AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380015201.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015201.01.T01 MTR_3g064900 96.000 200 8 0 1 200 164 363 5.82e-143 402
MsG0380015201.01.T01 MTR_6g038640 51.282 195 93 1 6 200 167 359 8.74e-66 206
MsG0380015201.01.T01 MTR_6g038350 49.744 195 96 1 6 200 169 361 1.89e-61 195
MsG0380015201.01.T01 MTR_6g038370 49.744 195 96 1 6 200 169 361 1.89e-61 195
MsG0380015201.01.T01 MTR_6g038650 49.744 195 91 2 6 200 167 354 3.52e-61 194
MsG0380015201.01.T01 MTR_6g038390 47.236 199 103 1 2 200 165 361 7.11e-61 194
MsG0380015201.01.T01 MTR_1g097250 49.231 195 97 1 6 200 166 358 1.43e-60 193
MsG0380015201.01.T01 MTR_6g066230 40.909 198 112 3 6 200 167 362 3.79e-46 156
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015201.01.T01 AT1G66130 50.739 203 94 3 2 200 164 364 1.04e-65 206
MsG0380015201.01.T01 AT4G09670 51.531 196 93 1 5 200 166 359 4.22e-64 202
MsG0380015201.01.T01 AT1G34200 44.162 197 97 3 4 200 166 349 3.57e-48 160

Find 53 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGCAAGTATTAGAGATTA+TGG 0.187812 3:+66748739 MsG0380015201.01.T01:CDS
TGAGTCTTTCTACTAATTTC+TGG 0.203414 3:-66748784 None:intergenic
GCCAACAACTCAAGAATTCT+TGG 0.283873 3:+66748267 MsG0380015201.01.T01:CDS
ACTGCATTGGTGCATCCTTA+TGG 0.311051 3:+66748353 MsG0380015201.01.T01:CDS
TTGTAAACTACCTAGCTATA+AGG 0.315546 3:-66748860 None:intergenic
GCTTCATTTGACTTCACATT+TGG 0.336307 3:+66748607 MsG0380015201.01.T01:CDS
TCCAAGAATTCTTGAGTTGT+TGG 0.338304 3:-66748268 None:intergenic
TTGCAAGTATTAGAGATTAT+GGG 0.349073 3:+66748740 MsG0380015201.01.T01:CDS
CTTGTAGCCCTTTGCCCATA+AGG 0.361945 3:-66748368 None:intergenic
GGTCTCAGCCTTCTACAAAA+TGG 0.364608 3:+66748761 MsG0380015201.01.T01:CDS
GAAGCACTAGTCTCCTTGTA+TGG 0.385920 3:-66748589 None:intergenic
CTGCATTGGTGCATCCTTAT+GGG 0.395767 3:+66748354 MsG0380015201.01.T01:CDS
CAATGGGTCTATGCATCTTA+AGG 0.404896 3:+66748555 MsG0380015201.01.T01:CDS
ATATTTGCAACTGTTTGATT+TGG 0.405206 3:-66748481 None:intergenic
CTACCTAGCTATAAGGAAAC+AGG 0.424774 3:-66748853 None:intergenic
TTGGCAACATGAACTTCCTC+TGG 0.425477 3:-66748670 None:intergenic
AATCACATCTTCTTTGCAAT+GGG 0.432768 3:+66748453 MsG0380015201.01.T01:CDS
TTGGATGCTCTTGGTGCACT+TGG 0.443647 3:+66748316 MsG0380015201.01.T01:CDS
GCCGCATTTCGTGTGACGTC+GGG 0.450586 3:-66748415 None:intergenic
AATTTGTTGATCTTCACATT+GGG 0.460791 3:+66748635 MsG0380015201.01.T01:CDS
CAATCACATCTTCTTTGCAA+TGG 0.469069 3:+66748452 MsG0380015201.01.T01:CDS
TGATGATACAAGAGTTTGCT+AGG 0.472779 3:+66748713 MsG0380015201.01.T01:CDS
