AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016931.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016931.01.T01 MTR_3g098490 96.226 212 8 0 1 212 1 212 1.18e-155 429
MsG0380016931.01.T01 MTR_3g098500 75.688 218 45 3 1 212 7 222 4.03e-120 340
MsG0380016931.01.T01 MTR_8g096110 64.216 204 70 2 1 202 1 203 4.32e-93 271
MsG0380016931.01.T01 MTR_8g096080 69.474 190 53 3 1 186 1 189 1.35e-92 270
MsG0380016931.01.T01 MTR_8g096100 60.697 201 76 3 1 199 1 200 6.28e-83 246
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016931.01.T01 AT3G23760 63.684 190 61 3 7 190 7 194 2.03e-86 254
MsG0380016931.01.T01 AT4G14100 64.516 186 56 3 14 191 7 190 4.68e-85 251

Find 69 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAAAATTGATGTTAATATT+TGG 0.214223 3:-89590523 None:intergenic
CTTGATGGTGCTACCTATTT+AGG 0.222154 3:+89589784 MsG0380016931.01.T01:CDS
CTCCGTCCTAATTGGCTTGA+TGG 0.262701 3:+89589769 MsG0380016931.01.T01:CDS
AAGCGGATCCCTACAGAAAT+TGG 0.272446 3:+89589582 MsG0380016931.01.T01:CDS
CAAAATTTGATTTATGAGTT+TGG 0.276437 3:-89590585 None:intergenic
TCCGGCCAAGCTGCCGGAAC+TGG 0.316253 3:-89589529 None:intergenic
CCCTACAGAAATTGGACTTA+TGG 0.330831 3:+89589590 MsG0380016931.01.T01:CDS
AACTTGTTCTTGACCTAAAT+AGG 0.332003 3:-89589797 None:intergenic
ATAATTTCCTATGTAATGTT+TGG 0.333466 3:+89589821 MsG0380016931.01.T01:CDS
TGCAATAGAACACACCTTTA+CGG 0.348173 3:+89589459 MsG0380016931.01.T01:CDS
ACTGTTCGTGGCGATTCTTT+TGG 0.354532 3:+89590386 MsG0380016931.01.T01:CDS
TTGTAGGGATGGATGCAATA+TGG 0.358518 3:+89590555 MsG0380016931.01.T01:three_prime_UTR
CAATATCATTGAGTTGATCT+TGG 0.360877 3:-89589648 None:intergenic
TTGTAGATTACGACCTTGAA+TGG 0.361181 3:+89589668 MsG0380016931.01.T01:CDS
TTGGTATTCTCCGTCCTAAT+TGG 0.369794 3:+89589761 MsG0380016931.01.T01:CDS
GTAGCACCATCAAGCCAATT+AGG 0.370390 3:-89589775 None:intergenic
TAATTTCCTATGTAATGTTT+GGG 0.374401 3:+89589822 MsG0380016931.01.T01:CDS
CTCGACGGCGGAGCCAGTTC+CGG 0.389600 3:+89589516 MsG0380016931.01.T01:CDS
GCCAGTTCCGGCAGCTTGGC+CGG 0.421754 3:+89589528 MsG0380016931.01.T01:CDS
GGCTAAACTAAACAATCATT+CGG 0.422742 3:-89590502 None:intergenic
GTGTAGAAGATCCACTTAAC+AGG 0.441540 3:-89589892 None:intergenic
AACTGCTCCGGCCAAGCTGC+CGG 0.446630 3:-89589535 None:intergenic
TTAGAATCTGCTACTGTTCG+TGG 0.447496 3:+89590374 MsG0380016931.01.T01:CDS
