AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067791

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067791.t1 MTR_7g085410 95.203 271 3 3 1 271 1 261 0.0 509
MS.gene067791.t1 MTR_6g032830 59.273 275 80 7 1 261 1 257 2.56e-102 299
MS.gene067791.t1 MTR_3g109760 39.600 250 94 9 15 260 75 271 1.32e-35 130
MS.gene067791.t1 MTR_1g094930 43.787 169 87 5 95 260 48 211 1.80e-34 124
MS.gene067791.t1 MTR_1g094930 76.471 68 16 0 193 260 239 306 8.95e-34 125
MS.gene067791.t1 MTR_8g013950 37.991 229 76 7 45 260 115 290 9.96e-34 125
MS.gene067791.t1 MTR_4g071590 71.795 78 19 1 196 270 211 288 2.76e-33 123
MS.gene067791.t1 MTR_4g471590 71.795 78 19 1 196 270 211 288 2.76e-33 123
MS.gene067791.t1 MTR_2g094600 56.075 107 42 1 171 272 191 297 3.44e-33 123
MS.gene067791.t1 MTR_8g076340 77.465 71 16 0 196 266 218 288 5.58e-33 122
MS.gene067791.t1 MTR_5g021340 71.053 76 22 0 194 269 298 373 3.40e-32 122
MS.gene067791.t1 MTR_1g006650 36.364 264 113 9 11 260 76 298 4.00e-32 121
MS.gene067791.t1 MTR_1g046680 74.648 71 18 0 190 260 166 236 8.10e-32 118
MS.gene067791.t1 MTR_1g116010 75.758 66 16 0 196 261 164 229 1.41e-31 117
MS.gene067791.t1 MTR_3g117380 70.833 72 21 0 196 267 229 300 3.04e-31 118
MS.gene067791.t1 MTR_4g058910 72.222 72 20 0 193 264 311 382 4.92e-31 119
MS.gene067791.t1 MTR_5g007600 73.846 65 17 0 196 260 259 323 2.28e-29 113
MS.gene067791.t1 MTR_5g007600 71.875 64 18 0 196 259 157 220 1.04e-27 109
MS.gene067791.t1 MTR_7g446110 58.065 62 26 0 196 257 187 248 8.33e-20 86.3
MS.gene067791.t1 MTR_7g445950 56.923 65 28 0 193 257 117 181 1.41e-19 84.3
MS.gene067791.t1 MTR_7g446070 55.385 65 29 0 193 257 129 193 4.18e-19 83.2
MS.gene067791.t1 MTR_7g445980 57.143 63 26 1 196 257 33 95 9.89e-18 76.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067791.t1 AT4G32890 42.793 222 81 6 45 260 80 261 2.19e-43 150
MS.gene067791.t1 AT2G45050 38.211 246 99 8 21 266 57 249 3.46e-38 135
MS.gene067791.t1 AT5G66320 41.633 245 103 8 24 260 101 313 1.05e-35 130
MS.gene067791.t1 AT5G66320 41.633 245 103 8 24 260 101 313 1.05e-35 130
MS.gene067791.t1 AT5G25830 38.559 236 91 8 45 260 82 283 3.92e-35 129
MS.gene067791.t1 AT3G60530 38.710 217 61 7 45 260 77 222 4.67e-35 126
MS.gene067791.t1 AT3G24050 75.000 68 17 0 193 260 191 258 4.41e-33 122
MS.gene067791.t1 AT3G51080 81.538 65 12 0 196 260 221 285 5.60e-32 120
MS.gene067791.t1 AT4G36240 37.615 218 73 6 45 261 74 229 2.64e-31 116
MS.gene067791.t1 AT1G08010 72.308 65 18 0 196 260 220 284 4.03e-31 117
MS.gene067791.t1 AT1G08010 72.308 65 18 0 196 260 220 284 4.03e-31 117
MS.gene067791.t1 AT1G08010 72.308 65 18 0 196 260 220 284 4.03e-31 117
MS.gene067791.t1 AT1G08000 73.846 65 17 0 196 260 218 282 8.86e-30 114