TTGCAACTGTTTGATTTGGT+TGG 0.486478 3:-66748477 None:intergenic
GTATCATCAAAGCTTCTTGA+GGG 0.492116 3:-66748699 None:intergenic
ATTTCTTTCTCATACGTCCA+TGG 0.497669 3:+66748513 MsG0380015201.01.T01:CDS
GGAAGCGCGGTGACGGTGGT+TGG 0.503525 3:-66748394 None:intergenic
AATTAGTAGAAAGACTCAAT+TGG 0.503887 3:+66748789 MsG0380015201.01.T01:CDS
TTGTTGATCTTCACATTGGG+TGG 0.508424 3:+66748638 MsG0380015201.01.T01:CDS
TTATCTATAAGTGGTTCCAA+TGG 0.509254 3:+66748538 MsG0380015201.01.T01:CDS
GACGTCGGGAAGCGCGGTGA+CGG 0.509701 3:-66748401 None:intergenic
AGCTTCTTGAGGGAGCTTGT+TGG 0.517538 3:-66748689 None:intergenic
GGCCGCATTTCGTGTGACGT+CGG 0.517811 3:-66748416 None:intergenic
CTTAAGATGCATAGACCCAT+TGG 0.520577 3:-66748554 None:intergenic
AAGCCAGAGTTGGATGCTCT+TGG 0.523659 3:+66748307 MsG0380015201.01.T01:CDS
GCACCAAGAGCATCCAACTC+TGG 0.532801 3:-66748310 None:intergenic
TGGTGCATCCTTATGGGCAA+AGG 0.534190 3:+66748360 MsG0380015201.01.T01:CDS
CATTAGAGTAAAGCCAGAGT+TGG 0.540850 3:+66748297 MsG0380015201.01.T01:CDS
TATCTATAAGTGGTTCCAAT+GGG 0.541220 3:+66748539 MsG0380015201.01.T01:CDS
GTCGGGAAGCGCGGTGACGG+TGG 0.543015 3:-66748398 None:intergenic
GGTGCATCCTTATGGGCAAA+GGG 0.546980 3:+66748361 MsG0380015201.01.T01:CDS
TGTATCATCAAAGCTTCTTG+AGG 0.553516 3:-66748700 None:intergenic
TCCATGGACTTATCTATAAG+TGG 0.554506 3:+66748529 MsG0380015201.01.T01:CDS
AAATTTGTTGATCTTCACAT+TGG 0.555127 3:+66748634 MsG0380015201.01.T01:CDS
GACTTAGCATGGTACTGCAT+TGG 0.559827 3:+66748340 MsG0380015201.01.T01:CDS
GTGCACTTGGTGACTTAGCA+TGG 0.559952 3:+66748329 MsG0380015201.01.T01:CDS
AAGCACTAGTCTCCTTGTAT+GGG 0.562955 3:-66748588 None:intergenic
TCGTGTGACGTCGGGAAGCG+CGG 0.588189 3:-66748407 None:intergenic
GACGTCACACGAAATGCGGC+CGG 0.594201 3:+66748418 MsG0380015201.01.T01:CDS
TCCCGACGTCACACGAAATG+CGG 0.596125 3:+66748414 MsG0380015201.01.T01:CDS
GGACTTCATAATCCCATACA+AGG 0.597873 3:+66748576 MsG0380015201.01.T01:CDS
ACCACTTATAGATAAGTCCA+TGG 0.629957 3:-66748530 None:intergenic
TGTGATTGATAATATGACTC+CGG 0.634032 3:-66748437 None:intergenic
TGGGTGGAATGTGAGACCAG+AGG 0.750850 3:+66748654 MsG0380015201.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATTAGTAGAAAGACTCAAT+TGG + Chr3:66748789-66748808 MsG0380015201.01.T01:CDS 25.0%
! ATATTTGCAACTGTTTGATT+TGG - Chr3:66748484-66748503 None:intergenic 25.0%
! TTGCAAGTATTAGAGATTAT+GGG + Chr3:66748740-66748759 MsG0380015201.01.T01:CDS 25.0%
!!! AAATTTGTTGATCTTCACAT+TGG + Chr3:66748634-66748653 MsG0380015201.01.T01:CDS 25.0%
!!! AATTTGTTGATCTTCACATT+GGG + Chr3:66748635-66748654 MsG0380015201.01.T01:CDS 25.0%