ATGTTGAAGTTTCGACCGTT+GGG 0.451295 3:-89589622 None:intergenic
GTCTGATTGAAGCAGTATAC+AGG 0.464973 3:-89590341 None:intergenic
GAGTAGTACCGTTACCGTAA+AGG 0.468001 3:-89589473 None:intergenic
TGCAGTGGCGGTCGGAGGGA+TGG 0.474901 3:-89589720 None:intergenic
CAATCATTCGGAAATACATT+GGG 0.476022 3:-89590490 None:intergenic
AGGTTCCATTGGTCCATTCA+AGG 0.477181 3:-89589681 None:intergenic
CCATCATCATCTTGTAGGGA+TGG 0.483050 3:+89590544 MsG0380016931.01.T01:three_prime_UTR
ACAATCATTCGGAAATACAT+TGG 0.484270 3:-89590491 None:intergenic
CTTTCTCCCAAACATTACAT+AGG 0.489592 3:-89589828 None:intergenic
GATGTTGAAGTTTCGACCGT+TGG 0.491687 3:-89589623 None:intergenic
GTTAAGTGGATCTTCTACAC+TGG 0.500811 3:+89589895 MsG0380016931.01.T01:CDS
CGGAGCCAGTTCCGGCAGCT+TGG 0.510708 3:+89589524 MsG0380016931.01.T01:CDS
AACCTTGCAGTGGCGGTCGG+AGG 0.511934 3:-89589725 None:intergenic
ACCTTGCAGTGGCGGTCGGA+GGG 0.512978 3:-89589724 None:intergenic
ACCATAAGTCCAATTTCTGT+AGG 0.527172 3:-89589591 None:intergenic
TCACTCGAAGGCCTGTTAAG+TGG 0.539058 3:+89589881 MsG0380016931.01.T01:CDS
AATTGGACTTATGGTATGAC+TGG 0.542047 3:+89589599 MsG0380016931.01.T01:CDS
GACAACCTTGCAGTGGCGGT+CGG 0.543354 3:-89589728 None:intergenic
TGCTCATGTGATGACATTTG+AGG 0.548966 3:+89590283 MsG0380016931.01.T01:CDS
GCTTGAGGATGTGCATTGGC+AGG 0.549400 3:+89590316 MsG0380016931.01.T01:CDS
TCCCTCCGACCGCCACTGCA+AGG 0.553601 3:+89589723 MsG0380016931.01.T01:CDS
GTACATGAAGGAGGTTCCAT+TGG 0.555646 3:-89589692 None:intergenic
CCATCCCTACAAGATGATGA+TGG 0.555996 3:-89590544 None:intergenic
GCTTCTGTTCATGAATAGTA+CGG 0.566725 3:-89589563 None:intergenic
CCATAAGTCCAATTTCTGTA+GGG 0.573008 3:-89589590 None:intergenic
CATGGACAACCTTGCAGTGG+CGG 0.573319 3:-89589732 None:intergenic
AGTACGGAATGAAACTGCTC+CGG 0.575238 3:-89589547 None:intergenic
TTATGGTATGACTGGCCCAA+CGG 0.590284 3:+89589607 MsG0380016931.01.T01:CDS
AGAACACACCTTTACGGTAA+CGG 0.593520 3:+89589465 MsG0380016931.01.T01:CDS
CATGTGATGACATTTGAGGT+TGG 0.595333 3:+89590287 MsG0380016931.01.T01:CDS
AAGGTTGTCCATGTTGAAGT+TGG 0.595989 3:+89589742 MsG0380016931.01.T01:CDS
ATGAAGATGTTCTCACTCGA+AGG 0.605789 3:+89589869 MsG0380016931.01.T01:CDS
CACCATCAAGCCAATTAGGA+CGG 0.609769 3:-89589771 None:intergenic
TGAGGTTGGAGCAGTGCTTG+AGG 0.612681 3:+89590301 MsG0380016931.01.T01:CDS