MS.gene067791.t1 AT1G08000 73.846 65 17 0 196 260 218 282 8.86e-30 114
MS.gene067791.t1 AT4G34680 72.308 65 18 0 196 260 180 244 9.66e-30 113
MS.gene067791.t1 AT4G34680 72.308 65 18 0 196 260 180 244 9.66e-30 113
MS.gene067791.t1 AT2G28340 65.672 67 23 0 198 264 193 259 1.51e-26 105
MS.gene067791.t1 AT3G45170 56.579 76 33 0 185 260 104 179 6.07e-26 101

Find 48 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTCTTAAAACAAGCTTAT+TGG 0.124697 7.1:+19623336 MS.gene067791:CDS
CACTAGAAACTTGTACATTT+TGG 0.144962 7.1:-19622625 None:intergenic
TGAAAAGGAAATTATGAAAA+AGG 0.231029 7.1:+19623424 MS.gene067791:CDS
CATGCATTGCATAGTGTCTT+TGG 0.243410 7.1:-19623569 None:intergenic
CATAGTGTCTTTGGGCCTAA+TGG 0.278012 7.1:-19623560 None:intergenic
ACACTACTCACTAGGATTAA+TGG 0.294145 7.1:-19623726 None:intergenic
CAATGGAGGGCAGGCCCATT+AGG 0.323940 7.1:+19623545 MS.gene067791:CDS
GGTTTCTTCACTGTGTTTGA+AGG 0.329936 7.1:-19623161 None:intergenic
GTATTGGACAAGATGCTTAA+AGG 0.333266 7.1:-19623275 None:intergenic
AAGATGCTTAAAGGGTCTTT+TGG 0.337261 7.1:-19623266 None:intergenic
ATAGTGTCTTTGGGCCTAAT+GGG 0.339035 7.1:-19623559 None:intergenic
GTACACCTCCTTGTTGGAAT+TGG 0.356244 7.1:-19623497 None:intergenic
ATGCATTGCATAGTGTCTTT+GGG 0.368727 7.1:-19623568 None:intergenic
TATTGGACAAGATGCTTAAA+GGG 0.405118 7.1:-19623274 None:intergenic
CAATGTGTACACCTCCTTGT+TGG 0.437336 7.1:-19623503 None:intergenic
AGATTATGAAGTTGTTGAAA+AGG 0.450488 7.1:+19623409 MS.gene067791:CDS
GCTTTGCCTGGAACTGCAAA+AGG 0.456279 7.1:-19623206 None:intergenic
GTAAAAGTACACAACTTTGT+GGG 0.484296 7.1:-19623097 None:intergenic
TTTATGTAGGAAGTGGATGT+TGG 0.495766 7.1:+19623032 MS.gene067791:intron
GGTAAAAGTACACAACTTTG+TGG 0.496717 7.1:-19623098 None:intergenic
CAGGCAAAGCAAGAAGCAAA+AGG 0.500793 7.1:+19623219 MS.gene067791:CDS
AGGACACCACAATGGAGGGC+AGG 0.517149 7.1:+19623536 MS.gene067791:CDS
AATGGGCCTGCCCTCCATTG+TGG 0.529439 7.1:-19623542 None:intergenic
TTGAAAGGTTAGAGCAAGAA+GGG 0.531774 7.1:-19622673 None:intergenic
CTTGAAAGGTTAGAGCAAGA+AGG 0.532182 7.1:-19622674 None:intergenic
ACAAAAGTTGGACTCTTAGC+AGG 0.532481 7.1:-19623635 None:intergenic
TAGTGAGTGCAAACAAGAGA+AGG 0.541293 7.1:+19622643 MS.gene067791:CDS
GTTAGCTGATAGTGAACTCA+TGG 0.566356 7.1:+19623358 MS.gene067791:CDS
GGTCATCAAGGCTACTTGAA+AGG 0.569542 7.1:-19622688 None:intergenic
GAGCAGAAAAGAGGTCATCA+AGG 0.570986 7.1:-19622700 None:intergenic
TGTGGTGTGAGGTACAAATC+TGG 0.576464 7.1:+19623590 MS.gene067791:CDS
CTCTTAGCAGGTCTATACTC+TGG 0.579993 7.1:-19623623 None:intergenic
GTAGGAAGTGGATGTTGGAA+TGG 0.583317 7.1:+19623037 MS.gene067791:intron
TTTGAGGTTGATGTTAACAA+TGG 0.593552 7.1:+19623467 MS.gene067791:CDS
ACAAAGGACACCACAATGGA+GGG 0.595325 7.1:+19623532 MS.gene067791:CDS
CACAAAGGACACCACAATGG+AGG 0.600689 7.1:+19623531 MS.gene067791:CDS
