AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013958.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013958.01.T02 MTR_4g051110 97.321 224 6 0 1 224 13 236 2.52e-165 455
MsG0380013958.01.T02 MTR_7g116690 79.018 224 21 2 1 224 13 210 7.95e-124 349
MsG0380013958.01.T02 MTR_0002s0530 76.744 215 50 0 1 215 13 227 7.35e-122 355
MsG0380013958.01.T02 MTR_4g046723 67.391 92 6 1 1 92 13 80 1.83e-34 124
MsG0380013958.01.T02 MTR_3g029540 95.349 43 2 0 159 201 44 86 3.95e-23 89.4
MsG0380013958.01.T02 MTR_7g012800 97.436 39 1 0 186 224 139 177 3.57e-18 79.3
MsG0380013958.01.T01 MTR_4g051110 97.458 236 6 0 1 236 1 236 1.82e-175 481
MsG0380013958.01.T01 MTR_7g116690 80.085 236 21 2 1 236 1 210 2.46e-134 377
MsG0380013958.01.T01 MTR_0002s0530 76.211 227 54 0 1 227 1 227 3.13e-129 374
MsG0380013958.01.T01 MTR_4g046723 69.231 104 8 1 1 104 1 80 7.30e-43 147
MsG0380013958.01.T01 MTR_3g029540 95.349 43 2 0 171 213 44 86 4.24e-23 89.7
MsG0380013958.01.T01 MTR_7g012800 97.436 39 1 0 198 236 139 177 4.02e-18 79.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013958.01.T02 ATCG00160 89.686 223 23 0 1 223 13 235 2.71e-149 415
MsG0380013958.01.T01 ATCG00160 89.362 235 25 0 1 235 1 235 5.76e-158 437

