergenic
AAATAGTGATGATGATGATG+AGG 0.659114 1:+6248080 MsG0180000452.01.T01:CDS
ACTCTATTTCCCGGATGACG+CGG 0.665825 1:-6249584 None:intergenic
GCTGAGAGTAAATATAATGG+TGG 0.695812 1:+6248144 MsG0180000452.01.T01:CDS
TGATGATGATGATCAAGGGA+AGG 0.697875 1:+6248023 MsG0180000452.01.T01:CDS
GATTATGGAGCTTGAAACGG+TGG 0.699571 1:+6247939 MsG0180000452.01.T01:CDS
ACGGTGGCGATTAAGCGCGT+GGG 0.700701 1:+6247955 MsG0180000452.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTATATCAAAATTTACTA+TGG + Chr1:6249123-6249142 MsG0180000452.01.T01:intron 10.0%
!! TGTTTGTATATTTATAATAA+TGG - Chr1:6247874-6247893 None:intergenic 10.0%
!!! AAAGATTGTATATTTTTTTT+TGG + Chr1:6248449-6248468 MsG0180000452.01.T01:intron 10.0%
!!! AAGATTGTATATTTTTTTTT+GGG + Chr1:6248450-6248469 MsG0180000452.01.T01:intron 10.0%
!! GGTATTAGTTAAATTAATTA+GGG + Chr1:6248521-6248540 MsG0180000452.01.T01:intron 15.0%
!!! AATATTGCCTTTTTTATTTT+TGG + Chr1:6248916-6248935 MsG0180000452.01.T01:intron 15.0%
!!! AATTTTGCTAAAAATAGTAA+GGG + Chr1:6248723-6248742 MsG0180000452.01.T01:intron 15.0%
!!! GTATATTTATAATAATGGAA+AGG - Chr1:6247869-6247888 None:intergenic 15.0%
!!! TTTTTTAAATGTTTTAAGCA+GGG + Chr1:6248414-6248433 MsG0180000452.01.T01:intron 15.0%
!!! TTTTTTTAAATGTTTTAAGC+AGG + Chr1:6248413-6248432 MsG0180000452.01.T01:intron 15.0%
!! AAAAGTTTGTGAATGAAATT+TGG + Chr1:6248573-6248592 MsG0180000452.01.T01:intron 20.0%
!! GGGTATTAGTTAAATTAATT+AGG + Chr1:6248520-6248539 MsG0180000452.01.T01:intron 20.0%
!! TAATGGAAAAACTGTTAATA+AGG - Chr1:6248224-6248243 None:intergenic 20.0%
!! TGATATAAATCTACACAATT+TGG - Chr1:6249113-6249132 None:intergenic 20.0%
!!! ATTAGTGTTCTAAATAATGA+AGG + Chr1:6249197-6249216 MsG0180000452.01.T01:intron 20.0%
!!! GAATTTTGCTAAAAATAGTA+AGG + Chr1:6248722-6248741 MsG0180000452.01.T01:intron 20.0%
!!! GTTGTATTTTAGTTATCATA+AGG - Chr1:6249749-6249768 None:intergenic 20.0%
!!! TCATTTTCAATTGAAGAATT+TGG - Chr1:6249695-6249714 None:intergenic 20.0%
!!! TCTTTTCATTTTGATGATTA+TGG + Chr1:6247924-6247943 MsG0180000452.01.T01:exon 20.0%
! ATCCAATTCAAAAGTTTATC+CGG - Chr1:6248881-6248900 None:intergenic 25.0%
! GAAAAACTGTTAATAAGGAA+TGG - Chr1:6248219-6248238 None:intergenic 25.0%
! TCCTCAACCAAAAATAAAAA+AGG - Chr1:6248926-6248945 None:intergenic 25.0%
! TGTTTCAGTTTCACAAAATT+AGG + Chr1:6248681-6248700 MsG0180000452.01.T01:intron 25.0%
!! AATTGTTGGATCAATTTTTG+TGG + Chr1:6248498-6248517 MsG0180000452.01.T01:intron 25.0%
!! AATTTGGTGATTGTATTGTA+AGG + Chr1:6248589-6248608 MsG0180000452.01.T01:intron 25.0%
!! ATTAATTAGGGTACTATTGT+TGG + Chr1:6248533-6248552 MsG0180000452.01.T01:intron 25.0%
!! ATTGTTGGATCAATTTTTGT+GGG + Chr1:6248499-6248518 MsG0180000452.01.T01:intron 25.0%
!! ATTTTGTGAAACTGAAACAA+AGG - Chr1:6248680-6248699 None:intergenic 25.0%