ACAAGAAAGTCATGGAGATG+AGG 0.609025 7.1:+19623681 MS.gene067791:CDS
AAATTCACACAAGAAAGTCA+TGG 0.613481 7.1:+19623673 MS.gene067791:CDS
AAGTGGATGTTGGAATGGAA+TGG 0.634243 7.1:+19623042 MS.gene067791:CDS
AACCACCAACACTACTCACT+AGG 0.638539 7.1:-19623734 None:intergenic
GTCAAAATCCAATTCCAACA+AGG 0.638845 7.1:+19623489 MS.gene067791:CDS
GTACACATTGTTTGTCACAA+AGG 0.655851 7.1:+19623516 MS.gene067791:CDS
AAACACAGTGAAGAAACCAA+AGG 0.660234 7.1:+19623166 MS.gene067791:CDS
GTGTGAGGTACAAATCTGGT+AGG 0.664094 7.1:+19623594 MS.gene067791:CDS
TGTCACAAAGGACACCACAA+TGG 0.697141 7.1:+19623528 MS.gene067791:CDS
AAAATCCAATTCCAACAAGG+AGG 0.704851 7.1:+19623492 MS.gene067791:CDS
TATGCAATGCATGTGGTGTG+AGG 0.734829 7.1:+19623579 MS.gene067791:CDS
AAGACACTATGCAATGCATG+TGG 0.751831 7.1:+19623572 MS.gene067791:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATTATGTTTATAATTTTCA+TGG + chr7.1:19622935-19622954 MS.gene067791:intron 10.0%
!!! ATTAGTTTTTGCTAAAATTA+TGG + chr7.1:19622978-19622997 MS.gene067791:intron 15.0%
!! TGAAAAGGAAATTATGAAAA+AGG + chr7.1:19623424-19623443 MS.gene067791:CDS 20.0%
! AGATTATGAAGTTGTTGAAA+AGG + chr7.1:19623409-19623428 MS.gene067791:CDS 25.0%
! AGGAAATTATGAAAAAGGAA+AGG + chr7.1:19623429-19623448 MS.gene067791:CDS 25.0%
! GAAAAACATATGTTAGAACA+AGG - chr7.1:19622846-19622865 None:intergenic 25.0%
AAATTCACACAAGAAAGTCA+TGG + chr7.1:19623673-19623692 MS.gene067791:CDS 30.0%
ATGTTTGGTCAAACTATGTA+AGG - chr7.1:19623013-19623032 None:intergenic 30.0%
CTCTCTTAAAACAAGCTTAT+TGG + chr7.1:19623336-19623355 MS.gene067791:CDS 30.0%
GTTTGACCAAACATTTATGT+AGG + chr7.1:19623019-19623038 MS.gene067791:intron 30.0%
TATTGGACAAGATGCTTAAA+GGG - chr7.1:19623277-19623296 None:intergenic 30.0%
TGCAAAAAACTCACAAAAGT+TGG - chr7.1:19623650-19623669 None:intergenic 30.0%
! AACATAGTGACTCATTTTGA+GGG - chr7.1:19623307-19623326 None:intergenic 30.0%
! CACTAGAAACTTGTACATTT+TGG - chr7.1:19622628-19622647 None:intergenic 30.0%
! GTAAAAGTACACAACTTTGT+GGG - chr7.1:19623100-19623119 None:intergenic 30.0%
!! AAAGGAAAGGTTTGATTTTG+AGG + chr7.1:19623442-19623461 MS.gene067791:CDS 30.0%
!! AAGGAAAGGTTTGATTTTGA+GGG + chr7.1:19623443-19623462 MS.gene067791:CDS 30.0%
!! ATTTTGAGGGTTTAAGGTAT+TGG - chr7.1:19623294-19623313 None:intergenic 30.0%
!! TTTGAGGTTGATGTTAACAA+TGG + chr7.1:19623467-19623486 MS.gene067791:CDS 30.0%
!!! CAATAAGCTTGTTTTAAGAG+AGG - chr7.1:19623338-19623357 None:intergenic 30.0%
AAAATCCAATTCCAACAAGG+AGG + chr7.1:19623492-19623511 MS.gene067791:CDS 35.0%
AAACACAGTGAAGAAACCAA+AGG + chr7.1:19623166-19623185 MS.gene067791:CDS 35.0%
ATGCATTGCATAGTGTCTTT+GGG - chr7.1:19623571-19623590 None:intergenic 35.0%
CCAAACATTTATGTAGGAAG+TGG + chr7.1:19623025-19623044 MS.gene067791:intron 35.0%
