AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017346.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017346.01.T01 MTR_3g105730 98.824 85 1 0 5 89 215 299 4.50e-56 175
MsG0380017346.01.T01 MTR_3g105730 98.824 85 1 0 5 89 193 277 4.71e-56 174
MsG0380017346.01.T01 MTR_1g014640 89.873 79 7 1 5 82 258 336 2.76e-43 143
MsG0380017346.01.T01 MTR_1g013400 89.873 79 7 1 5 82 258 336 2.76e-43 143
MsG0380017346.01.T01 MTR_1g115570 60.606 66 25 1 5 70 273 337 5.52e-23 90.1
MsG0380017346.01.T01 MTR_8g463130 60.656 61 24 0 10 70 193 253 3.23e-19 79.0
MsG0380017346.01.T01 MTR_8g463130 60.656 61 24 0 10 70 221 281 3.80e-19 79.3
MsG0380017346.01.T01 MTR_4g094208 56.061 66 29 0 5 70 211 276 1.00e-18 77.8
MsG0380017346.01.T01 MTR_1g075730 50.000 68 34 0 3 70 210 277 1.85e-18 77.4
MsG0380017346.01.T01 MTR_1g075730 50.000 68 34 0 3 70 206 273 1.86e-18 77.0
MsG0380017346.01.T01 MTR_5g063940 55.738 61 27 0 10 70 174 234 1.54e-17 74.3
MsG0380017346.01.T01 MTR_5g063940 55.738 61 27 0 10 70 221 281 2.58e-17 74.3
MsG0380017346.01.T01 MTR_3g091060 57.576 66 28 0 5 70 275 340 2.72e-17 75.1
MsG0380017346.01.T01 MTR_2g078760 55.556 63 28 0 8 70 191 253 3.20e-17 73.6
MsG0380017346.01.T01 MTR_2g008850 50.000 66 33 0 5 70 169 234 3.80e-17 73.2
MsG0380017346.01.T01 MTR_2g078760 55.556 63 28 0 8 70 270 332 5.47e-17 73.9
MsG0380017346.01.T01 MTR_2g008850 50.000 66 33 0 5 70 215 280 7.71e-17 72.8
MsG0380017346.01.T01 MTR_3g074610 50.000 66 33 0 5 70 216 281 1.02e-16 72.8
MsG0380017346.01.T01 MTR_1g041475 52.459 61 29 0 10 70 213 273 1.13e-16 72.4
MsG0380017346.01.T01 MTR_4g094542 50.794 63 31 0 8 70 302 364 2.90e-16 72.0
MsG0380017346.01.T01 MTR_1g050520 44.595 74 39 2 5 77 578 650 4.46e-12 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017346.01.T01 AT4G31750 83.333 78 13 0 5 82 214 291 7.68e-39 131
MsG0380017346.01.T01 AT4G31750 83.333 78 13 0 5 82 214 291 7.68e-39 131
MsG0380017346.01.T01 AT4G31750 83.333 78 13 0 5 82 214 291 8.08e-39 130
MsG0380017346.01.T01 AT5G24940 74.627 67 17 0 5 71 214 280 7.99e-30 109
MsG0380017346.01.T01 AT5G10740 73.134 67 18 0 5 71 214 280 1.26e-29 108
MsG0380017346.01.T01 AT5G10740 73.134 67 18 0 5 71 214 280 1.26e-29 108
MsG0380017346.01.T01 AT1G43900 60.606 66 25 1 5 70 304 368 4.22e-23 90.9
MsG0380017346.01.T01 AT5G53140 47.561 82 43 0 5 86 282 363 2.39e-20 83.6
MsG0380017346.01.T01 AT5G53140 47.561 82 43 0 5 86 282 363 2.39e-20 83.6
MsG0380017346.01.T01 AT2G20630 50.000 66 33 0 5 70 213 278 1.32e-18 77.8
MsG0380017346.01.T01 AT3G15260 60.317 63 25 0 8 70 226 288 1.22e-17 75.1
MsG0380017346.01.T01 AT3G15260 60.317 63 25 0 8 70 226 288 1.22e-17 75.1
MsG0380017346.01.T01 AT4G28400 48.485 66 34 0 5 70 195 260 1.43e-17 74.7
MsG0380017346.01.T01 AT4G28400 48.485 66 34 0 5 70 217 282 1.87e-17 74.7
MsG0380017346.01.T01 AT2G20630 45.205 73 40 0 5 77 213 285 2.93e-17 74.3
MsG0380017346.01.T01 AT1G22280 50.000 66 33 0 5 70 221 286 1.01e-16 72.8