AATCACATCTTCTTTGCAAT+GGG + Chr3:66748453-66748472 MsG0380015201.01.T01:CDS 30.0%
GTTGCAAGTATTAGAGATTA+TGG + Chr3:66748739-66748758 MsG0380015201.01.T01:CDS 30.0%
TATCTATAAGTGGTTCCAAT+GGG + Chr3:66748539-66748558 MsG0380015201.01.T01:CDS 30.0%
TGAGTCTTTCTACTAATTTC+TGG - Chr3:66748787-66748806 None:intergenic 30.0%
TTATCTATAAGTGGTTCCAA+TGG + Chr3:66748538-66748557 MsG0380015201.01.T01:CDS 30.0%
! TGTGATTGATAATATGACTC+CGG - Chr3:66748440-66748459 None:intergenic 30.0%
ACCACTTATAGATAAGTCCA+TGG - Chr3:66748533-66748552 None:intergenic 35.0%
ATTTCTTTCTCATACGTCCA+TGG + Chr3:66748513-66748532 MsG0380015201.01.T01:CDS 35.0%
CAATCACATCTTCTTTGCAA+TGG + Chr3:66748452-66748471 MsG0380015201.01.T01:CDS 35.0%
GTATCATCAAAGCTTCTTGA+GGG - Chr3:66748702-66748721 None:intergenic 35.0%
TCCATGGACTTATCTATAAG+TGG + Chr3:66748529-66748548 MsG0380015201.01.T01:CDS 35.0%
TGTATCATCAAAGCTTCTTG+AGG - Chr3:66748703-66748722 None:intergenic 35.0%
! GCTTCATTTGACTTCACATT+TGG + Chr3:66748607-66748626 MsG0380015201.01.T01:CDS 35.0%
! TCCAAGAATTCTTGAGTTGT+TGG - Chr3:66748271-66748290 None:intergenic 35.0%
! TGATGATACAAGAGTTTGCT+AGG + Chr3:66748713-66748732 MsG0380015201.01.T01:CDS 35.0%
!! GTGAAAAAGTCTTTAGAGCT+TGG + Chr3:66748823-66748842 MsG0380015201.01.T01:CDS 35.0%
!! TTGCAACTGTTTGATTTGGT+TGG - Chr3:66748480-66748499 None:intergenic 35.0%
!!! ATTTCTGGCCATTTTGTAGA+AGG - Chr3:66748772-66748791 None:intergenic 35.0%
CAATGGGTCTATGCATCTTA+AGG + Chr3:66748555-66748574 MsG0380015201.01.T01:CDS 40.0%
CATTAGAGTAAAGCCAGAGT+TGG + Chr3:66748297-66748316 MsG0380015201.01.T01:CDS 40.0%
CTTAAGATGCATAGACCCAT+TGG - Chr3:66748557-66748576 None:intergenic 40.0%
GCCAACAACTCAAGAATTCT+TGG + Chr3:66748267-66748286 MsG0380015201.01.T01:CDS 40.0%
GGACTTCATAATCCCATACA+AGG + Chr3:66748576-66748595 MsG0380015201.01.T01:CDS 40.0%
TTGTTGATCTTCACATTGGG+TGG + Chr3:66748638-66748657 MsG0380015201.01.T01:CDS 40.0%
! AAGCACTAGTCTCCTTGTAT+GGG - Chr3:66748591-66748610 None:intergenic 40.0%
GACTTAGCATGGTACTGCAT+TGG + Chr3:66748340-66748359 MsG0380015201.01.T01:CDS 45.0%
GGTCTCAGCCTTCTACAAAA+TGG + Chr3:66748761-66748780 MsG0380015201.01.T01:CDS 45.0%
TTGGCAACATGAACTTCCTC+TGG - Chr3:66748673-66748692 None:intergenic 45.0%
! ACTGCATTGGTGCATCCTTA+TGG + Chr3:66748353-66748372 MsG0380015201.01.T01:CDS 45.0%
! CTGCATTGGTGCATCCTTAT+GGG + Chr3:66748354-66748373 MsG0380015201.01.T01:CDS 45.0%
! GAAGCACTAGTCTCCTTGTA+TGG - Chr3:66748592-66748611 None:intergenic 45.0%
AAGCCAGAGTTGGATGCTCT+TGG + Chr3:66748307-66748326 MsG0380015201.01.T01:CDS 50.0%
AGCTTCTTGAGGGAGCTTGT+TGG - Chr3:66748692-66748711 None:intergenic 50.0%