CCACTTCCTACATAAATGTT+TGG - chr7.1:19623028-19623047 None:intergenic 35.0%
GTACACATTGTTTGTCACAA+AGG + chr7.1:19623516-19623535 MS.gene067791:CDS 35.0%
GTATTGGACAAGATGCTTAA+AGG - chr7.1:19623278-19623297 None:intergenic 35.0%
GTCAAAATCCAATTCCAACA+AGG + chr7.1:19623489-19623508 MS.gene067791:CDS 35.0%
GTTAGAACAAGGACATAACT+AGG - chr7.1:19622835-19622854 None:intergenic 35.0%
TTGAAAGGTTAGAGCAAGAA+GGG - chr7.1:19622676-19622695 None:intergenic 35.0%
TTTATGTAGGAAGTGGATGT+TGG + chr7.1:19623032-19623051 MS.gene067791:intron 35.0%
! AAGATGCTTAAAGGGTCTTT+TGG - chr7.1:19623269-19623288 None:intergenic 35.0%
! GAACATAGTGACTCATTTTG+AGG - chr7.1:19623308-19623327 None:intergenic 35.0%
! GACTCATTTTGTTCTTCCTT+TGG - chr7.1:19623185-19623204 None:intergenic 35.0%
! GGTAAAAGTACACAACTTTG+TGG - chr7.1:19623101-19623120 None:intergenic 35.0%
!! AGGAAAGGTTTGATTTTGAG+GGG + chr7.1:19623444-19623463 MS.gene067791:CDS 35.0%
!! GTTACCTCTTTTTCACACTT+AGG - chr7.1:19623386-19623405 None:intergenic 35.0%
!! GTTGTGTTTTGAACACTTGA+GGG - chr7.1:19623122-19623141 None:intergenic 35.0%
!! TGACTCATTTTGAGGGTTTA+AGG - chr7.1:19623300-19623319 None:intergenic 35.0%
!! TGTTGTGTTTTGAACACTTG+AGG - chr7.1:19623123-19623142 None:intergenic 35.0%
!!! AAGCTTGTTTTAAGAGAGGT+GGG - chr7.1:19623334-19623353 None:intergenic 35.0%
!!! TAAGCTTGTTTTAAGAGAGG+TGG - chr7.1:19623335-19623354 None:intergenic 35.0%
AAGACACTATGCAATGCATG+TGG + chr7.1:19623572-19623591 MS.gene067791:CDS 40.0%
AAGTGGATGTTGGAATGGAA+TGG + chr7.1:19623042-19623061 MS.gene067791:CDS 40.0%
ACAAAAGTTGGACTCTTAGC+AGG - chr7.1:19623638-19623657 None:intergenic 40.0%
ACAAGAAAGTCATGGAGATG+AGG + chr7.1:19623681-19623700 MS.gene067791:CDS 40.0%
ATAGTGTCTTTGGGCCTAAT+GGG - chr7.1:19623562-19623581 None:intergenic 40.0%
CATGCATTGCATAGTGTCTT+TGG - chr7.1:19623572-19623591 None:intergenic 40.0%
CTTGAAAGGTTAGAGCAAGA+AGG - chr7.1:19622677-19622696 None:intergenic 40.0%
GAACAAGGACATAACTAGGA+AGG - chr7.1:19622831-19622850 None:intergenic 40.0%
GGTACCTAAGTGTGAAAAAG+AGG + chr7.1:19623379-19623398 MS.gene067791:CDS 40.0%
GGTTTCTTCACTGTGTTTGA+AGG - chr7.1:19623164-19623183 None:intergenic 40.0%
TAGTGAGTGCAAACAAGAGA+AGG + chr7.1:19622643-19622662 MS.gene067791:CDS 40.0%
! CCTCTTTTCTGCTCAAAACA+TGG + chr7.1:19622709-19622728 MS.gene067791:CDS 40.0%
! GTTAGCTGATAGTGAACTCA+TGG + chr7.1:19623358-19623377 MS.gene067791:CDS 40.0%
!! AAAGGGTCTTTTGGTCTTCT+TGG - chr7.1:19623260-19623279 None:intergenic 40.0%
!! CCATGTTTTGAGCAGAAAAG+AGG - chr7.1:19622712-19622731 None:intergenic 40.0%
!! GTTTGATTTTGAGGGGTTTG+AGG + chr7.1:19623451-19623470 MS.gene067791:CDS 40.0%
ACAAAGGACACCACAATGGA+GGG + chr7.1:19623532-19623551 MS.gene067791:CDS 45.0%
CAATGTGTACACCTCCTTGT+TGG - chr7.1:19623506-19623525 None:intergenic 45.0%
