AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024240.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024240.01.T01 MTR_1g115135 96.789 218 5 1 1 218 1 216 4.74e-154 431
MsG0580024240.01.T01 MTR_1g115135 96.789 218 5 1 1 218 1 216 1.22e-153 431
MsG0580024240.01.T01 MTR_8g020310 58.036 112 44 1 107 218 36 144 3.19e-39 136
MsG0580024240.01.T01 MTR_1g007830 30.222 225 131 5 3 216 61 270 3.92e-23 96.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024240.01.T01 AT5G08580 55.328 244 76 4 1 218 1 237 1.44e-92 276
MsG0580024240.01.T01 AT5G08580 55.328 244 76 4 1 218 1 237 1.44e-92 276
MsG0580024240.01.T01 AT4G27790 33.028 218 121 7 3 217 1 196 1.50e-29 112
MsG0580024240.01.T01 AT4G27790 33.028 218 121 7 3 217 1 196 5.76e-29 111

Find 59 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAGGGTCGACATCGATTT+TGG 0.137198 5:+2460574 None:intergenic
TTCATGAAGTCTTCCCATTC+AGG 0.251226 5:+2460662 None:intergenic
CTATTCTTTCAATTTGAATC+TGG 0.285986 5:-2460968 MsG0580024240.01.T01:five_prime_UTR
TCTGGAAATGCAATGGGTTT+AGG 0.309864 5:-2460950 MsG0580024240.01.T01:exon
TTCGCGGTGGCGTTCGAGTT+CGG 0.388491 5:+2460739 None:intergenic
TCATCGTTCTCAAAGAGAAA+TGG 0.388892 5:-2460486 MsG0580024240.01.T01:CDS
CTGAGTATGATCCTCCTAGT+TGG 0.406429 5:-2460424 MsG0580024240.01.T01:CDS
GGACAGGTTGGTGAGAAGAA+TGG 0.437950 5:+2460780 None:intergenic
GACAGGTTGGTGAGAAGAAT+GGG 0.438518 5:+2460781 None:intergenic
TTTGAATCTGGAAATGCAAT+GGG 0.442858 5:-2460956 MsG0580024240.01.T01:exon
GAAGTCTTCCCATTCAGGTT+GGG 0.442930 5:+2460667 None:intergenic
AGATCAACAAATTGATCAGC+AGG 0.448298 5:+2460557 None:intergenic
CTCACGAATCCCAACCTGAA+TGG 0.450548 5:-2460676 MsG0580024240.01.T01:CDS
TCAGGTTGGGATTCGTGAGC+GGG 0.450871 5:+2460680 None:intergenic
GGAAGAGTGGTAGTTGTTGA+AGG 0.462306 5:+2460865 None:intergenic
ATTCGTGAGCGGGAGCGTGC+TGG 0.465111 5:+2460690 None:intergenic
GTTTGAGGCGGCGGTGACGG+TGG 0.468489 5:+2460843 None:intergenic
TCACGAATCCCAACCTGAAT+GGG 0.471276 5:-2460675 MsG0580024240.01.T01:CDS
ACGAGAGGGTCGAAGGGGAC+AGG 0.472150 5:+2460764 None:intergenic
GGAGTTTGAGGCGGCGGTGA+CGG 0.475675 5:+2460840 None:intergenic
TGAGTATGATCCTCCTAGTT+GGG 0.475881 5:-2460423 MsG0580024240.01.T01:CDS
ATTTGAATCTGGAAATGCAA+TGG 0.480736 5:-2460957 MsG0580024240.01.T01:exon