!! CTTTTGATAGAAGAAAACTT+GGG + Chr1:6248822-6248841 MsG0180000452.01.T01:intron 25.0%
!! GGTATTAGTTAAATTAGCTT+GGG + Chr1:6248471-6248490 MsG0180000452.01.T01:intron 25.0%
!! TTTACAATGTCTTTTACAGA+TGG - Chr1:6249320-6249339 None:intergenic 25.0%
!! TTTTGTGAAACTGAAACAAA+GGG - Chr1:6248679-6248698 None:intergenic 25.0%
!!! ATTTTTAGCAAAATTCCACA+TGG - Chr1:6248718-6248737 None:intergenic 25.0%
!!! TAAGGTTTTATACACTATGA+TGG - Chr1:6249731-6249750 None:intergenic 25.0%
AGTATCTCAAACTTCTATAG+TGG + Chr1:6249251-6249270 MsG0180000452.01.T01:CDS 30.0%
ATAAGGAATGGTTACCTAAT+AGG - Chr1:6248207-6248226 None:intergenic 30.0%
CTAAAGAACATGTTTGCAAT+TGG + Chr1:6248851-6248870 MsG0180000452.01.T01:intron 30.0%
GAAGCTGAGAGTAAATATAA+TGG + Chr1:6248141-6248160 MsG0180000452.01.T01:CDS 30.0%
GGGTATTAGTTAAATTAGCT+TGG + Chr1:6248470-6248489 MsG0180000452.01.T01:intron 30.0%
GTTTGAATCAACTTTCATTC+TGG - Chr1:6249084-6249103 None:intergenic 30.0%
GTTTGGTACTTGTTTGTAAA+TGG + Chr1:6248971-6248990 MsG0180000452.01.T01:intron 30.0%
TGACACGAAAATGCAAAAAA+TGG - Chr1:6247900-6247919 None:intergenic 30.0%
TTACAAACAAGTACCAAACA+AGG - Chr1:6248970-6248989 None:intergenic 30.0%
! AAATAGTGATGATGATGATG+AGG + Chr1:6248080-6248099 MsG0180000452.01.T01:CDS 30.0%
! AAGGCTAATCCAATCTTTTA+TGG + Chr1:6249216-6249235 MsG0180000452.01.T01:intron 30.0%
! GCTTTTGATAGAAGAAAACT+TGG + Chr1:6248821-6248840 MsG0180000452.01.T01:intron 30.0%
! TAATTCATGTTTGCCTTGTT+TGG + Chr1:6248954-6248973 MsG0180000452.01.T01:intron 30.0%
! TACCGGATAAACTTTTGAAT+TGG + Chr1:6248876-6248895 MsG0180000452.01.T01:intron 30.0%
! TTGTTGGATCAATTTTTGTG+GGG + Chr1:6248500-6248519 MsG0180000452.01.T01:intron 30.0%
!!! GCCTTTTTTATTTTTGGTTG+AGG + Chr1:6248922-6248941 MsG0180000452.01.T01:intron 30.0%
!!! TAGGTTTATTTTGTACCATG+TGG + Chr1:6248700-6248719 MsG0180000452.01.T01:intron 30.0%
AAAGAAGACACTCTATTTCC+CGG - Chr1:6249596-6249615 None:intergenic 35.0%
AAGAAGACGTAGAAATTTGC+TGG + Chr1:6249358-6249377 MsG0180000452.01.T01:CDS 35.0%
CAACGTGATTGTATAGTTTC+GGG + Chr1:6249020-6249039 MsG0180000452.01.T01:intron 35.0%
CCAAAACATGACGAATTCAT+TGG - Chr1:6248775-6248794 None:intergenic 35.0%
CCTGCATAACCATAAAAGAT+TGG - Chr1:6249228-6249247 None:intergenic 35.0%
GAAAAGAAATTCCTCTGCAA+AGG - Chr1:6249626-6249645 None:intergenic 35.0%
GATGATTATGGAGCTTGAAA+CGG + Chr1:6247936-6247955 MsG0180000452.01.T01:exon 35.0%
GCAACGTGATTGTATAGTTT+CGG + Chr1:6249019-6249038 MsG0180000452.01.T01:intron 35.0%
GCATGATTGAAGCTTACAAA+AGG - Chr1:6248803-6248822 None:intergenic 35.0%
GCTGAGAGTAAATATAATGG+TGG + Chr1:6248144-6248163 MsG0180000452.01.T01:CDS 35.0%
TAGAAGAGGTTCTTCCTATT+AGG + Chr1:6248190-6248209 MsG0180000452.01.T01:CDS 35.0%
