AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73877


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73877.t1 MTR_8g098605 93.724 239 15 0 1 239 358 596 3.12e-166 472
MS.gene73877.t1 MTR_8g098645 76.894 264 36 2 1 239 83 346 4.12e-148 417
MS.gene73877.t1 MTR_1g073380 71.206 257 50 1 1 233 336 592 1.53e-126 370
MS.gene73877.t1 MTR_1g073530 68.482 257 55 2 1 233 328 582 5.59e-121 356
MS.gene73877.t1 MTR_1g073590 67.704 257 57 2 1 233 325 579 9.27e-120 353
MS.gene73877.t1 MTR_8g098635 81.407 199 37 0 41 239 99 297 2.60e-118 339
MS.gene73877.t1 MTR_8g098635 81.407 199 37 0 41 239 182 380 6.80e-117 339
MS.gene73877.t1 MTR_7g078120 48.438 192 99 0 36 227 387 578 5.54e-60 199
MS.gene73877.t1 MTR_7g078120 48.438 192 99 0 36 227 387 578 1.33e-59 199
MS.gene73877.t1 MTR_0259s0060 53.591 181 37 1 34 214 14 147 4.10e-57 179
MS.gene73877.t1 MTR_8g028905 50.286 175 83 3 36 206 408 582 4.61e-52 177
MS.gene73877.t1 MTR_6g071350 56.000 150 46 3 20 166 266 398 2.49e-43 150
MS.gene73877.t1 MTR_6g071350 47.222 72 37 1 169 239 330 401 4.26e-14 71.2
MS.gene73877.t1 MTR_6g071355 64.948 97 15 1 127 223 1 78 2.84e-35 120
MS.gene73877.t1 MTR_1g073420 75.000 68 17 0 166 233 61 128 5.03e-33 116
MS.gene73877.t1 MTR_5g048010 48.855 131 42 3 39 166 205 313 5.16e-29 111
MS.gene73877.t1 MTR_5g048010 48.611 72 36 1 169 239 245 316 7.98e-15 72.8
MS.gene73877.t1 MTR_7g066890 36.842 171 100 2 35 199 193 361 6.13e-28 109
MS.gene73877.t1 MTR_7g066890 36.842 171 100 2 35 199 295 463 2.65e-27 108
MS.gene73877.t1 MTR_3g023780 37.912 182 100 5 34 204 147 326 1.88e-26 107
MS.gene73877.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.gene73877.t1 AT4G11400 49.275 207 98 3 34 238 372 573 1.05e-62 205
MS.gene73877.t1 AT4G11400 49.275 207 98 3 34 238 372 573 1.05e-62 205
MS.gene73877.t1 AT2G46040 43.860 171 92 2 38 205 362 531 1.09e-42 152
MS.gene73877.t1 AT2G46040 43.860 171 92 2 38 205 362 531 1.09e-42 152
MS.gene73877.t1 AT2G46040 43.860 171 92 2 38 205 376 545 1.56e-42 152
MS.gene73877.t1 AT5G04110 36.420 162 91 4 35 185 361 521 1.17e-26 107
MS.gene73877.t1 AT5G04110 36.420 162 91 4 35 185 360 520 1.20e-26 107
MS.gene73877.t1 AT5G04110 36.420 162 91 4 35 185 360 520 1.20e-26 107
