AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73879


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73879.t1 MTR_8g098605 93.724 239 15 0 1 239 358 596 3.12e-166 472
MS.gene73879.t1 MTR_8g098645 76.894 264 36 2 1 239 83 346 4.12e-148 417
MS.gene73879.t1 MTR_1g073380 71.206 257 50 1 1 233 336 592 1.53e-126 370
MS.gene73879.t1 MTR_1g073530 68.482 257 55 2 1 233 328 582 5.59e-121 356
MS.gene73879.t1 MTR_1g073590 67.704 257 57 2 1 233 325 579 9.27e-120 353
MS.gene73879.t1 MTR_8g098635 81.407 199 37 0 41 239 99 297 2.60e-118 339
MS.gene73879.t1 MTR_8g098635 81.407 199 37 0 41 239 182 380 6.80e-117 339
MS.gene73879.t1 MTR_7g078120 48.438 192 99 0 36 227 387 578 5.54e-60 199
MS.gene73879.t1 MTR_7g078120 48.438 192 99 0 36 227 387 578 1.33e-59 199
MS.gene73879.t1 MTR_0259s0060 53.591 181 37 1 34 214 14 147 4.10e-57 179
MS.gene73879.t1 MTR_8g028905 50.286 175 83 3 36 206 408 582 4.61e-52 177
MS.gene73879.t1 MTR_6g071350 56.000 150 46 3 20 166 266 398 2.49e-43 150
MS.gene73879.t1 MTR_6g071350 47.222 72 37 1 169 239 330 401 4.26e-14 71.2
MS.gene73879.t1 MTR_6g071355 64.948 97 15 1 127 223 1 78 2.84e-35 120
MS.gene73879.t1 MTR_1g073420 75.000 68 17 0 166 233 61 128 5.03e-33 116
MS.gene73879.t1 MTR_5g048010 48.855 131 42 3 39 166 205 313 5.16e-29 111
MS.gene73879.t1 MTR_5g048010 48.611 72 36 1 169 239 245 316 7.98e-15 72.8
MS.gene73879.t1 MTR_7g066890 36.842 171 100 2 35 199 193 361 6.13e-28 109
MS.gene73879.t1 MTR_7g066890 36.842 171 100 2 35 199 295 463 2.65e-27 108
MS.gene73879.t1 MTR_3g023780 37.912 182 100 5 34 204 147 326 1.88e-26 107
MS.gene73879.t1 MTR_7g066880 29.240 171 113 2 35 199 185 353 7.67e-18 81.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73879.t1 AT4G11400 49.275 207 98 3 34 238 372 573 1.05e-62 205
MS.gene73879.t1 AT4G11400 49.275 207 98 3 34 238 372 573 1.05e-62 205
MS.gene73879.t1 AT2G46040 43.860 171 92 2 38 205 362 531 1.09e-42 152
MS.gene73879.t1 AT2G46040 43.860 171 92 2 38 205 362 531 1.09e-42 152
MS.gene73879.t1 AT2G46040 43.860 171 92 2 38 205 376 545 1.56e-42 152
MS.gene73879.t1 AT5G04110 36.420 162 91 4 35 185 361 521 1.17e-26 107
MS.gene73879.t1 AT5G04110 36.420 162 91 4 35 185 360 520 1.20e-26 107
MS.gene73879.t1 AT5G04110 36.420 162 91 4 35 185 360 520 1.20e-26 107