Find 37 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTCATTTGGAAACATATC+TGG 0.181531 3:-48510084 MsG0380013958.01.T01:CDS
TTACGCTTTGCCGATATAAA+AGG 0.251568 3:+48510422 None:intergenic
ATGGAAGCTGGAGTTCATTT+TGG 0.255790 3:-48510479 MsG0380013958.01.T01:CDS
CAAGAGACAATTATCTCATT+TGG 0.294663 3:-48510096 MsG0380013958.01.T01:CDS
ATCAACGATTATTACAATAT+CGG 0.341941 3:+48510034 None:intergenic
TTTATCAGAAGCTTGTGATT+TGG 0.358806 3:-48510360 MsG0380013958.01.T01:CDS
CTAATTTGTTAAGAATTAAT+CGG 0.359442 3:+48509877 None:intergenic
ATCGAAATATCTGCTAGATC+TGG 0.363586 3:+48509930 None:intergenic
CTTCGAGAATGTATCACTTT+GGG 0.388824 3:-48509990 MsG0380013958.01.T01:CDS
GGAAAACAATTCTTAATTGT+TGG 0.390734 3:-48510317 MsG0380013958.01.T01:CDS
AAACGAGACTTCGTAAGTTC+AGG 0.412190 3:-48510184 MsG0380013958.01.T01:CDS
TGCAGCCCGTGTTACTGAAT+CGG 0.431042 3:+48510277 None:intergenic
TGATCAGCAAGAAGAATATA+CGG 0.437056 3:-48510015 MsG0380013958.01.T01:CDS
TCGGAGGTATGTTAACGAAT+TGG 0.448395 3:-48510217 MsG0380013958.01.T01:CDS
TTGGCCATGATACTCGGAAA+TGG 0.459897 3:-48510460 MsG0380013958.01.T01:CDS
TCTTCGAGAATGTATCACTT+TGG 0.477646 3:-48509991 MsG0380013958.01.T01:CDS
AACGAGACTTCGTAAGTTCA+GGG 0.478021 3:-48510183 MsG0380013958.01.T01:CDS
TCAACGATTATTACAATATC+GGG 0.480431 3:+48510035 None:intergenic
TTGAGAACGGAGCAAAAGAC+AGG 0.482432 3:-48510158 MsG0380013958.01.T01:CDS
GATTCCATTTCCGAGTATCA+TGG 0.488914 3:+48510456 None:intergenic
TTTGAAGAGATGATGGAAGC+TGG 0.489132 3:-48510491 MsG0380013958.01.T01:CDS
GTATCGATTAAACAAATCGT+TGG 0.491426 3:+48509963 None:intergenic
GCTATAGCATCATCATTAGC+TGG 0.518853 3:+48509906 None:intergenic
TCGAAATATCTGCTAGATCT+GGG 0.525094 3:+48509931 None:intergenic
TTTATATCGGCAAAGCGTAA+AGG 0.529937 3:-48510419 MsG0380013958.01.T01:CDS
GATATAAAAGGTGCCATTCG+AGG 0.542260 3:+48510434 None:intergenic
TCTCATTTGGAAACATATCT+GGG 0.550552 3:-48510083 MsG0380013958.01.T01:CDS
GGGTGGCATAAAATATATGA+CGG 0.585418 3:-48510063 MsG0380013958.01.T01:CDS
TAAGTTCAGGGACTTGAGAA+CGG 0.589134 3:-48510171 MsG0380013958.01.T01:CDS
GGTGGCATAAAATATATGAC+GGG 0.610359 3:-48510062 MsG0380013958.01.T01:CDS
AGCAGCCGATTCAGTAACAC+GGG 0.610911 3:-48510282 MsG0380013958.01.T01:CDS
TCGGAAATGGAATCCTCGAA+TGG 0.635386 3:-48510447 MsG0380013958.01.T01:CDS
AAGCAGCCGATTCAGTAACA+CGG 0.653513 3:-48510283 MsG0380013958.01.T01:CDS
TGAGAACGGAGCAAAAGACA+GGG 0.670658 3:-48510157 MsG0380013958.01.T01:CDS
CATTTGGAAACATATCTGGG+TGG 0.732935 3:-48510080 MsG0380013958.01.T01:CDS
GTGGCATAAAATATATGACG+GGG 0.737363 3:-48510061 MsG0380013958.01.T01:CDS
TAATTGTCTCTTGAACATAG+CGG 0.783646 3:+48510106 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTCATTATGTTAATAAAAAA+TGG - Chr3:48510107-48510126 MsG0380013958.01.T01:CDS 15.0%
!!! CTAATTTGTTAAGAATTAAT+CGG + Chr3:48510474-48510493 None:intergenic 15.0%
!! ATCAACGATTATTACAATAT+CGG + Chr3:48510317-48510336 None:intergenic 20.0%
!! TATGTTAATAAAAAATGGCT+CGG - Chr3:48510112-48510131 MsG0380013958.01.T01:CDS 20.0%
! GGAAAACAATTCTTAATTGT+TGG - Chr3:48510031-48510050 MsG0380013958.01.T01:CDS 25.0%
! TCAACGATTATTACAATATC+GGG + Chr3:48510316-48510335 None:intergenic 25.0%
!!! ATTAGTTTTTGCAATTTGTG+AGG - Chr3:48510489-48510508 MsG0380013958.01.T01:CDS 25.0%
!!! TTAGTTTTTGCAATTTGTGA+GGG - Chr3:48510490-48510509 MsG0380013958.01.T01:CDS 25.0%
ATCTCATTTGGAAACATATC+TGG - Chr3:48510264-48510283 MsG0380013958.01.T01:CDS 30.0%
CAAGAGACAATTATCTCATT+TGG - Chr3:48510252-48510271 MsG0380013958.01.T01:CDS 30.0%
TAATTGTCTCTTGAACATAG+CGG + Chr3:48510245-48510264 None:intergenic 30.0%
TCTCATTTGGAAACATATCT+GGG - Chr3:48510265-48510284 MsG0380013958.01.T01:CDS 30.0%
TGATCAGCAAGAAGAATATA+CGG - Chr3:48510333-48510352 MsG0380013958.01.T01:CDS 30.0%