MsG0380017346.01.T01 AT1G22280 50.000 66 33 0 5 70 215 280 1.03e-16 72.8
MsG0380017346.01.T01 AT1G78200 48.485 66 34 0 5 70 172 237 1.27e-16 72.0
MsG0380017346.01.T01 AT1G78200 48.485 66 34 0 5 70 172 237 1.27e-16 72.0
MsG0380017346.01.T01 AT1G78200 48.485 66 34 0 5 70 217 282 1.69e-16 72.0
MsG0380017346.01.T01 AT1G78200 48.485 66 34 0 5 70 217 282 1.69e-16 72.0
MsG0380017346.01.T01 AT1G78200 48.485 66 34 0 5 70 217 282 1.69e-16 72.0
MsG0380017346.01.T01 AT3G23360 45.588 68 37 0 3 70 192 259 7.73e-16 70.1
MsG0380017346.01.T01 AT2G34740 55.556 63 28 0 9 71 273 335 2.96e-15 69.3
MsG0380017346.01.T01 AT1G34750 43.939 66 37 0 5 70 216 281 1.10e-14 67.4
MsG0380017346.01.T01 AT1G34750 43.939 66 37 0 5 70 216 281 1.10e-14 67.4
MsG0380017346.01.T01 AT1G34750 43.939 66 37 0 5 70 216 281 1.10e-14 67.4
MsG0380017346.01.T01 AT2G40860 50.000 64 30 2 15 77 592 654 3.66e-13 63.5
MsG0380017346.01.T01 AT2G40860 50.000 64 30 2 15 77 494 556 4.32e-13 63.5
MsG0380017346.01.T01 AT2G40180 39.706 68 35 2 9 70 318 385 7.97e-11 57.0

Find 34 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCTAGAGTTTCTTATTC+TGG 0.200352 3:-95217363 MsG0380017346.01.T01:CDS
TTGTCGTCTTTGTTGTTCTT+AGG 0.213375 3:-95216711 MsG0380017346.01.T01:three_prime_UTR
TTCTGGCCAGTGACGGGCTT+TGG 0.240299 3:-95217346 MsG0380017346.01.T01:CDS
CGCAATATACACATGAATTA+TGG 0.279299 3:-95216669 MsG0380017346.01.T01:three_prime_UTR
TCTAACTGTGGCCGGCAAAT+TGG 0.294225 3:+95216992 None:intergenic
TCTGGCCAGTGACGGGCTTT+GGG 0.337499 3:-95217345 MsG0380017346.01.T01:CDS
TGTCGTCTTTGTTGTTCTTA+GGG 0.371711 3:-95216710 MsG0380017346.01.T01:three_prime_UTR
AATTTGCCGGCCACAGTTAG+AGG 0.373882 3:-95216990 MsG0380017346.01.T01:exon
ATACAACAACTCTATTTAAC+AGG 0.378525 3:+95216833 None:intergenic
GCCTCCTCTGCATCTTCAAT+CGG 0.383558 3:+95217126 None:intergenic
TTCTTATTCTGGCCAGTGAC+GGG 0.427831 3:-95217352 MsG0380017346.01.T01:CDS
TTGATGTGTGTAAGGAGATT+AGG 0.441645 3:-95216774 MsG0380017346.01.T01:three_prime_UTR
AGTAGCTCCAACCAATTTGC+CGG 0.445567 3:-95217003 MsG0380017346.01.T01:CDS
CAGTTAGAGGGTTTGTGCAT+TGG 0.483398 3:-95216977 MsG0380017346.01.T01:exon
GACATCCCAAAGCCCGTCAC+TGG 0.487456 3:+95217340 None:intergenic
TGCATCATACAAGAATATAC+AGG 0.503804 3:-95216880 MsG0380017346.01.T01:three_prime_UTR
TTTCTTATTCTGGCCAGTGA+CGG 0.511376 3:-95217353 MsG0380017346.01.T01:CDS
ATATCCAAACATTTCAAAAG+TGG 0.517630 3:-95216943 MsG0380017346.01.T01:three_prime_UTR
CACATACCTAATTTGTAGCT+AGG 0.525653 3:-95216804 MsG0380017346.01.T01:three_prime_UTR
TACTATGAGAAGAAGTGCCT+TGG 0.536105 3:+95217022 None:intergenic
TTGGGATGTCGTCTCAAATG+AGG 0.536571 3:-95217327 MsG0380017346.01.T01:intron
GGGTTTGTGCATTGGTGAAG+AGG 0.543482 3:-95216969 MsG0380017346.01.T01:three_prime_UTR
ACTGTGGCCGGCAAATTGGT+TGG 0.565632 3:+95216996 None:intergenic
ACAAACCCTCTAACTGTGGC+CGG 0.590068 3:+95216984 None:intergenic
ATTTGCCGGCCACAGTTAGA+GGG 0.591441 3:-95216989 MsG0380017346.01.T01:exon