MS.gene73879.t1 AT1G13880 33.511 188 97 5 34 204 136 312 1.76e-21 92.4
MS.gene73879.t1 AT1G13880 33.696 184 102 5 34 204 126 302 1.85e-21 92.4
MS.gene73879.t1 AT1G13880 33.696 184 102 5 34 204 127 303 1.86e-21 92.4
MS.gene73879.t1 AT2G03470 34.375 192 105 6 34 211 121 305 3.25e-21 92.0
MS.gene73879.t1 AT1G26580 30.769 195 116 4 28 204 127 320 3.50e-21 92.0
MS.gene73879.t1 AT1G26580 30.769 195 116 4 28 204 127 320 3.50e-21 92.0
MS.gene73879.t1 AT1G26580 30.769 195 116 4 28 204 61 254 3.57e-21 91.7
MS.gene73879.t1 AT2G03470 34.375 192 105 6 34 211 120 304 3.89e-21 91.7
MS.gene73879.t1 AT5G04110 34.247 146 84 4 35 169 360 504 1.51e-18 84.3

Find 42 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTCAAAACAAGTCTTAT+TGG 0.170728 4.1:-5815564 MS.gene73879:CDS
TCATTGGGGATTTGATAAAA+TGG 0.206237 4.1:-5815659 MS.gene73879:CDS
TGATGAAGAAAAGAGATTTA+AGG 0.278264 4.1:-5815608 MS.gene73879:CDS
GATGATGACGAAGTGGAATT+TGG 0.312152 4.1:-5815418 MS.gene73879:CDS
AAATTTGAATCATCTTTAAC+AGG 0.325129 4.1:+5815820 None:intergenic
TGCCTTCCTTCGAAAGCATC+TGG 0.341525 4.1:+5815531 None:intergenic
TTTCTGAGAGTGACTCTAAA+TGG 0.355739 4.1:-5815861 MS.gene73879:CDS
TCATCCTGTTATCAGCAATA+TGG 0.363774 4.1:+5815713 None:intergenic
AGCTATCAGGCATCCATCTA+TGG 0.376521 4.1:-5815368 MS.gene73879:CDS
GCATCCATCTATGGAATTCA+TGG 0.384589 4.1:-5815359 MS.gene73879:CDS
TCACGAAAATCATCCATAGA+TGG 0.391160 4.1:+5815943 None:intergenic
TCTCCCAACAAGATCTGTTT+CGG 0.391180 4.1:+5815792 None:intergenic
CGACCGAAACAGATCTTGTT+GGG 0.392797 4.1:-5815795 MS.gene73879:CDS
GATTCCATATTGCTGATAAC+AGG 0.400946 4.1:-5815717 MS.gene73879:CDS
CACTCCATGAATTCCATAGA+TGG 0.401034 4.1:+5815355 None:intergenic
CATTGGGGATTTGATAAAAT+GGG 0.401799 4.1:-5815658 MS.gene73879:CDS
GTTTCGGAAGGAAAGCTATC+AGG 0.412531 4.1:-5815381 MS.gene73879:CDS
GAAACTACACCAGTCCATTC+CGG 0.442162 4.1:+5815880 None:intergenic
CGTGAAAAGGTTGTTTCTGT+AGG 0.454662 4.1:-5815925 MS.gene73879:CDS
AAGAGATTTAAGGATGCAAT+GGG 0.459473 4.1:-5815598 MS.gene73879:CDS
TCATCACTGTCAACAGCATT+CGG 0.478391 4.1:+5815436 None:intergenic
TGTCCTCTGGAGAAAACAAC+TGG 0.480314 4.1:-5816003 MS.gene73879:CDS
AAGTGTAACTGCAACGTTCA+AGG 0.486984 4.1:-5815757 MS.gene73879:CDS
AAAGAGATTTAAGGATGCAA+TGG 0.490346 4.1:-5815599 MS.gene73879:CDS