TTTATCAGAAGCTTGTGATT+TGG - Chr3:48509988-48510007 MsG0380013958.01.T01:CDS 30.0%
!! CATAACTTTTGAAGAGATGA+TGG - Chr3:48509850-48509869 MsG0380013958.01.T01:CDS 30.0%
!! GTATCGATTAAACAAATCGT+TGG + Chr3:48510388-48510407 None:intergenic 30.0%
ATCGAAATATCTGCTAGATC+TGG + Chr3:48510421-48510440 None:intergenic 35.0%
CTTCGAGAATGTATCACTTT+GGG - Chr3:48510358-48510377 MsG0380013958.01.T01:CDS 35.0%
GGGTGGCATAAAATATATGA+CGG - Chr3:48510285-48510304 MsG0380013958.01.T01:CDS 35.0%
GGTGGCATAAAATATATGAC+GGG - Chr3:48510286-48510305 MsG0380013958.01.T01:CDS 35.0%
GTGGCATAAAATATATGACG+GGG - Chr3:48510287-48510306 MsG0380013958.01.T01:CDS 35.0%
TCGAAATATCTGCTAGATCT+GGG + Chr3:48510420-48510439 None:intergenic 35.0%
TCTTCGAGAATGTATCACTT+TGG - Chr3:48510357-48510376 MsG0380013958.01.T01:CDS 35.0%
TTACGCTTTGCCGATATAAA+AGG + Chr3:48509929-48509948 None:intergenic 35.0%
TTTATATCGGCAAAGCGTAA+AGG - Chr3:48509929-48509948 MsG0380013958.01.T01:CDS 35.0%
! GTTAATAAAAAATGGCTCGG+AGG - Chr3:48510115-48510134 MsG0380013958.01.T01:CDS 35.0%
! TCGAATGGCACCTTTTATAT+CGG - Chr3:48509916-48509935 MsG0380013958.01.T01:CDS 35.0%
!! TTCATTTTGGCCATGATACT+CGG - Chr3:48509882-48509901 MsG0380013958.01.T01:CDS 35.0%
AAACGAGACTTCGTAAGTTC+AGG - Chr3:48510164-48510183 MsG0380013958.01.T01:CDS 40.0%
AACGAGACTTCGTAAGTTCA+GGG - Chr3:48510165-48510184 MsG0380013958.01.T01:CDS 40.0%
CATTTGGAAACATATCTGGG+TGG - Chr3:48510268-48510287 MsG0380013958.01.T01:CDS 40.0%
GATTCCATTTCCGAGTATCA+TGG + Chr3:48509895-48509914 None:intergenic 40.0%
GCTATAGCATCATCATTAGC+TGG + Chr3:48510445-48510464 None:intergenic 40.0%
TAAGTTCAGGGACTTGAGAA+CGG - Chr3:48510177-48510196 MsG0380013958.01.T01:CDS 40.0%
! AACATAGCGGCATCTCTTTT+TGG + Chr3:48510232-48510251 None:intergenic 40.0%
! ATGGAAGCTGGAGTTCATTT+TGG - Chr3:48509869-48509888 MsG0380013958.01.T01:CDS 40.0%
! GTTTTTGATGCAGCAAGCAT+GGG - Chr3:48510010-48510029 MsG0380013958.01.T01:CDS 40.0%
! TCGGAGGTATGTTAACGAAT+TGG - Chr3:48510131-48510150 MsG0380013958.01.T01:CDS 40.0%
!! GATATAAAAGGTGCCATTCG+AGG + Chr3:48509917-48509936 None:intergenic 40.0%
!! TTTGAAGAGATGATGGAAGC+TGG - Chr3:48509857-48509876 MsG0380013958.01.T01:CDS 40.0%
TCGGAAATGGAATCCTCGAA+TGG - Chr3:48509901-48509920 MsG0380013958.01.T01:CDS 45.0%
TGAGAACGGAGCAAAAGACA+GGG - Chr3:48510191-48510210 MsG0380013958.01.T01:CDS 45.0%
TTGAGAACGGAGCAAAAGAC+AGG - Chr3:48510190-48510209 MsG0380013958.01.T01:CDS 45.0%
TTGGCCATGATACTCGGAAA+TGG - Chr3:48509888-48509907 MsG0380013958.01.T01:CDS 45.0%
! AAGCAGCCGATTCAGTAACA+CGG - Chr3:48510065-48510084 MsG0380013958.01.T01:CDS 45.0%
! GGTTTTTGATGCAGCAAGCA+TGG - Chr3:48510009-48510028 MsG0380013958.01.T01:CDS 45.0%
! AGCAGCCGATTCAGTAACAC+GGG - Chr3:48510066-48510085 MsG0380013958.01.T01:CDS 50.0%
! TGCAGCCCGTGTTACTGAAT+CGG + Chr3:48510074-48510093 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48509830 48510540 48509830 ID=MsG0380013958.01;Name=MsG0380013958.01
Chr3 mRNA 48509830 48510540 48509830 ID=MsG0380013958.01.T01;Parent=MsG0380013958.01;Name=MsG0380013958.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|236
Chr3 exon 48509830 48510540 48509830 ID=MsG0380013958.01.T01:exon:9201;Parent=MsG0380013958.01.T01
Chr3 CDS 48509830 48510540 48509830 ID=MsG0380013958.01.T01:cds;Parent=MsG0380013958.01.T01
Chr3 mRNA 48509830 48510504 48509830 ID=MsG0380013958.01.T02;Parent=MsG0380013958.01;Name=MsG0380013958.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|224
Chr3 exon 48509830 48510504 48509830 ID=MsG0380013958.01.T02:exon:9202;Parent=MsG0380013958.01.T02
Chr3 CDS 48509830 48510504 48509830 ID=MsG0380013958.01.T02:cds;Parent=MsG0380013958.01.T02
Gene Sequence