AGAAGGTTCGAGAGTGAAGT+TGG 0.486483 5:+2460814 None:intergenic
TAAATACACACTATGATTGA+AGG 0.493061 5:-2461048 None:intergenic
CCTAGTTGGGTTAAATCTGC+TGG 0.493560 5:-2460410 MsG0580024240.01.T01:intron
TTCGGCAACGAGAGGGTCGA+AGG 0.503862 5:+2460757 None:intergenic
TTTGAGGCGGCGGTGACGGT+GGG 0.504991 5:+2460844 None:intergenic
TGAAGTTGGAACGGAGTTTG+AGG 0.509710 5:+2460828 None:intergenic
TGAAGGGAGAGTGTGAAGAG+AGG 0.513770 5:+2460882 None:intergenic
CTTCATGATAAGAATCATGA+TGG 0.518005 5:-2460461 MsG0580024240.01.T01:CDS
TGGAACGGAGTTTGAGGCGG+CGG 0.518813 5:+2460834 None:intergenic
CCAGCAGATTTAACCCAACT+AGG 0.523932 5:+2460410 None:intergenic
GTTCCCATTGTTTGTCTTCG+CGG 0.528890 5:+2460723 None:intergenic
CCACCGCGAAGACAAACAAT+GGG 0.530716 5:-2460726 MsG0580024240.01.T01:CDS
TGAAGTCTTCCCATTCAGGT+TGG 0.530720 5:+2460666 None:intergenic
TTGGTGAGAAGAATGGGAAC+GGG 0.541327 5:+2460787 None:intergenic
TTTAATGCATCTGATGCAGA+TGG 0.543757 5:-2459721 MsG0580024240.01.T01:CDS
GGCGGTGACGGTGGGAAGAG+TGG 0.545053 5:+2460852 None:intergenic
GTTCGAGTTCGGCAACGAGA+GGG 0.561637 5:+2460750 None:intergenic
TTGGCTATGATATGGGTTGG+TGG 0.566373 5:-2459756 MsG0580024240.01.T01:CDS
TTCAGGTTGGGATTCGTGAG+CGG 0.568927 5:+2460679 None:intergenic
GCCACCGCGAAGACAAACAA+TGG 0.573423 5:-2460727 MsG0580024240.01.T01:CDS
CGTTCGAGTTCGGCAACGAG+AGG 0.583240 5:+2460749 None:intergenic
GAAGAGTGGTAGTTGTTGAA+GGG 0.597188 5:+2460866 None:intergenic
TGAAGGTGAGTTGAATTGAA+AGG 0.598470 5:-2461031 MsG0580024240.01.T01:five_prime_UTR
TCGGCAACGAGAGGGTCGAA+GGG 0.600852 5:+2460758 None:intergenic
GTTGGTGAGAAGAATGGGAA+CGG 0.602731 5:+2460786 None:intergenic
GAGGGTCGAAGGGGACAGGT+TGG 0.604316 5:+2460768 None:intergenic
CCCATTGTTTGTCTTCGCGG+TGG 0.609991 5:+2460726 None:intergenic
GTTCGAGAGTGAAGTTGGAA+CGG 0.611091 5:+2460819 None:intergenic
AAATGCAATGGGTTTAGGAT+CGG 0.611955 5:-2460945 MsG0580024240.01.T01:exon
GAATGGGAACGGGAATGAGA+AGG 0.615322 5:+2460797 None:intergenic
AGTTGGAACGGAGTTTGAGG+CGG 0.642114 5:+2460831 None:intergenic
GCATCTGATGCAGATGGAGA+TGG 0.642234 5:-2459715 MsG0580024240.01.T01:CDS
GATCAACAAATTGATCAGCA+GGG 0.661186 5:+2460558 None:intergenic
CGGCAACGAGAGGGTCGAAG+GGG 0.666729 5:+2460759 None:intergenic
GCAGATTTAACCCAACTAGG+AGG 0.674034 5:+2460413 None:intergenic
TCTTCAACAAGCTCATAGAG+AGG 0.679859 5:-2460513 MsG0580024240.01.T01:CDS