GTTGTTGAAAGCAGCAGCAA+TGG 0.616146 3:+89589432 MsG0380016931.01.T01:exon
TACGACCTTGAATGGACCAA+TGG 0.624357 3:+89589676 MsG0380016931.01.T01:CDS
AAAGGTGTGTTCTATTGCAG+AGG 0.630711 3:-89589455 None:intergenic
GTACTATTCATGAACAGAAG+CGG 0.639978 3:+89589565 MsG0380016931.01.T01:CDS
GGGATGGAGAGTGTACATGA+AGG 0.647111 3:-89589704 None:intergenic
CAGTGCTTGAGGATGTGCAT+TGG 0.659088 3:+89590312 MsG0380016931.01.T01:CDS
ATGGAGAGTGTACATGAAGG+AGG 0.663920 3:-89589701 None:intergenic
GGAGAATACCAACTTCAACA+TGG 0.664515 3:-89589750 None:intergenic
TCTCTTCTCACTCTCGACGG+CGG 0.673727 3:+89589504 MsG0380016931.01.T01:CDS
CAACATGGACAACCTTGCAG+TGG 0.677545 3:-89589735 None:intergenic
CGTTCTCTTCTCACTCTCGA+CGG 0.680397 3:+89589501 MsG0380016931.01.T01:CDS
CGAGAGTGAGAAGAGAACGA+CGG 0.697861 3:-89589497 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATTTCCTATGTAATGTT+TGG + Chr3:89589821-89589840 MsG0380016931.01.T01:CDS 20.0%
!! ATGATAAACTAATAAGTTCA+AGG - Chr3:89590147-89590166 None:intergenic 20.0%
!! CTTATATGATAACAATTTGT+CGG + Chr3:89590039-89590058 MsG0380016931.01.T01:intron 20.0%
!! GGAAAATTGATGTTAATATT+TGG - Chr3:89590526-89590545 None:intergenic 20.0%
!! TAATTTCCTATGTAATGTTT+GGG + Chr3:89589822-89589841 MsG0380016931.01.T01:CDS 20.0%
!! TGATAAACTAATAAGTTCAA+GGG - Chr3:89590146-89590165 None:intergenic 20.0%
!!! CAAAATTTGATTTATGAGTT+TGG - Chr3:89590588-89590607 None:intergenic 20.0%
! TGAATTAAGGTTTGATATAC+TGG + Chr3:89590241-89590260 MsG0380016931.01.T01:intron 25.0%
!!! TTTGGATTCATTGACTTATT+TGG + Chr3:89589959-89589978 MsG0380016931.01.T01:intron 25.0%
AATGAATCCAAACAGTAACT+AGG - Chr3:89589951-89589970 None:intergenic 30.0%
ACAATCATTCGGAAATACAT+TGG - Chr3:89590494-89590513 None:intergenic 30.0%
CAAACCTTAATTCATTTCAC+AGG - Chr3:89590235-89590254 None:intergenic 30.0%
CAATCATTCGGAAATACATT+GGG - Chr3:89590493-89590512 None:intergenic 30.0%
CATTCCTGTGAAATGAATTA+AGG + Chr3:89590228-89590247 MsG0380016931.01.T01:intron 30.0%
GATATACTGGTAATTAATGC+AGG + Chr3:89590254-89590273 MsG0380016931.01.T01:intron 30.0%
GGCTAAACTAAACAATCATT+CGG - Chr3:89590505-89590524 None:intergenic 30.0%
! AACTTGTTCTTGACCTAAAT+AGG - Chr3:89589800-89589819 None:intergenic 30.0%
! ATTTTCCATCATCATCTTGT+AGG + Chr3:89590539-89590558 MsG0380016931.01.T01:three_prime_UTR 30.0%