MS.gene73877.t1 AT1G13880 33.511 188 97 5 34 204 136 312 1.76e-21 92.4
MS.gene73877.t1 AT1G13880 33.696 184 102 5 34 204 126 302 1.85e-21 92.4
MS.gene73877.t1 AT1G13880 33.696 184 102 5 34 204 127 303 1.86e-21 92.4
MS.gene73877.t1 AT2G03470 34.375 192 105 6 34 211 121 305 3.25e-21 92.0
MS.gene73877.t1 AT1G26580 30.769 195 116 4 28 204 127 320 3.50e-21 92.0
MS.gene73877.t1 AT1G26580 30.769 195 116 4 28 204 127 320 3.50e-21 92.0
MS.gene73877.t1 AT1G26580 30.769 195 116 4 28 204 61 254 3.57e-21 91.7
MS.gene73877.t1 AT2G03470 34.375 192 105 6 34 211 120 304 3.89e-21 91.7
MS.gene73877.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:-5851082 MS.gene73877:CDS
TCATTGGGGATTTGATAAAA+TGG 0.206237 4.1:-5851177 MS.gene73877:CDS
TGATGAAGAAAAGAGATTTA+AGG 0.278264 4.1:-5851126 MS.gene73877:CDS
GATGATGACGAAGTGGAATT+TGG 0.312152 4.1:-5850936 MS.gene73877:CDS
AAATTTGAATCATCTTTAAC+AGG 0.325129 4.1:+5851338 None:intergenic
TGCCTTCCTTCGAAAGCATC+TGG 0.341525 4.1:+5851049 None:intergenic
TTTCTGAGAGTGACTCTAAA+TGG 0.355739 4.1:-5851379 MS.gene73877:CDS
TCATCCTGTTATCAGCAATA+TGG 0.363774 4.1:+5851231 None:intergenic
AGCTATCAGGCATCCATCTA+TGG 0.376521 4.1:-5850886 MS.gene73877:CDS
GCATCCATCTATGGAATTCA+TGG 0.384589 4.1:-5850877 MS.gene73877:CDS
TCACGAAAATCATCCATAGA+TGG 0.391160 4.1:+5851461 None:intergenic
TCTCCCAACAAGATCTGTTT+CGG 0.391180 4.1:+5851310 None:intergenic
CGACCGAAACAGATCTTGTT+GGG 0.392797 4.1:-5851313 MS.gene73877:CDS
GATTCCATATTGCTGATAAC+AGG 0.400946 4.1:-5851235 MS.gene73877:CDS
CACTCCATGAATTCCATAGA+TGG 0.401034 4.1:+5850873 None:intergenic
CATTGGGGATTTGATAAAAT+GGG 0.401799 4.1:-5851176 MS.gene73877:CDS
GTTTCGGAAGGAAAGCTATC+AGG 0.412531 4.1:-5850899 MS.gene73877:CDS
GAAACTACACCAGTCCATTC+CGG 0.442162 4.1:+5851398 None:intergenic
CGTGAAAAGGTTGTTTCTGT+AGG 0.454662 4.1:-5851443 MS.gene73877:CDS
AAGAGATTTAAGGATGCAAT+GGG 0.459473 4.1:-5851116 MS.gene73877:CDS
TCATCACTGTCAACAGCATT+CGG 0.478391 4.1:+5850954 None:intergenic
TGTCCTCTGGAGAAAACAAC+TGG 0.480314 4.1:-5851521 MS.gene73877:CDS
AAGTGTAACTGCAACGTTCA+AGG 0.486984 4.1:-5851275 MS.gene73877:CDS
AAAGAGATTTAAGGATGCAA+TGG 0.490346 4.1:-5851117 MS.gene73877:CDS
ACGACCGAAACAGATCTTGT+TGG 0.491169 4.1:-5851314 MS.gene73877:CDS
CTCTAAATGGTTAGGCACAC+AGG 0.491986 4.1:-5851366 MS.gene73877:CDS