ATCTTCATGAGTTGACTACG+TGG 0.699181 5:-2460538 MsG0580024240.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGAAAAATAGATTAGATAG+AGG - Chr5:2460633-2460652 MsG0580024240.01.T01:CDS 20.0%
!! AGATCTAGATATTATTGAAT+TGG - Chr5:2460716-2460735 MsG0580024240.01.T01:CDS 20.0%
!! TATTGAATTGGATCAAAATA+GGG - Chr5:2460728-2460747 MsG0580024240.01.T01:CDS 20.0%
!! TTATTGAATTGGATCAAAAT+AGG - Chr5:2460727-2460746 MsG0580024240.01.T01:CDS 20.0%
!!! AGTTTCTCTTAAAGTTTTTT+AGG + Chr5:2460688-2460707 None:intergenic 20.0%
!!! TTTTCAGATAAAGAATCTTT+TGG - Chr5:2460945-2460964 MsG0580024240.01.T01:exon 20.0%
! CTATTCTTTCAATTTGAATC+TGG - Chr5:2459752-2459771 MsG0580024240.01.T01:CDS 25.0%
!!! TAGATATGATGATGTTTTGT+TGG - Chr5:2460457-2460476 MsG0580024240.01.T01:CDS 25.0%
AACTATAGTTGAAAAGATGG+TGG - Chr5:2460550-2460569 MsG0580024240.01.T01:CDS 30.0%
AGAGGAAAAAGAGAACAATT+AGG + Chr5:2459823-2459842 None:intergenic 30.0%
ATTTGAATCTGGAAATGCAA+TGG - Chr5:2459763-2459782 MsG0580024240.01.T01:CDS 30.0%
CTTCATGATAAGAATCATGA+TGG - Chr5:2460259-2460278 MsG0580024240.01.T01:intron 30.0%
GAGGAAAAAGAGAACAATTA+GGG + Chr5:2459822-2459841 None:intergenic 30.0%
GGGTTTATGATAGAACATTA+TGG - Chr5:2460748-2460767 MsG0580024240.01.T01:CDS 30.0%
TTTGAATCTGGAAATGCAAT+GGG - Chr5:2459764-2459783 MsG0580024240.01.T01:CDS 30.0%
!! AGAATCTTTTGGCTATGATA+TGG - Chr5:2460956-2460975 MsG0580024240.01.T01:exon 30.0%
!! GAATCTTTTGGCTATGATAT+GGG - Chr5:2460957-2460976 MsG0580024240.01.T01:exon 30.0%
AAACTAGGCTTATGTGGTTT+GGG - Chr5:2460573-2460592 MsG0580024240.01.T01:CDS 35.0%
AGATCAACAAATTGATCAGC+AGG + Chr5:2460166-2460185 None:intergenic 35.0%
CGCAACTATAGTTGAAAAGA+TGG - Chr5:2460547-2460566 MsG0580024240.01.T01:CDS 35.0%
GATCAACAAATTGATCAGCA+GGG + Chr5:2460165-2460184 None:intergenic 35.0%
GATTTCATTAGAGAGAGAGT+TGG - Chr5:2460516-2460535 MsG0580024240.01.T01:CDS 35.0%
TATAGTGATTACTGTCTCTG+TGG - Chr5:2460886-2460905 MsG0580024240.01.T01:CDS 35.0%
TCATCGTTCTCAAAGAGAAA+TGG - Chr5:2460234-2460253 MsG0580024240.01.T01:intron 35.0%
TTTAATGCATCTGATGCAGA+TGG - Chr5:2460999-2461018 MsG0580024240.01.T01:five_prime_UTR 35.0%
! AAATGCAATGGGTTTAGGAT+CGG - Chr5:2459775-2459794 MsG0580024240.01.T01:intron 35.0%
! TGAAGGTGAGTTGAATTGAA+AGG - Chr5:2459689-2459708 MsG0580024240.01.T01:CDS 35.0%