! TTTTCCATCATCATCTTGTA+GGG + Chr3:89590540-89590559 MsG0380016931.01.T01:three_prime_UTR 30.0%
!! CAATATCATTGAGTTGATCT+TGG - Chr3:89589651-89589670 None:intergenic 30.0%
AATTGGACTTATGGTATGAC+TGG + Chr3:89589599-89589618 MsG0380016931.01.T01:CDS 35.0%
ACCATAAGTCCAATTTCTGT+AGG - Chr3:89589594-89589613 None:intergenic 35.0%
CCATAAGTCCAATTTCTGTA+GGG - Chr3:89589593-89589612 None:intergenic 35.0%
CTTTCTCCCAAACATTACAT+AGG - Chr3:89589831-89589850 None:intergenic 35.0%
GCTTCTGTTCATGAATAGTA+CGG - Chr3:89589566-89589585 None:intergenic 35.0%
GTACTATTCATGAACAGAAG+CGG + Chr3:89589565-89589584 MsG0380016931.01.T01:CDS 35.0%
TATCACTCCTAGTTACTGTT+TGG + Chr3:89589941-89589960 MsG0380016931.01.T01:intron 35.0%
TGCAATAGAACACACCTTTA+CGG + Chr3:89589459-89589478 MsG0380016931.01.T01:CDS 35.0%
TTGTAGATTACGACCTTGAA+TGG + Chr3:89589668-89589687 MsG0380016931.01.T01:CDS 35.0%
!! TCTTTTGGAAGTTTGATGAG+AGG + Chr3:89590401-89590420 MsG0380016931.01.T01:CDS 35.0%
AAGGTTGTCCATGTTGAAGT+TGG + Chr3:89589742-89589761 MsG0380016931.01.T01:CDS 40.0%
AGAACACACCTTTACGGTAA+CGG + Chr3:89589465-89589484 MsG0380016931.01.T01:CDS 40.0%
ATGAAGATGTTCTCACTCGA+AGG + Chr3:89589869-89589888 MsG0380016931.01.T01:CDS 40.0%
ATGTTGAAGTTTCGACCGTT+GGG - Chr3:89589625-89589644 None:intergenic 40.0%
CCCTACAGAAATTGGACTTA+TGG + Chr3:89589590-89589609 MsG0380016931.01.T01:CDS 40.0%
GGAGAATACCAACTTCAACA+TGG - Chr3:89589753-89589772 None:intergenic 40.0%
GTCTGATTGAAGCAGTATAC+AGG - Chr3:89590344-89590363 None:intergenic 40.0%
GTGTAGAAGATCCACTTAAC+AGG - Chr3:89589895-89589914 None:intergenic 40.0%
GTTAAGTGGATCTTCTACAC+TGG + Chr3:89589895-89589914 MsG0380016931.01.T01:CDS 40.0%
TGCTCATGTGATGACATTTG+AGG + Chr3:89590283-89590302 MsG0380016931.01.T01:CDS 40.0%
TTAGAATCTGCTACTGTTCG+TGG + Chr3:89590374-89590393 MsG0380016931.01.T01:CDS 40.0%
TTGGTATTCTCCGTCCTAAT+TGG + Chr3:89589761-89589780 MsG0380016931.01.T01:CDS 40.0%
TTGTAGGGATGGATGCAATA+TGG + Chr3:89590555-89590574 MsG0380016931.01.T01:three_prime_UTR 40.0%
! AAAGGTGTGTTCTATTGCAG+AGG - Chr3:89589458-89589477 None:intergenic 40.0%
! CATGTGATGACATTTGAGGT+TGG + Chr3:89590287-89590306 MsG0380016931.01.T01:CDS 40.0%
!! CTTGATGGTGCTACCTATTT+AGG + Chr3:89589784-89589803 MsG0380016931.01.T01:CDS 40.0%
AAGCGGATCCCTACAGAAAT+TGG + Chr3:89589582-89589601 MsG0380016931.01.T01:CDS 45.0%