GTTCGTTTCTTGATGAACCA+AGG 0.602297 3:-95217039 MsG0380017346.01.T01:CDS
TATGATGCACAACTACAAGA+TGG 0.608507 3:+95216894 None:intergenic
TTTGTGCATTGGTGAAGAGG+TGG 0.609528 3:-95216966 MsG0380017346.01.T01:three_prime_UTR
ACCGATTGAAGATGCAGAGG+AGG 0.613212 3:-95217127 MsG0380017346.01.T01:CDS
ATGCACAAACCCTCTAACTG+TGG 0.622547 3:+95216980 None:intergenic
ACTACTGCTGCATCTAAACA+TGG 0.630145 3:-95216738 MsG0380017346.01.T01:three_prime_UTR
TAAACCGATTGAAGATGCAG+AGG 0.660296 3:-95217130 MsG0380017346.01.T01:CDS
TAAGAACAACAAAGACGACA+AGG 0.668701 3:+95216713 None:intergenic
ATGCAAGAAGCATATCAGAG+AGG 0.726307 3:-95217090 MsG0380017346.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACTTAATTATTTCGAATTT+AGG + Chr3:95216764-95216783 None:intergenic 15.0%
!! TTAATTATTTCGAATTTAGG+TGG + Chr3:95216761-95216780 None:intergenic 20.0%
!!! TAACATTTTAAGCATTTTTC+AGG - Chr3:95216855-95216874 MsG0380017346.01.T01:three_prime_UTR 20.0%
! ATACAACAACTCTATTTAAC+AGG + Chr3:95217194-95217213 None:intergenic 25.0%
! ATATCCAAACATTTCAAAAG+TGG - Chr3:95217081-95217100 MsG0380017346.01.T01:CDS 25.0%
! GAAAAATATTGATGTGTGTA+AGG - Chr3:95217242-95217261 MsG0380017346.01.T01:intron 25.0%
! GCTTAAAATGTTAAACAAGT+TGG + Chr3:95216848-95216867 None:intergenic 25.0%
!! ATTTTTCCTAGCTACAAATT+AGG + Chr3:95217229-95217248 None:intergenic 25.0%
!!! TTTTCCACTTTTGAAATGTT+TGG + Chr3:95217088-95217107 None:intergenic 25.0%
CGCAATATACACATGAATTA+TGG - Chr3:95217355-95217374 MsG0380017346.01.T01:CDS 30.0%
TATTTCGAATTTAGGTGGTT+AGG + Chr3:95216756-95216775 None:intergenic 30.0%
TGCATCATACAAGAATATAC+AGG - Chr3:95217144-95217163 MsG0380017346.01.T01:CDS 30.0%
!! TTCTCTAGAGTTTCTTATTC+TGG - Chr3:95216661-95216680 MsG0380017346.01.T01:three_prime_UTR 30.0%
TAAGAACAACAAAGACGACA+AGG + Chr3:95217314-95217333 None:intergenic 35.0%
TATGATGCACAACTACAAGA+TGG + Chr3:95217133-95217152 None:intergenic 35.0%
TTAAGTTCCTCTAGTAGAGT+TGG - Chr3:95216777-95216796 MsG0380017346.01.T01:three_prime_UTR 35.0%
TTGATGTGTGTAAGGAGATT+AGG - Chr3:95217250-95217269 MsG0380017346.01.T01:intron 35.0%
! CACATACCTAATTTGTAGCT+AGG - Chr3:95217220-95217239 MsG0380017346.01.T01:intron 35.0%
! CATGACATTTTCAGAACTCA+AGG + Chr3:95216807-95216826 None:intergenic 35.0%
!! TGTCGTCTTTGTTGTTCTTA+GGG - Chr3:95217314-95217333 MsG0380017346.01.T01:intron 35.0%
!! TTGTCGTCTTTGTTGTTCTT+AGG - Chr3:95217313-95217332 MsG0380017346.01.T01:intron 35.0%
ACTACTGCTGCATCTAAACA+TGG - Chr3:95217286-95217305 MsG0380017346.01.T01:intron 40.0%
GTTCGTTTCTTGATGAACCA+AGG - Chr3:95216985-95217004 MsG0380017346.01.T01:exon 40.0%
TAAACCGATTGAAGATGCAG+AGG - Chr3:95216894-95216913 MsG0380017346.01.T01:three_prime_UTR 40.0%
TTAGGTGGTTAGGATGTGAA+AGG + Chr3:95216746-95216765 None:intergenic 40.0%
TTTCTTATTCTGGCCAGTGA+CGG - Chr3:95216671-95216690 MsG0380017346.01.T01:three_prime_UTR 40.0%
! ATGCAAGAAGCATATCAGAG+AGG - Chr3:95216934-95216953 MsG0380017346.01.T01:three_prime_UTR 40.0%