!! ATGATGTTTTGTTGGATGTG+TGG - Chr5:2460465-2460484 MsG0580024240.01.T01:CDS 35.0%
!! TTGAAAAGATGGTGGAAACT+AGG - Chr5:2460558-2460577 MsG0580024240.01.T01:CDS 35.0%
GAAACTAGGCTTATGTGGTT+TGG - Chr5:2460572-2460591 MsG0580024240.01.T01:CDS 40.0%
GAAGAGTGGTAGTTGTTGAA+GGG + Chr5:2459857-2459876 None:intergenic 40.0%
GATGTGTGGTAAGATTAGAC+GGG - Chr5:2460479-2460498 MsG0580024240.01.T01:CDS 40.0%
GGATGTGTGGTAAGATTAGA+CGG - Chr5:2460478-2460497 MsG0580024240.01.T01:CDS 40.0%
TATTGTATGTGTCCGAGAGT+GGG - Chr5:2460401-2460420 MsG0580024240.01.T01:intron 40.0%
TCTTCAACAAGCTCATAGAG+AGG - Chr5:2460207-2460226 MsG0580024240.01.T01:intron 40.0%
TGAGTATGATCCTCCTAGTT+GGG - Chr5:2460297-2460316 MsG0580024240.01.T01:intron 40.0%
TTATTGTATGTGTCCGAGAG+TGG - Chr5:2460400-2460419 MsG0580024240.01.T01:intron 40.0%
TTCATGAAGTCTTCCCATTC+AGG + Chr5:2460061-2460080 None:intergenic 40.0%
! AAAGCCTTATCCCACTAAGT+GGG + Chr5:2460798-2460817 None:intergenic 40.0%
! ATCTTCATGAGTTGACTACG+TGG - Chr5:2460182-2460201 MsG0580024240.01.T01:intron 40.0%
! TCTGGAAATGCAATGGGTTT+AGG - Chr5:2459770-2459789 MsG0580024240.01.T01:CDS 40.0%
! TTGTTGTTGTCAGTGTGCTA+TGG - Chr5:2460819-2460838 MsG0580024240.01.T01:CDS 40.0%
!! CTTTTGGCTATGATATGGGT+TGG - Chr5:2460961-2460980 MsG0580024240.01.T01:five_prime_UTR 40.0%
AGAAGGTTCGAGAGTGAAGT+TGG + Chr5:2459909-2459928 None:intergenic 45.0%
ATGTAGCTGAACCCACTTAG+TGG - Chr5:2460784-2460803 MsG0580024240.01.T01:CDS 45.0%
CCAGCAGATTTAACCCAACT+AGG + Chr5:2460313-2460332 None:intergenic 45.0%
CCTAGTTGGGTTAAATCTGC+TGG - Chr5:2460310-2460329 MsG0580024240.01.T01:intron 45.0%
CTGAGTATGATCCTCCTAGT+TGG - Chr5:2460296-2460315 MsG0580024240.01.T01:intron 45.0%
GAGGATAGTCAGATCACTAG+AGG - Chr5:2460652-2460671 MsG0580024240.01.T01:CDS 45.0%
GCAGATTTAACCCAACTAGG+AGG + Chr5:2460310-2460329 None:intergenic 45.0%
GGAAGAGTGGTAGTTGTTGA+AGG + Chr5:2459858-2459877 None:intergenic 45.0%
GTTCCCATTGTTTGTCTTCG+CGG + Chr5:2460000-2460019 None:intergenic 45.0%
GTTCGAGAGTGAAGTTGGAA+CGG + Chr5:2459904-2459923 None:intergenic 45.0%
GTTGAATCTTCACCCACTCT+CGG + Chr5:2460416-2460435 None:intergenic 45.0%
TCACGAATCCCAACCTGAAT+GGG - Chr5:2460045-2460064 MsG0580024240.01.T01:intron 45.0%
TGAACCCACTTAGTGGGATA+AGG - Chr5:2460791-2460810 MsG0580024240.01.T01:CDS 45.0%