AGGTTCCATTGGTCCATTCA+AGG - Chr3:89589684-89589703 None:intergenic 45.0%
AGTACGGAATGAAACTGCTC+CGG - Chr3:89589550-89589569 None:intergenic 45.0%
CACCATCAAGCCAATTAGGA+CGG - Chr3:89589774-89589793 None:intergenic 45.0%
CCATCATCATCTTGTAGGGA+TGG + Chr3:89590544-89590563 MsG0380016931.01.T01:three_prime_UTR 45.0%
CCATCCCTACAAGATGATGA+TGG - Chr3:89590547-89590566 None:intergenic 45.0%
GAGTAGTACCGTTACCGTAA+AGG - Chr3:89589476-89589495 None:intergenic 45.0%
GATGTTGAAGTTTCGACCGT+TGG - Chr3:89589626-89589645 None:intergenic 45.0%
GTACATGAAGGAGGTTCCAT+TGG - Chr3:89589695-89589714 None:intergenic 45.0%
GTAGCACCATCAAGCCAATT+AGG - Chr3:89589778-89589797 None:intergenic 45.0%
GTTGTTGAAAGCAGCAGCAA+TGG + Chr3:89589432-89589451 MsG0380016931.01.T01:exon 45.0%
TACGACCTTGAATGGACCAA+TGG + Chr3:89589676-89589695 MsG0380016931.01.T01:CDS 45.0%
! ACTGTTCGTGGCGATTCTTT+TGG + Chr3:89590386-89590405 MsG0380016931.01.T01:CDS 45.0%
! ATGGAGAGTGTACATGAAGG+AGG - Chr3:89589704-89589723 None:intergenic 45.0%
! TTATGGTATGACTGGCCCAA+CGG + Chr3:89589607-89589626 MsG0380016931.01.T01:CDS 45.0%
CAACATGGACAACCTTGCAG+TGG - Chr3:89589738-89589757 None:intergenic 50.0%
CAGTGCTTGAGGATGTGCAT+TGG + Chr3:89590312-89590331 MsG0380016931.01.T01:CDS 50.0%
CGAGAGTGAGAAGAGAACGA+CGG - Chr3:89589500-89589519 None:intergenic 50.0%
CGTTCTCTTCTCACTCTCGA+CGG + Chr3:89589501-89589520 MsG0380016931.01.T01:CDS 50.0%
TCACTCGAAGGCCTGTTAAG+TGG + Chr3:89589881-89589900 MsG0380016931.01.T01:CDS 50.0%
! GGGATGGAGAGTGTACATGA+AGG - Chr3:89589707-89589726 None:intergenic 50.0%
!! CTCCGTCCTAATTGGCTTGA+TGG + Chr3:89589769-89589788 MsG0380016931.01.T01:CDS 50.0%
CATGGACAACCTTGCAGTGG+CGG - Chr3:89589735-89589754 None:intergenic 55.0%
TCTCTTCTCACTCTCGACGG+CGG + Chr3:89589504-89589523 MsG0380016931.01.T01:CDS 55.0%
TGAGGTTGGAGCAGTGCTTG+AGG + Chr3:89590301-89590320 MsG0380016931.01.T01:CDS 55.0%
! GCTTGAGGATGTGCATTGGC+AGG + Chr3:89590316-89590335 MsG0380016931.01.T01:CDS 55.0%
GACAACCTTGCAGTGGCGGT+CGG - Chr3:89589731-89589750 None:intergenic 60.0%
TGCTGCTGCTGCTGCTGCAT+AGG + Chr3:89590433-89590452 MsG0380016931.01.T01:CDS 60.0%
AACCTTGCAGTGGCGGTCGG+AGG - Chr3:89589728-89589747 None:intergenic 65.0%
AACTGCTCCGGCCAAGCTGC+CGG - Chr3:89589538-89589557 None:intergenic 65.0%
ACCTTGCAGTGGCGGTCGGA+GGG - Chr3:89589727-89589746 None:intergenic 65.0%