ACGACCGAAACAGATCTTGT+TGG 0.491169 4.1:-5815796 MS.gene73879:CDS
CTCTAAATGGTTAGGCACAC+AGG 0.491986 4.1:-5815848 MS.gene73879:CDS
GAAATCAGAAAAGTGTCCTC+TGG 0.492152 4.1:-5816016 MS.gene73879:CDS
GAGAGTGACTCTAAATGGTT+AGG 0.492462 4.1:-5815856 MS.gene73879:CDS
GCGAGGAAGTTTCACTTCGA+TGG 0.518888 4.1:-5815636 MS.gene73879:CDS
ATCCAGATGCTTTCGAAGGA+AGG 0.523376 4.1:-5815533 MS.gene73879:CDS
TTCCTTCGAAAGCATCTGGA+TGG 0.534860 4.1:+5815535 None:intergenic
GCGGAAGTTCCGGAATGGAC+TGG 0.543878 4.1:-5815889 MS.gene73879:CDS
GGGATTTGATAAAATGGGCG+AGG 0.561801 4.1:-5815653 MS.gene73879:CDS
TTCAAGCGGAAGTTCCGGAA+TGG 0.568980 4.1:-5815894 MS.gene73879:CDS
AAGGAAGGCAAGAAAAGACT+TGG 0.584242 4.1:-5815518 MS.gene73879:CDS
ATCCATCCAGATGCTTTCGA+AGG 0.594160 4.1:-5815537 MS.gene73879:CDS
AATGGTTAGGCACACAGGTG+TGG 0.617036 4.1:-5815843 MS.gene73879:CDS
GAAACAGATCTTGTTGGGAG+AGG 0.619840 4.1:-5815790 MS.gene73879:CDS
CTTGTTGGGAGAGGAAGACG+AGG 0.636192 4.1:-5815781 MS.gene73879:CDS
AGGCAAGAAAAGACTTGGTG+AGG 0.649236 4.1:-5815513 MS.gene73879:CDS
TGACAGTGATGATGACGAAG+TGG 0.678639 4.1:-5815425 MS.gene73879:CDS
TGATAACAGGATGAAGCTGA+AGG 0.716490 4.1:-5815704 MS.gene73879:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTTGAATCATCTTTAAC+AGG + chr4.1:5815522-5815541 None:intergenic 20.0%
! TGATGAAGAAAAGAGATTTA+AGG - chr4.1:5815731-5815750 MS.gene73879:CDS 25.0%
AAAGAGATTTAAGGATGCAA+TGG - chr4.1:5815740-5815759 MS.gene73879:CDS 30.0%
AAGAGATTTAAGGATGCAAT+GGG - chr4.1:5815741-5815760 MS.gene73879:CDS 30.0%
CATTGGGGATTTGATAAAAT+GGG - chr4.1:5815681-5815700 MS.gene73879:CDS 30.0%
TCATTGGGGATTTGATAAAA+TGG - chr4.1:5815680-5815699 MS.gene73879:CDS 30.0%
! GAATTTGGATCTTTTGATGA+TGG - chr4.1:5815936-5815955 MS.gene73879:CDS 30.0%
! TATGGATGATTTTCGTGAAA+AGG - chr4.1:5815401-5815420 MS.gene73879:CDS 30.0%
!!! AATAAGACTTGTTTTGAGAG+GGG + chr4.1:5815776-5815795 None:intergenic 30.0%
!!! CAATAAGACTTGTTTTGAGA+GGG + chr4.1:5815777-5815796 None:intergenic 30.0%
GAAAAAATCTGAGCCATCTA+TGG - chr4.1:5815383-5815402 MS.gene73879:CDS 35.0%
GATTCCATATTGCTGATAAC+AGG - chr4.1:5815622-5815641 MS.gene73879:CDS 35.0%
TCACGAAAATCATCCATAGA+TGG + chr4.1:5815399-5815418 None:intergenic 35.0%
TCATCCTGTTATCAGCAATA+TGG + chr4.1:5815629-5815648 None:intergenic 35.0%
! CCTCTCAAAACAAGTCTTAT+TGG - chr4.1:5815775-5815794 MS.gene73879:CDS 35.0%