!! TACTATGAGAAGAAGTGCCT+TGG + Chr3:95217005-95217024 None:intergenic 40.0%
!!! AGCATTTTTCAGGAAGCTGT+TGG - Chr3:95216865-95216884 MsG0380017346.01.T01:three_prime_UTR 40.0%
AGGCTATCCAACTCTACTAG+AGG + Chr3:95216787-95216806 None:intergenic 45.0%
AGTAGCTCCAACCAATTTGC+CGG - Chr3:95217021-95217040 MsG0380017346.01.T01:CDS 45.0%
ATGCACAAACCCTCTAACTG+TGG + Chr3:95217047-95217066 None:intergenic 45.0%
CAGTTAGAGGGTTTGTGCAT+TGG - Chr3:95217047-95217066 MsG0380017346.01.T01:CDS 45.0%
TTCTTATTCTGGCCAGTGAC+GGG - Chr3:95216672-95216691 MsG0380017346.01.T01:three_prime_UTR 45.0%
TTGGGATGTCGTCTCAAATG+AGG - Chr3:95216697-95216716 MsG0380017346.01.T01:three_prime_UTR 45.0%
! TTTGTGCATTGGTGAAGAGG+TGG - Chr3:95217058-95217077 MsG0380017346.01.T01:CDS 45.0%
AATTTGCCGGCCACAGTTAG+AGG - Chr3:95217034-95217053 MsG0380017346.01.T01:CDS 50.0%
ACAAACCCTCTAACTGTGGC+CGG + Chr3:95217043-95217062 None:intergenic 50.0%
ACCGATTGAAGATGCAGAGG+AGG - Chr3:95216897-95216916 MsG0380017346.01.T01:three_prime_UTR 50.0%
ATTTGCCGGCCACAGTTAGA+GGG - Chr3:95217035-95217054 MsG0380017346.01.T01:CDS 50.0%
GCCTCCTCTGCATCTTCAAT+CGG + Chr3:95216901-95216920 None:intergenic 50.0%
TCTAACTGTGGCCGGCAAAT+TGG + Chr3:95217035-95217054 None:intergenic 50.0%
! GGGTTTGTGCATTGGTGAAG+AGG - Chr3:95217055-95217074 MsG0380017346.01.T01:CDS 50.0%
ACTGTGGCCGGCAAATTGGT+TGG + Chr3:95217031-95217050 None:intergenic 55.0%
GACATCCCAAAGCCCGTCAC+TGG + Chr3:95216687-95216706 None:intergenic 60.0%
!! TCTGGCCAGTGACGGGCTTT+GGG - Chr3:95216679-95216698 MsG0380017346.01.T01:three_prime_UTR 60.0%
!! TTCTGGCCAGTGACGGGCTT+TGG - Chr3:95216678-95216697 MsG0380017346.01.T01:three_prime_UTR 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 95216626 95217420 95216626 ID=MsG0380017346.01;Name=MsG0380017346.01
Chr3 mRNA 95216626 95217420 95216626 ID=MsG0380017346.01.T01;Parent=MsG0380017346.01;Name=MsG0380017346.01.T01;_AED=0.50;_eAED=0.51;_QI=0|1|0.5|1|1|1|2|367|89
Chr3 exon 95216626 95217169 95216626 ID=MsG0380017346.01.T01:exon:17378;Parent=MsG0380017346.01.T01
Chr3 exon 95217328 95217420 95217328 ID=MsG0380017346.01.T01:exon:17377;Parent=MsG0380017346.01.T01
Chr3 CDS 95217328 95217420 95217328 ID=MsG0380017346.01.T01:cds;Parent=MsG0380017346.01.T01
Chr3 CDS 95216993 95217169 95216993 ID=MsG0380017346.01.T01:cds;Parent=MsG0380017346.01.T01
Chr3 three_prime_UTR 95216626 95216992 95216626 ID=MsG0380017346.01.T01:three_prime_utr;Parent=MsG0380017346.01.T01
Gene Sequence

>MsG0380017346.01.T01

ATGATTGTGATTTTGCAGGAAGAAAAAGTTGATAGTTCTCTAGAGTTTCTTATTCTGGCCAGTGACGGGCTTTGGGATGTCGTCTCAAATGAGGAAGCTGTTGGTATGATTAAACCGATTGAAGATGCAGAGGAGGCAGCAAAGAGACTGATGCAAGAAGCATATCAGAGAGGTAGTGCTGACAATATCACTTGTGTCGTTGTTCGTTTCTTGATGAACCAAGGCACTTCTTCTCATAGTAGCTCCAACCAATTTGCCGGCCACAGTTAG

Protein sequence

>MsG0380017346.01.T01

MIVILQEEKVDSSLEFLILASDGLWDVVSNEEAVGMIKPIEDAEEAAKRLMQEAYQRGSADNITCVVVRFLMNQGTSSHSSSNQFAGHS*