CGGAGCCAGTTCCGGCAGCT+TGG + Chr3:89589524-89589543 MsG0380016931.01.T01:CDS 70.0%
CTCGACGGCGGAGCCAGTTC+CGG + Chr3:89589516-89589535 MsG0380016931.01.T01:CDS 70.0%
GCCAGTTCCGGCAGCTTGGC+CGG + Chr3:89589528-89589547 MsG0380016931.01.T01:CDS 70.0%
TCCCTCCGACCGCCACTGCA+AGG + Chr3:89589723-89589742 MsG0380016931.01.T01:CDS 70.0%
TCCGGCCAAGCTGCCGGAAC+TGG - Chr3:89589532-89589551 None:intergenic 70.0%
TGCAGTGGCGGTCGGAGGGA+TGG - Chr3:89589723-89589742 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr3 gene 89589428 89590608 89589428 ID=MsG0380016931.01;Name=MsG0380016931.01
Chr3 mRNA 89589428 89590608 89589428 ID=MsG0380016931.01.T01;Parent=MsG0380016931.01;Name=MsG0380016931.01.T01;_AED=0.48;_eAED=0.48;_QI=23|1|1|1|1|1|2|154|214
Chr3 exon 89589428 89589916 89589428 ID=MsG0380016931.01.T01:exon:20542;Parent=MsG0380016931.01.T01
Chr3 exon 89590276 89590608 89590276 ID=MsG0380016931.01.T01:exon:20543;Parent=MsG0380016931.01.T01
Chr3 five_prime_UTR 89589428 89589450 89589428 ID=MsG0380016931.01.T01:five_prime_utr;Parent=MsG0380016931.01.T01
Chr3 CDS 89589451 89589916 89589451 ID=MsG0380016931.01.T01:cds;Parent=MsG0380016931.01.T01
Chr3 CDS 89590276 89590454 89590276 ID=MsG0380016931.01.T01:cds;Parent=MsG0380016931.01.T01
Chr3 three_prime_UTR 89590455 89590608 89590455 ID=MsG0380016931.01.T01:three_prime_utr;Parent=MsG0380016931.01.T01
Gene Sequence

>MsG0380016931.01.T01

ATGGCCTCTGCAATAGAACACACCTTTACGGTAACGGTACTACTCTCCGTCGTTCTCTTCTCACTCTCGACGGCGGAGCCAGTTCCGGCAGCTTGGCCGGAGCAGTTTCATTCCGTACTATTCATGAACAGAAGCGGATCCCTACAGAAATTGGACTTATGGTATGACTGGCCCAACGGTCGAAACTTCAACATCATCCAAGATCAACTCAATGATATTGTAGATTACGACCTTGAATGGACCAATGGAACCTCCTTCATGTACACTCTCCATCCCTCCGACCGCCACTGCAAGGTTGTCCATGTTGAAGTTGGTATTCTCCGTCCTAATTGGCTTGATGGTGCTACCTATTTAGGTCAAGAACAAGTTGATAATTTCCTATGTAATGTTTGGGAGAAAGTTGATTTCATTGTGTATTATGAAGATGTTCTCACTCGAAGGCCTGTTAAGTGGATCTTCTACACTGGATACACTGCTCATGTGATGACATTTGAGGTTGGAGCAGTGCTTGAGGATGTGCATTGGCAGGCTCCTGTATACTGCTTCAATCAGACTGAGAATATGTTAGAATCTGCTACTGTTCGTGGCGATTCTTTTGGAAGTTTGATGAGAGGCAAAGTCGATGCTGCTGCTGCTGCTGCATAG

Protein sequence

>MsG0380016931.01.T01

MASAIEHTFTVTVLLSVVLFSLSTAEPVPAAWPEQFHSVLFMNRSGSLQKLDLWYDWPNGRNFNIIQDQLNDIVDYDLEWTNGTSFMYTLHPSDRHCKVVHVEVGILRPNWLDGATYLGQEQVDNFLCNVWEKVDFIVYYEDVLTRRPVKWIFYTGYTAHVMTFEVGAVLEDVHWQAPVYCFNQTENMLESATVRGDSFGSLMRGKVDAAAAAA*