GAAATCAGAAAAGTGTCCTC+TGG 0.492152 4.1:-5851534 MS.gene73877:CDS
GAGAGTGACTCTAAATGGTT+AGG 0.492462 4.1:-5851374 MS.gene73877:CDS
GCGAGGAAGTTTCACTTCGA+TGG 0.518888 4.1:-5851154 MS.gene73877:CDS
ATCCAGATGCTTTCGAAGGA+AGG 0.523376 4.1:-5851051 MS.gene73877:CDS
TTCCTTCGAAAGCATCTGGA+TGG 0.534860 4.1:+5851053 None:intergenic
GCGGAAGTTCCGGAATGGAC+TGG 0.543878 4.1:-5851407 MS.gene73877:CDS
GGGATTTGATAAAATGGGCG+AGG 0.561801 4.1:-5851171 MS.gene73877:CDS
TTCAAGCGGAAGTTCCGGAA+TGG 0.568980 4.1:-5851412 MS.gene73877:CDS
AAGGAAGGCAAGAAAAGACT+TGG 0.584242 4.1:-5851036 MS.gene73877:CDS
ATCCATCCAGATGCTTTCGA+AGG 0.594160 4.1:-5851055 MS.gene73877:CDS
AATGGTTAGGCACACAGGTG+TGG 0.617036 4.1:-5851361 MS.gene73877:CDS
GAAACAGATCTTGTTGGGAG+AGG 0.619840 4.1:-5851308 MS.gene73877:CDS
CTTGTTGGGAGAGGAAGACG+AGG 0.636192 4.1:-5851299 MS.gene73877:CDS
AGGCAAGAAAAGACTTGGTG+AGG 0.649236 4.1:-5851031 MS.gene73877:CDS
TGACAGTGATGATGACGAAG+TGG 0.678639 4.1:-5850943 MS.gene73877:CDS
TGATAACAGGATGAAGCTGA+AGG 0.716490 4.1:-5851222 MS.gene73877:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTTGAATCATCTTTAAC+AGG + chr4.1:5851040-5851059 None:intergenic 20.0%
! TGATGAAGAAAAGAGATTTA+AGG - chr4.1:5851249-5851268 MS.gene73877:CDS 25.0%
AAAGAGATTTAAGGATGCAA+TGG - chr4.1:5851258-5851277 MS.gene73877:CDS 30.0%
AAGAGATTTAAGGATGCAAT+GGG - chr4.1:5851259-5851278 MS.gene73877:CDS 30.0%
CATTGGGGATTTGATAAAAT+GGG - chr4.1:5851199-5851218 MS.gene73877:CDS 30.0%
TCATTGGGGATTTGATAAAA+TGG - chr4.1:5851198-5851217 MS.gene73877:CDS 30.0%
! GAATTTGGATCTTTTGATGA+TGG - chr4.1:5851454-5851473 MS.gene73877:CDS 30.0%
! TATGGATGATTTTCGTGAAA+AGG - chr4.1:5850919-5850938 MS.gene73877:CDS 30.0%
!!! AATAAGACTTGTTTTGAGAG+GGG + chr4.1:5851294-5851313 None:intergenic 30.0%
!!! CAATAAGACTTGTTTTGAGA+GGG + chr4.1:5851295-5851314 None:intergenic 30.0%
GAAAAAATCTGAGCCATCTA+TGG - chr4.1:5850901-5850920 MS.gene73877:CDS 35.0%
GATTCCATATTGCTGATAAC+AGG - chr4.1:5851140-5851159 MS.gene73877:CDS 35.0%
TCACGAAAATCATCCATAGA+TGG + chr4.1:5850917-5850936 None:intergenic 35.0%
TCATCCTGTTATCAGCAATA+TGG + chr4.1:5851147-5851166 None:intergenic 35.0%
! CCTCTCAAAACAAGTCTTAT+TGG - chr4.1:5851293-5851312 MS.gene73877:CDS 35.0%