TGAAGTCTTCCCATTCAGGT+TGG + Chr5:2460057-2460076 None:intergenic 45.0%
TGAAGTTGGAACGGAGTTTG+AGG + Chr5:2459895-2459914 None:intergenic 45.0%
TGGTGGAAACTAGGCTTATG+TGG - Chr5:2460567-2460586 MsG0580024240.01.T01:CDS 45.0%
TGTAGCTGAACCCACTTAGT+GGG - Chr5:2460785-2460804 MsG0580024240.01.T01:CDS 45.0%
TTGGTGAGAAGAATGGGAAC+GGG + Chr5:2459936-2459955 None:intergenic 45.0%
! ACTAAGTGGGTTCAGCTACA+TGG + Chr5:2460785-2460804 None:intergenic 45.0%
! CAAAGCCTTATCCCACTAAG+TGG + Chr5:2460799-2460818 None:intergenic 45.0%
! GAAGTCTTCCCATTCAGGTT+GGG + Chr5:2460056-2460075 None:intergenic 45.0%
! GTTGGTGAGAAGAATGGGAA+CGG + Chr5:2459937-2459956 None:intergenic 45.0%
!! GACAGGTTGGTGAGAAGAAT+GGG + Chr5:2459942-2459961 None:intergenic 45.0%
!! TTGGCTATGATATGGGTTGG+TGG - Chr5:2460964-2460983 MsG0580024240.01.T01:five_prime_UTR 45.0%
AGTTGGAACGGAGTTTGAGG+CGG + Chr5:2459892-2459911 None:intergenic 50.0%
CCACCGCGAAGACAAACAAT+GGG - Chr5:2459994-2460013 MsG0580024240.01.T01:intron 50.0%
CTCACGAATCCCAACCTGAA+TGG - Chr5:2460044-2460063 MsG0580024240.01.T01:intron 50.0%
GAATGGGAACGGGAATGAGA+AGG + Chr5:2459926-2459945 None:intergenic 50.0%
GCATCTGATGCAGATGGAGA+TGG - Chr5:2461005-2461024 MsG0580024240.01.T01:five_prime_UTR 50.0%
! TGAAGGGAGAGTGTGAAGAG+AGG + Chr5:2459841-2459860 None:intergenic 50.0%
!! GGACAGGTTGGTGAGAAGAA+TGG + Chr5:2459943-2459962 None:intergenic 50.0%
!! TTCAGGTTGGGATTCGTGAG+CGG + Chr5:2460044-2460063 None:intergenic 50.0%
!!! AGCAGGGTCGACATCGATTT+TGG + Chr5:2460149-2460168 None:intergenic 50.0%
!!! GCAGGGTCGACATCGATTTT+GGG + Chr5:2460148-2460167 None:intergenic 50.0%
CCCATTGTTTGTCTTCGCGG+TGG + Chr5:2459997-2460016 None:intergenic 55.0%
GCCACCGCGAAGACAAACAA+TGG - Chr5:2459993-2460012 MsG0580024240.01.T01:intron 55.0%
! GTTCGAGTTCGGCAACGAGA+GGG + Chr5:2459973-2459992 None:intergenic 55.0%
!! TCAGGTTGGGATTCGTGAGC+GGG + Chr5:2460043-2460062 None:intergenic 55.0%
TCGGCAACGAGAGGGTCGAA+GGG + Chr5:2459965-2459984 None:intergenic 60.0%
TTCGGCAACGAGAGGGTCGA+AGG + Chr5:2459966-2459985 None:intergenic 60.0%
! CGTTCGAGTTCGGCAACGAG+AGG + Chr5:2459974-2459993 None:intergenic 60.0%
! TGGAACGGAGTTTGAGGCGG+CGG + Chr5:2459889-2459908 None:intergenic 60.0%
! TTCGCGGTGGCGTTCGAGTT+CGG + Chr5:2459984-2460003 None:intergenic 60.0%