! CGTTCTGTGTTTTATCATTG+GGG - chr4.1:5815666-5815685 MS.gene73879:CDS 35.0%
! GCGTTCTGTGTTTTATCATT+GGG - chr4.1:5815665-5815684 MS.gene73879:CDS 35.0%
! TGCGTTCTGTGTTTTATCAT+TGG - chr4.1:5815664-5815683 MS.gene73879:CDS 35.0%
! TTCTTTTTGATCACGACATC+TGG + chr4.1:5815366-5815385 None:intergenic 35.0%
! TTTCTGAGAGTGACTCTAAA+TGG - chr4.1:5815478-5815497 MS.gene73879:CDS 35.0%
!!! CCAATAAGACTTGTTTTGAG+AGG + chr4.1:5815778-5815797 None:intergenic 35.0%
!!! GGATCTTTTGATGATGGTTT+CGG - chr4.1:5815942-5815961 MS.gene73879:CDS 35.0%
!!! TGTAGGCAACTTTTTTCAAG+CGG - chr4.1:5815431-5815450 MS.gene73879:CDS 35.0%
AAGGAAGGCAAGAAAAGACT+TGG - chr4.1:5815821-5815840 MS.gene73879:CDS 40.0%
AAGTGTAACTGCAACGTTCA+AGG - chr4.1:5815582-5815601 MS.gene73879:CDS 40.0%
CACTCCATGAATTCCATAGA+TGG + chr4.1:5815987-5816006 None:intergenic 40.0%
GAGAGTGACTCTAAATGGTT+AGG - chr4.1:5815483-5815502 MS.gene73879:CDS 40.0%
GCATCCATCTATGGAATTCA+TGG - chr4.1:5815980-5815999 MS.gene73879:CDS 40.0%
TCATCACTGTCAACAGCATT+CGG + chr4.1:5815906-5815925 None:intergenic 40.0%
TCTCCCAACAAGATCTGTTT+CGG + chr4.1:5815550-5815569 None:intergenic 40.0%
TGATAACAGGATGAAGCTGA+AGG - chr4.1:5815635-5815654 MS.gene73879:CDS 40.0%
! GATGATGACGAAGTGGAATT+TGG - chr4.1:5815921-5815940 MS.gene73879:CDS 40.0%
!! CGTGAAAAGGTTGTTTCTGT+AGG - chr4.1:5815414-5815433 MS.gene73879:CDS 40.0%
!! GAAATCAGAAAAGTGTCCTC+TGG - chr4.1:5815323-5815342 MS.gene73879:CDS 40.0%
!!! CTTTTGATGATGGTTTCGGA+AGG - chr4.1:5815946-5815965 MS.gene73879:CDS 40.0%
!!! CTTTTTTCAAGCGGAAGTTC+CGG - chr4.1:5815440-5815459 MS.gene73879:CDS 40.0%
ACGACCGAAACAGATCTTGT+TGG - chr4.1:5815543-5815562 MS.gene73879:CDS 45.0%
AGCTATCAGGCATCCATCTA+TGG - chr4.1:5815971-5815990 MS.gene73879:CDS 45.0%
ATCCAGATGCTTTCGAAGGA+AGG - chr4.1:5815806-5815825 MS.gene73879:CDS 45.0%
ATCCATCCAGATGCTTTCGA+AGG - chr4.1:5815802-5815821 MS.gene73879:CDS 45.0%
CGACCGAAACAGATCTTGTT+GGG - chr4.1:5815544-5815563 MS.gene73879:CDS 45.0%
CTCTAAATGGTTAGGCACAC+AGG - chr4.1:5815491-5815510 MS.gene73879:CDS 45.0%
GAAACAGATCTTGTTGGGAG+AGG - chr4.1:5815549-5815568 MS.gene73879:CDS 45.0%
GAAACTACACCAGTCCATTC+CGG + chr4.1:5815462-5815481 None:intergenic 45.0%
GGGATTTGATAAAATGGGCG+AGG - chr4.1:5815686-5815705 MS.gene73879:CDS 45.0%