! CGTTCTGTGTTTTATCATTG+GGG - chr4.1:5851184-5851203 MS.gene73877:CDS 35.0%
! GCGTTCTGTGTTTTATCATT+GGG - chr4.1:5851183-5851202 MS.gene73877:CDS 35.0%
! TGCGTTCTGTGTTTTATCAT+TGG - chr4.1:5851182-5851201 MS.gene73877:CDS 35.0%
! TTCTTTTTGATCACGACATC+TGG + chr4.1:5850884-5850903 None:intergenic 35.0%
! TTTCTGAGAGTGACTCTAAA+TGG - chr4.1:5850996-5851015 MS.gene73877:CDS 35.0%
!!! CCAATAAGACTTGTTTTGAG+AGG + chr4.1:5851296-5851315 None:intergenic 35.0%
!!! GGATCTTTTGATGATGGTTT+CGG - chr4.1:5851460-5851479 MS.gene73877:CDS 35.0%
!!! TGTAGGCAACTTTTTTCAAG+CGG - chr4.1:5850949-5850968 MS.gene73877:CDS 35.0%
AAGGAAGGCAAGAAAAGACT+TGG - chr4.1:5851339-5851358 MS.gene73877:CDS 40.0%
AAGTGTAACTGCAACGTTCA+AGG - chr4.1:5851100-5851119 MS.gene73877:CDS 40.0%
CACTCCATGAATTCCATAGA+TGG + chr4.1:5851505-5851524 None:intergenic 40.0%
GAGAGTGACTCTAAATGGTT+AGG - chr4.1:5851001-5851020 MS.gene73877:CDS 40.0%
GCATCCATCTATGGAATTCA+TGG - chr4.1:5851498-5851517 MS.gene73877:CDS 40.0%
TCATCACTGTCAACAGCATT+CGG + chr4.1:5851424-5851443 None:intergenic 40.0%
TCTCCCAACAAGATCTGTTT+CGG + chr4.1:5851068-5851087 None:intergenic 40.0%
TGATAACAGGATGAAGCTGA+AGG - chr4.1:5851153-5851172 MS.gene73877:CDS 40.0%
! GATGATGACGAAGTGGAATT+TGG - chr4.1:5851439-5851458 MS.gene73877:CDS 40.0%
!! CGTGAAAAGGTTGTTTCTGT+AGG - chr4.1:5850932-5850951 MS.gene73877:CDS 40.0%
!! GAAATCAGAAAAGTGTCCTC+TGG - chr4.1:5850841-5850860 MS.gene73877:CDS 40.0%
!!! CTTTTGATGATGGTTTCGGA+AGG - chr4.1:5851464-5851483 MS.gene73877:CDS 40.0%
!!! CTTTTTTCAAGCGGAAGTTC+CGG - chr4.1:5850958-5850977 MS.gene73877:CDS 40.0%
ACGACCGAAACAGATCTTGT+TGG - chr4.1:5851061-5851080 MS.gene73877:CDS 45.0%
AGCTATCAGGCATCCATCTA+TGG - chr4.1:5851489-5851508 MS.gene73877:CDS 45.0%
ATCCAGATGCTTTCGAAGGA+AGG - chr4.1:5851324-5851343 MS.gene73877:CDS 45.0%
ATCCATCCAGATGCTTTCGA+AGG - chr4.1:5851320-5851339 MS.gene73877:CDS 45.0%
CGACCGAAACAGATCTTGTT+GGG - chr4.1:5851062-5851081 MS.gene73877:CDS 45.0%
CTCTAAATGGTTAGGCACAC+AGG - chr4.1:5851009-5851028 MS.gene73877:CDS 45.0%
GAAACAGATCTTGTTGGGAG+AGG - chr4.1:5851067-5851086 MS.gene73877:CDS 45.0%
GAAACTACACCAGTCCATTC+CGG + chr4.1:5850980-5850999 None:intergenic 45.0%
GGGATTTGATAAAATGGGCG+AGG - chr4.1:5851204-5851223 MS.gene73877:CDS 45.0%