CTTGTAGCCCTTTGCCCATA+AGG - Chr3:66748371-66748390 None:intergenic 50.0%
GGTGCATCCTTATGGGCAAA+GGG + Chr3:66748361-66748380 MsG0380015201.01.T01:CDS 50.0%
TGGTGCATCCTTATGGGCAA+AGG + Chr3:66748360-66748379 MsG0380015201.01.T01:CDS 50.0%
! GTGCACTTGGTGACTTAGCA+TGG + Chr3:66748329-66748348 MsG0380015201.01.T01:CDS 50.0%
! TTGGATGCTCTTGGTGCACT+TGG + Chr3:66748316-66748335 MsG0380015201.01.T01:CDS 50.0%
TCCCGACGTCACACGAAATG+CGG + Chr3:66748414-66748433 MsG0380015201.01.T01:CDS 55.0%
TGGGTGGAATGTGAGACCAG+AGG + Chr3:66748654-66748673 MsG0380015201.01.T01:CDS 55.0%
!! GCACCAAGAGCATCCAACTC+TGG - Chr3:66748313-66748332 None:intergenic 55.0%
GACGTCACACGAAATGCGGC+CGG + Chr3:66748418-66748437 MsG0380015201.01.T01:CDS 60.0%
GCCGCATTTCGTGTGACGTC+GGG - Chr3:66748418-66748437 None:intergenic 60.0%
GGCCGCATTTCGTGTGACGT+CGG - Chr3:66748419-66748438 None:intergenic 60.0%
TCGTGTGACGTCGGGAAGCG+CGG - Chr3:66748410-66748429 None:intergenic 65.0%
! GACGTCGGGAAGCGCGGTGA+CGG - Chr3:66748404-66748423 None:intergenic 70.0%
! GGAAGCGCGGTGACGGTGGT+TGG - Chr3:66748397-66748416 None:intergenic 70.0%
! GTCGGGAAGCGCGGTGACGG+TGG - Chr3:66748401-66748420 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr3 gene 66748265 66748867 66748265 ID=MsG0380015201.01;Name=MsG0380015201.01
Chr3 mRNA 66748265 66748867 66748265 ID=MsG0380015201.01.T01;Parent=MsG0380015201.01;Name=MsG0380015201.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|200
Chr3 exon 66748265 66748867 66748265 ID=MsG0380015201.01.T01:exon:23092;Parent=MsG0380015201.01.T01
Chr3 CDS 66748265 66748867 66748265 ID=MsG0380015201.01.T01:cds;Parent=MsG0380015201.01.T01
Gene Sequence

>MsG0380015201.01.T01

ATGCCAACAACTCAAGAATTCTTGGAGAATAACATTAGAGTAAAGCCAGAGTTGGATGCTCTTGGTGCACTTGGTGACTTAGCATGGTACTGCATTGGTGCATCCTTATGGGCAAAGGGCTACAAGCTACCAACCACCGTCACCGCGCTTCCCGACGTCACACGAAATGCGGCCGGAGTCATATTATCAATCACATCTTCTTTGCAATGGGACCAACCAAATCAAACAGTTGCAAATATTCACTGCTCATTTCTTTCTCATACGTCCATGGACTTATCTATAAGTGGTTCCAATGGGTCTATGCATCTTAAGGACTTCATAATCCCATACAAGGAGACTAGTGCTTCATTTGACTTCACATTTGGTGCAAAATTTGTTGATCTTCACATTGGGTGGAATGTGAGACCAGAGGAAGTTCATGTTGCCAACAAGCTCCCTCAAGAAGCTTTGATGATACAAGAGTTTGCTAGGCTTGTTGCAAGTATTAGAGATTATGGGTCTCAGCCTTCTACAAAATGGCCAGAAATTAGTAGAAAGACTCAATTGGTAGTTGATGCTGTGAAAAAGTCTTTAGAGCTTGGCTGCAAACCTGTTTCCTTATAG

Protein sequence

>MsG0380015201.01.T01

MPTTQEFLENNIRVKPELDALGALGDLAWYCIGASLWAKGYKLPTTVTALPDVTRNAAGVILSITSSLQWDQPNQTVANIHCSFLSHTSMDLSISGSNGSMHLKDFIIPYKETSASFDFTFGAKFVDLHIGWNVRPEEVHVANKLPQEALMIQEFARLVASIRDYGSQPSTKWPEISRKTQLVVDAVKKSLELGCKPVSL*