GTTTCGGAAGGAAAGCTATC+AGG - chr4.1:5815958-5815977 MS.gene73879:CDS 45.0%
! TGACAGTGATGATGACGAAG+TGG - chr4.1:5815914-5815933 MS.gene73879:CDS 45.0%
! TGTCCTCTGGAGAAAACAAC+TGG - chr4.1:5815336-5815355 MS.gene73879:CDS 45.0%
!! AGGCAAGAAAAGACTTGGTG+AGG - chr4.1:5815826-5815845 MS.gene73879:CDS 45.0%
!! TTCCTTCGAAAGCATCTGGA+TGG + chr4.1:5815807-5815826 None:intergenic 45.0%
!! TTGCCAGTTGTTTTCTCCAG+AGG + chr4.1:5815342-5815361 None:intergenic 45.0%
AATGGTTAGGCACACAGGTG+TGG - chr4.1:5815496-5815515 MS.gene73879:CDS 50.0%
GCGAGGAAGTTTCACTTCGA+TGG - chr4.1:5815703-5815722 MS.gene73879:CDS 50.0%
TTCAAGCGGAAGTTCCGGAA+TGG - chr4.1:5815445-5815464 MS.gene73879:CDS 50.0%
!! TGCCTTCCTTCGAAAGCATC+TGG + chr4.1:5815811-5815830 None:intergenic 50.0%
CTTGTTGGGAGAGGAAGACG+AGG - chr4.1:5815558-5815577 MS.gene73879:CDS 55.0%
GCGGAAGTTCCGGAATGGAC+TGG - chr4.1:5815450-5815469 MS.gene73879:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 5815321 5816040 5815321 ID=MS.gene73879
chr4.1 mRNA 5815321 5816040 5815321 ID=MS.gene73879.t1;Parent=MS.gene73879
chr4.1 exon 5815321 5816040 5815321 ID=MS.gene73879.t1.exon1;Parent=MS.gene73879.t1
chr4.1 CDS 5815321 5816040 5815321 ID=cds.MS.gene73879.t1;Parent=MS.gene73879.t1
Gene Sequence

>MS.gene73879

ATGAAATCAGAAAAGTGTCCTCTGGAGAAAACAACTGGCAAACCAGATGTCGTGATCAAAAAGAAAAAATCTGAGCCATCTATGGATGATTTTCGTGAAAAGGTTGTTTCTGTAGGCAACTTTTTTCAAGCGGAAGTTCCGGAATGGACTGGTGTAGTTTCTGAGAGTGACTCTAAATGGTTAGGCACACAGGTGTGGCCTGTTAAAGATGATTCAAATTTTACGACCGAAACAGATCTTGTTGGGAGAGGAAGACGAGGAAAGTGTAACTGCAACGTTCAAGGTTCTGTTGACTGTGTCAGATTCCATATTGCTGATAACAGGATGAAGCTGAAGGTTGAATTGCGTTCTGTGTTTTATCATTGGGGATTTGATAAAATGGGCGAGGAAGTTTCACTTCGATGGACAGCTGATGAAGAAAAGAGATTTAAGGATGCAATGGGTTTAAAAATCCCCTCTCAAAACAAGTCTTATTGGAACAATCCATCCAGATGCTTTCGAAGGAAGGCAAGAAAAGACTTGGTGAGGTATTACTTCAATGTATATCTTATTCAACTAAGAAGCTATCAGAATCGAGTGACTCCGAATGCTGTTGACAGTGATGATGACGAAGTGGAATTTGGATCTTTTGATGATGGTTTCGGAAGGAAAGCTATCAGGCATCCATCTATGGAATTCATGGAGTGTACAGAGAACAAGCAATGCTTTGATTTTGAGTAG

Protein sequence

>MS.gene73879.t1

MKSEKCPLEKTTGKPDVVIKKKKSEPSMDDFREKVVSVGNFFQAEVPEWTGVVSESDSKWLGTQVWPVKDDSNFTTETDLVGRGRRGKCNCNVQGSVDCVRFHIADNRMKLKVELRSVFYHWGFDKMGEEVSLRWTADEEKRFKDAMGLKIPSQNKSYWNNPSRCFRRKARKDLVRYYFNVYLIQLRSYQNRVTPNAVDSDDDEVEFGSFDDGFGRKAIRHPSMEFMECTENKQCFDFE