! ACGATGATGATGATGATCAA+GGG + Chr1:6248019-6248038 MsG0180000452.01.T01:CDS 35.0%
! CATTTTCATTGTTGCAGCAA+TGG - Chr1:6249672-6249691 None:intergenic 35.0%
! CCAATCTTTTATGGTTATGC+AGG + Chr1:6249225-6249244 MsG0180000452.01.T01:intron 35.0%
! CCAATGAATTCGTCATGTTT+TGG + Chr1:6248772-6248791 MsG0180000452.01.T01:intron 35.0%
! TGTGTGATGATGTGATCTAT+AGG + Chr1:6248633-6248652 MsG0180000452.01.T01:intron 35.0%
! TTAGCTTGGGTACTAATTGT+TGG + Chr1:6248484-6248503 MsG0180000452.01.T01:intron 35.0%
!! AATTTGCTGGCTTTCAATCA+TGG + Chr1:6249371-6249390 MsG0180000452.01.T01:CDS 35.0%
ATCACATCATCACACACTAC+TGG - Chr1:6248629-6248648 None:intergenic 40.0%
CACCACTATTGCTTCTCAAA+GGG - Chr1:6249418-6249437 None:intergenic 40.0%
CATGTTTGCAATTGGTGTAC+CGG + Chr1:6248859-6248878 MsG0180000452.01.T01:intron 40.0%
CTGTGAGTTTGACGATATCA+CGG + Chr1:6248994-6249013 MsG0180000452.01.T01:intron 40.0%
CTTCTTGTGTATGCATTCTC+TGG - Chr1:6249344-6249363 None:intergenic 40.0%
GAGAGATCAATGGATGAGAA+TGG + Chr1:6248111-6248130 MsG0180000452.01.T01:CDS 40.0%
GGTTTCATCAGAGAGATCAA+TGG + Chr1:6248101-6248120 MsG0180000452.01.T01:CDS 40.0%
! GACGATGATGATGATGATCA+AGG + Chr1:6248018-6248037 MsG0180000452.01.T01:CDS 40.0%
! GCAGAGGAATTTCTTTTCCT+TGG + Chr1:6249628-6249647 MsG0180000452.01.T01:CDS 40.0%
! TGATGATGATGATCAAGGGA+AGG + Chr1:6248023-6248042 MsG0180000452.01.T01:CDS 40.0%
! TTCCCTTTGAGAAGCAATAG+TGG + Chr1:6249413-6249432 MsG0180000452.01.T01:CDS 40.0%
!! AGAAGGTGCTGAAGAATATG+AGG - Chr1:6249552-6249571 None:intergenic 40.0%
!! TTGCATGGAAGCTTTAGAAG+AGG + Chr1:6248176-6248195 MsG0180000452.01.T01:CDS 40.0%
AACATCAGCTAGGCTTGTGA+AGG - Chr1:6249288-6249307 None:intergenic 45.0%
ACAATGATGCAGATCAGCCA+AGG - Chr1:6249648-6249667 None:intergenic 45.0%
CCACCACTATTGCTTCTCAA+AGG - Chr1:6249419-6249438 None:intergenic 45.0%
CTTTAGCATCTCCTTTGCAG+AGG + Chr1:6249612-6249631 MsG0180000452.01.T01:CDS 45.0%
GATTATGGAGCTTGAAACGG+TGG + Chr1:6247939-6247958 MsG0180000452.01.T01:CDS 45.0%
GTGTTGTGACAACATCAGCT+AGG - Chr1:6249298-6249317 None:intergenic 45.0%
TCATCATCGTCATGATCCCT+CGG - Chr1:6248009-6248028 None:intergenic 45.0%
TGAGTTTGACGATATCACGG+TGG + Chr1:6248997-6249016 MsG0180000452.01.T01:intron 45.0%
! CCTTTGAGAAGCAATAGTGG+TGG + Chr1:6249416-6249435 MsG0180000452.01.T01:CDS 45.0%
! TGGTGGTGCTTTAGATTGCA+TGG + Chr1:6248161-6248180 MsG0180000452.01.T01:CDS 45.0%
!! GCTGGCTTTCAATCATGGTT+GGG + Chr1:6249376-6249395 MsG0180000452.01.T01:CDS 45.0%
!! TGCTGGCTTTCAATCATGGT+TGG + Chr1:6249375-6249394 MsG0180000452.01.T01:CDS 45.0%
!! AACAATAAATATATATATAA+TGG - Chr1:6248241-6248260 None:intergenic 5.0%
ACGACGTCGTCTTCATCGAT+CGG + Chr1:6248054-6248073 MsG0180000452.01.T01:CDS 50.0%
ACTCTATTTCCCGGATGACG+CGG - Chr1:6249587-6249606 None:intergenic 50.0%