>MsG0380013958.01.T02

ATGATGGAAGCTGGAGTTCATTTTGGCCATGATACTCGGAAATGGAATCCTCGAATGGCACCTTTTATATCGGCAAAGCGTAAAGGTATTCATATTACAAATCTTACTCGAACTGCTCGTTTTTTATCAGAAGCTTGTGATTTGGTTTTTGATGCAGCAAGCATGGGAAAACAATTCTTAATTGTTGGTACAAAAAAAAAAGCAGCCGATTCAGTAACACGGGCTGCAATAAGAGCTCGATGTCATTATGTTAATAAAAAATGGCTCGGAGGTATGTTAACGAATTGGTATACTACAGAAACGAGACTTCGTAAGTTCAGGGACTTGAGAACGGAGCAAAAGACAGGGAAACTGAACTCTCTTCCAAAAAGAGATGCCGCTATGTTCAAGAGACAATTATCTCATTTGGAAACATATCTGGGTGGCATAAAATATATGACGGGGTTACCCGATATTGTAATAATCGTTGATCAGCAAGAAGAATATACGGCTCTTCGAGAATGTATCACTTTGGGAATTCCAACGATTTGTTTAATCGATACAAATTGTGACCCAGATCTAGCAGATATTTCGATTCCAGCTAATGATGATGCTATAGCTTCAATCCGATTAATTCTTAACAAATTAGTTTTTGCAATTTGTGAGGGTCGTTCTAGCTATATACGAAATTTTTGA

>MsG0380013958.01.T01

ATGACAAAAAGATATTGGAACATAACTTTTGAAGAGATGATGGAAGCTGGAGTTCATTTTGGCCATGATACTCGGAAATGGAATCCTCGAATGGCACCTTTTATATCGGCAAAGCGTAAAGGTATTCATATTACAAATCTTACTCGAACTGCTCGTTTTTTATCAGAAGCTTGTGATTTGGTTTTTGATGCAGCAAGCATGGGAAAACAATTCTTAATTGTTGGTACAAAAAAAAAAGCAGCCGATTCAGTAACACGGGCTGCAATAAGAGCTCGATGTCATTATGTTAATAAAAAATGGCTCGGAGGTATGTTAACGAATTGGTATACTACAGAAACGAGACTTCGTAAGTTCAGGGACTTGAGAACGGAGCAAAAGACAGGGAAACTGAACTCTCTTCCAAAAAGAGATGCCGCTATGTTCAAGAGACAATTATCTCATTTGGAAACATATCTGGGTGGCATAAAATATATGACGGGGTTACCCGATATTGTAATAATCGTTGATCAGCAAGAAGAATATACGGCTCTTCGAGAATGTATCACTTTGGGAATTCCAACGATTTGTTTAATCGATACAAATTGTGACCCAGATCTAGCAGATATTTCGATTCCAGCTAATGATGATGCTATAGCTTCAATCCGATTAATTCTTAACAAATTAGTTTTTGCAATTTGTGAGGGTCGTTCTAGCTATATACGAAATTTTTGA

Protein sequence

>MsG0380013958.01.T02

MMEAGVHFGHDTRKWNPRMAPFISAKRKGIHITNLTRTARFLSEACDLVFDAASMGKQFLIVGTKKKAADSVTRAAIRARCHYVNKKWLGGMLTNWYTTETRLRKFRDLRTEQKTGKLNSLPKRDAAMFKRQLSHLETYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTICLIDTNCDPDLADISIPANDDAIASIRLILNKLVFAICEGRSSYIRNF*

>MsG0380013958.01.T01

MTKRYWNITFEEMMEAGVHFGHDTRKWNPRMAPFISAKRKGIHITNLTRTARFLSEACDLVFDAASMGKQFLIVGTKKKAADSVTRAAIRARCHYVNKKWLGGMLTNWYTTETRLRKFRDLRTEQKTGKLNSLPKRDAAMFKRQLSHLETYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTICLIDTNCDPDLADISIPANDDAIASIRLILNKLVFAICEGRSSYIRNF*