ACGAGAGGGTCGAAGGGGAC+AGG + Chr5:2459959-2459978 None:intergenic 65.0%
CGGCAACGAGAGGGTCGAAG+GGG + Chr5:2459964-2459983 None:intergenic 65.0%
GAGGGTCGAAGGGGACAGGT+TGG + Chr5:2459955-2459974 None:intergenic 65.0%
! ATTCGTGAGCGGGAGCGTGC+TGG + Chr5:2460033-2460052 None:intergenic 65.0%
! GGAGTTTGAGGCGGCGGTGA+CGG + Chr5:2459883-2459902 None:intergenic 65.0%
! TTTGAGGCGGCGGTGACGGT+GGG + Chr5:2459879-2459898 None:intergenic 65.0%
! GGCGGTGACGGTGGGAAGAG+TGG + Chr5:2459871-2459890 None:intergenic 70.0%
! GTTTGAGGCGGCGGTGACGG+TGG + Chr5:2459880-2459899 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr5 gene 2459684 2461058 2459684 ID=MsG0580024240.01;Name=MsG0580024240.01
Chr5 mRNA 2459684 2461058 2459684 ID=MsG0580024240.01.T01;Parent=MsG0580024240.01;Name=MsG0580024240.01.T01;_AED=0.49;_eAED=0.50;_QI=98|1|0.5|1|1|1|2|0|218
Chr5 exon 2459684 2459790 2459684 ID=MsG0580024240.01.T01:exon:1754;Parent=MsG0580024240.01.T01
Chr5 exon 2460411 2461058 2460411 ID=MsG0580024240.01.T01:exon:1753;Parent=MsG0580024240.01.T01
Chr5 five_prime_UTR 2460961 2461058 2460961 ID=MsG0580024240.01.T01:five_prime_utr;Parent=MsG0580024240.01.T01
Chr5 CDS 2460411 2460960 2460411 ID=MsG0580024240.01.T01:cds;Parent=MsG0580024240.01.T01
Chr5 CDS 2459684 2459790 2459684 ID=MsG0580024240.01.T01:cds;Parent=MsG0580024240.01.T01
Gene Sequence

>MsG0580024240.01.T01

ATGGGTTTAGGATCGGTATTGATATACACGATCTTAGCCCTAATTGTTCTCTTTTTCCTCTCTTCACACTCTCCCTTCAACAACTACCACTCTTCCCACCGTCACCGCCGCCTCAAACTCCGTTCCAACTTCACTCTCGAACCTTCTCATTCCCGTTCCCATTCTTCTCACCAACCTGTCCCCTTCGACCCTCTCGTTGCCGAACTCGAACGCCACCGCGAAGACAAACAATGGGAACAACAACACATCCAGCACGCTCCCGCTCACGAATCCCAACCTGAATGGGAAGACTTCATGAACGCTGAAGACTTCATCAATGATGAAGATAAGTTCAATGTTACATCTAGACTTCTTCTTCTTTTTCCCAAAATCGATGTCGACCCTGCTGATCAATTTGTTGATCTTCATGAGTTGACTACGTGGAATCTTCAACAAGCTCATAGAGAGGTTCTTCATCGTTCTCAAAGAGAAATGGAACTTCATGATAAGAATCATGATGGTTTTGTTTCTTTCTCTGAGTATGATCCTCCTAGTTGGGTTAAATCTGCTGATAAAGAATCTTTTGGCTATGATATGGGTTGGTGGAAAGAAGAGCATTTTAATGCATCTGATGCAGATGGAGATGGTGTTCTTAACTTAACTGAGTTCAATGAGTGA
Protein sequence

>MsG0580024240.01.T01

MGLGSVLIYTILALIVLFFLSSHSPFNNYHSSHRHRRLKLRSNFTLEPSHSRSHSSHQPVPFDPLVAELERHREDKQWEQQHIQHAPAHESQPEWEDFMNAEDFINDEDKFNVTSRLLLLFPKIDVDPADQFVDLHELTTWNLQQAHREVLHRSQREMELHDKNHDGFVSFSEYDPPSWVKSADKESFGYDMGWWKEEHFNASDADGDGVLNLTEFNE*