AGCTAGGCTTGTGAAGGACT+TGG - Chr1:6249282-6249301 None:intergenic 50.0%
!! TGTGTTATTTGACGCGCCGA+GGG + Chr1:6247990-6248009 MsG0180000452.01.T01:CDS 50.0%
!! CTGTGTTATTTGACGCGCCG+AGG + Chr1:6247989-6248008 MsG0180000452.01.T01:CDS 55.0%
AACGGTGGCGATTAAGCGCG+TGG + Chr1:6247954-6247973 MsG0180000452.01.T01:CDS 60.0%
ACGGTGGCGATTAAGCGCGT+GGG + Chr1:6247955-6247974 MsG0180000452.01.T01:CDS 60.0%
CTATTTCCCGGATGACGCGG+TGG - Chr1:6249584-6249603 None:intergenic 60.0%
CCACTTCCACCGCGTCATCC+GGG + Chr1:6249575-6249594 MsG0180000452.01.T01:CDS 65.0%
CGCGGTGGAAGTGGCGAAGA+AGG - Chr1:6249569-6249588 None:intergenic 65.0%
GCCACTTCCACCGCGTCATC+CGG + Chr1:6249574-6249593 MsG0180000452.01.T01:CDS 65.0%
CCCGGATGACGCGGTGGAAG+TGG - Chr1:6249578-6249597 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr1 gene 6247819 6249787 6247819 ID=MsG0180000452.01;Name=MsG0180000452.01
Chr1 mRNA 6247819 6249787 6247819 ID=MsG0180000452.01.T01;Parent=MsG0180000452.01;Name=MsG0180000452.01.T01;_AED=0.49;_eAED=0.49;_QI=118|1|1|1|1|1|2|51|254
Chr1 exon 6249247 6249787 6249247 ID=MsG0180000452.01.T01:exon:27958;Parent=MsG0180000452.01.T01
Chr1 exon 6247819 6248211 6247819 ID=MsG0180000452.01.T01:exon:27957;Parent=MsG0180000452.01.T01
Chr1 five_prime_UTR 6247819 6247936 6247819 ID=MsG0180000452.01.T01:five_prime_utr;Parent=MsG0180000452.01.T01
Chr1 CDS 6247937 6248211 6247937 ID=MsG0180000452.01.T01:cds;Parent=MsG0180000452.01.T01
Chr1 CDS 6249247 6249736 6249247 ID=MsG0180000452.01.T01:cds;Parent=MsG0180000452.01.T01
Chr1 three_prime_UTR 6249737 6249787 6249737 ID=MsG0180000452.01.T01:three_prime_utr;Parent=MsG0180000452.01.T01
Gene Sequence

>MsG0180000452.01.T01

ATGATTATGGAGCTTGAAACGGTGGCGATTAAGCGCGTGGGTTCACGTACTTCTGTGTTATTTGACGCGCCGAGGGATCATGACGATGATGATGATGATCAAGGGAAGGTGTGTAGTACGACGTCGTCTTCATCGATCGGAAGAAATAGTGATGATGATGATGAGGTTTCATCAGAGAGATCAATGGATGAGAATGGTGATAATGAAGCTGAGAGTAAATATAATGGTGGTGCTTTAGATTGCATGGAAGCTTTAGAAGAGGTTCTTCCTATTAGGAGAAGTATCTCAAACTTCTATAGTGGAAAATCCAAGTCCTTCACAAGCCTAGCTGATGTTGTCACAACACCATCTGTAAAAGACATTGTAAAACCAGAGAATGCATACACAAGAAGACGTAGAAATTTGCTGGCTTTCAATCATGGTTGGGACAAGAACAAAAATTTCCCTTTGAGAAGCAATAGTGGTGGAATTTCAAAGAGAACAATGAGCTTAAGTAGAAGTGCTTTAGCTCTTGCAGTTGCATTAAGCAATTCTGATAGTAGCTCTAGTTTTACAAGTGATGATTCAGCTGCTTCAACCTCATATTCTTCAGCACCTTCTTCGCCACTTCCACCGCGTCATCCGGGAAATAGAGTGTCTTCTTTAGCATCTCCTTTGCAGAGGAATTTCTTTTCCTTGGCTGATCTGCATCATTGTGCCATTGCTGCAACAATGAAAATGCCAAATTCTTCAATTGAAAATGAAACAACTAATCATCCATCATAG
Protein sequence

>MsG0180000452.01.T01

MIMELETVAIKRVGSRTSVLFDAPRDHDDDDDDQGKVCSTTSSSSIGRNSDDDDEVSSERSMDENGDNEAESKYNGGALDCMEALEEVLPIRRSISNFYSGKSKSFTSLADVVTTPSVKDIVKPENAYTRRRRNLLAFNHGWDKNKNFPLRSNSGGISKRTMSLSRSALALAVALSNSDSSSSFTSDDSAASTSYSSAPSSPLPPRHPGNRVSSLASPLQRNFFSLADLHHCAIAATMKMPNSSIENETTNHPS*