GTTTCGGAAGGAAAGCTATC+AGG - chr4.1:5851476-5851495 MS.gene73877:CDS 45.0%
! TGACAGTGATGATGACGAAG+TGG - chr4.1:5851432-5851451 MS.gene73877:CDS 45.0%
! TGTCCTCTGGAGAAAACAAC+TGG - chr4.1:5850854-5850873 MS.gene73877:CDS 45.0%
!! AGGCAAGAAAAGACTTGGTG+AGG - chr4.1:5851344-5851363 MS.gene73877:CDS 45.0%
!! TTCCTTCGAAAGCATCTGGA+TGG + chr4.1:5851325-5851344 None:intergenic 45.0%
!! TTGCCAGTTGTTTTCTCCAG+AGG + chr4.1:5850860-5850879 None:intergenic 45.0%
AATGGTTAGGCACACAGGTG+TGG - chr4.1:5851014-5851033 MS.gene73877:CDS 50.0%
GCGAGGAAGTTTCACTTCGA+TGG - chr4.1:5851221-5851240 MS.gene73877:CDS 50.0%
TTCAAGCGGAAGTTCCGGAA+TGG - chr4.1:5850963-5850982 MS.gene73877:CDS 50.0%
!! TGCCTTCCTTCGAAAGCATC+TGG + chr4.1:5851329-5851348 None:intergenic 50.0%
CTTGTTGGGAGAGGAAGACG+AGG - chr4.1:5851076-5851095 MS.gene73877:CDS 55.0%
GCGGAAGTTCCGGAATGGAC+TGG - chr4.1:5850968-5850987 MS.gene73877:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 5850839 5851558 5850839 ID=MS.gene73877
chr4.1 mRNA 5850839 5851558 5850839 ID=MS.gene73877.t1;Parent=MS.gene73877
chr4.1 exon 5850839 5851558 5850839 ID=MS.gene73877.t1.exon1;Parent=MS.gene73877.t1
chr4.1 CDS 5850839 5851558 5850839 ID=cds.MS.gene73877.t1;Parent=MS.gene73877.t1
Gene Sequence

>MS.gene73877

ATGAAATCAGAAAAGTGTCCTCTGGAGAAAACAACTGGCAAACCAGATGTCGTGATCAAAAAGAAAAAATCTGAGCCATCTATGGATGATTTTCGTGAAAAGGTTGTTTCTGTAGGCAACTTTTTTCAAGCGGAAGTTCCGGAATGGACTGGTGTAGTTTCTGAGAGTGACTCTAAATGGTTAGGCACACAGGTGTGGCCTGTTAAAGATGATTCAAATTTTACGACCGAAACAGATCTTGTTGGGAGAGGAAGACGAGGAAAGTGTAACTGCAACGTTCAAGGTTCTGTTGACTGTGTCAGATTCCATATTGCTGATAACAGGATGAAGCTGAAGGTTGAATTGCGTTCTGTGTTTTATCATTGGGGATTTGATAAAATGGGCGAGGAAGTTTCACTTCGATGGACAGCTGATGAAGAAAAGAGATTTAAGGATGCAATGGGTTTAAAAATCCCCTCTCAAAACAAGTCTTATTGGAACAATCCATCCAGATGCTTTCGAAGGAAGGCAAGAAAAGACTTGGTGAGGTATTACTTCAATGTATATCTTATTCAACTAAGAAGCTATCAGAATCGAGTGACTCCGAATGCTGTTGACAGTGATGATGACGAAGTGGAATTTGGATCTTTTGATGATGGTTTCGGAAGGAAAGCTATCAGGCATCCATCTATGGAATTCATGGAGTGTACAGAGAACAAGCAATGCTTTGATTTTGAGTAG

Protein sequence

>MS.gene73877.t1

MKSEKCPLEKTTGKPDVVIKKKKSEPSMDDFREKVVSVGNFFQAEVPEWTGVVSESDSKWLGTQVWPVKDDSNFTTETDLVGRGRRGKCNCNVQGSVDCVRFHIADNRMKLKVELRSVFYHWGFDKMGEEVSLRWTADEEKRFKDAMGLKIPSQNKSYWNNPSRCFRRKARKDLVRYYFNVYLIQLRSYQNRVTPNAVDSDDDEVEFGSFDDGFGRKAIRHPSMEFMECTENKQCFDFE