CAGGCAAAGCAAGAAGCAAA+AGG + chr7.1:19623219-19623238 MS.gene067791:CDS 45.0%
CATAGTGTCTTTGGGCCTAA+TGG - chr7.1:19623563-19623582 None:intergenic 45.0%
CTCTTAGCAGGTCTATACTC+TGG - chr7.1:19623626-19623645 None:intergenic 45.0%
GAGCAGAAAAGAGGTCATCA+AGG - chr7.1:19622703-19622722 None:intergenic 45.0%
GGTCATCAAGGCTACTTGAA+AGG - chr7.1:19622691-19622710 None:intergenic 45.0%
GTACACCTCCTTGTTGGAAT+TGG - chr7.1:19623500-19623519 None:intergenic 45.0%
GTAGGAAGTGGATGTTGGAA+TGG + chr7.1:19623037-19623056 MS.gene067791:intron 45.0%
GTGTGAGGTACAAATCTGGT+AGG + chr7.1:19623594-19623613 MS.gene067791:CDS 45.0%
TATGCAATGCATGTGGTGTG+AGG + chr7.1:19623579-19623598 MS.gene067791:CDS 45.0%
TGTCACAAAGGACACCACAA+TGG + chr7.1:19623528-19623547 MS.gene067791:CDS 45.0%
TGTGGTGTGAGGTACAAATC+TGG + chr7.1:19623590-19623609 MS.gene067791:CDS 45.0%
! CTTTTGCTTCTTGCTTTGCC+TGG - chr7.1:19623221-19623240 None:intergenic 45.0%
!! AATTATAAACATAATATTAA+AGG - chr7.1:19622931-19622950 None:intergenic 5.0%
CACAAAGGACACCACAATGG+AGG + chr7.1:19623531-19623550 MS.gene067791:CDS 50.0%
GCTTTGCCTGGAACTGCAAA+AGG - chr7.1:19623209-19623228 None:intergenic 50.0%
! GAGTCACCTTTTGCAGTTCC+AGG + chr7.1:19623200-19623219 MS.gene067791:CDS 50.0%
AATGGGCCTGCCCTCCATTG+TGG - chr7.1:19623545-19623564 None:intergenic 60.0%
AGGACACCACAATGGAGGGC+AGG + chr7.1:19623536-19623555 MS.gene067791:CDS 60.0%
CAATGGAGGGCAGGCCCATT+AGG + chr7.1:19623545-19623564 MS.gene067791:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 19622614 19623745 19622614 ID=MS.gene067791
chr7.1 mRNA 19622614 19623745 19622614 ID=MS.gene067791.t1;Parent=MS.gene067791
chr7.1 exon 19622614 19622730 19622614 ID=MS.gene067791.t1.exon1;Parent=MS.gene067791.t1
chr7.1 CDS 19622614 19622730 19622614 ID=cds.MS.gene067791.t1;Parent=MS.gene067791.t1
chr7.1 exon 19623041 19623745 19623041 ID=MS.gene067791.t1.exon2;Parent=MS.gene067791.t1
chr7.1 CDS 19623041 19623745 19623041 ID=cds.MS.gene067791.t1;Parent=MS.gene067791.t1
Gene Sequence

>MS.gene067791

ATGGATGTGTGCCAAAATGTACAAGTTTCTAGTGAGTGCAAACAAGAGAAGGTTCTTAACCCTTCTTGCTCTAACCTTTCAAGTAGCCTTGATGACCTCTTTTCTGCTCAAAACATGGTTAGTCTTTGTTTCACTTTAATGTTAACTTCTTCAAAGTTCACTCTTTTTCTTCTGTTTTTCAACTTTTGTTACTATTCTAGCTTAACTCACTTGTCCTTCCTAGTTATGTCCTTGTTCTAACATATGTTTTTCTTACTATGTTTGAAAAAAGTAATTTTTTTTGTTTGACTAAATATATCTTTACAAAGTTTAAACCTTTAATATTATGTTTATAATTTTCATGGTTTATTTAAGTGTTTCTAAAATTAGTTTTTGCTAAAATTATGGTTGACTAAACCTTACATAGTTTGACCAAACATTTATGTAGGAAGTGGATGTTGGAATGGAATGGCTTTCAGTGTTTGTTGAAGACTGTTTCTCAAGCCCACAAAGTTGTGTACTTTTACCCTCAAGTGTTCAAAACACAACAAGTACTGTCTCATCAAAACCTTCAAACACAGTGAAGAAACCAAAGGAAGAACAAAATGAGTCACCTTTTGCAGTTCCAGGCAAAGCAAGAAGCAAAAGGAAGAGACTTTCAGCTCCAAGAAGACCAAAAGACCCTTTAAGCATCTTGTCCAATACCTTAAACCCTCAAAATGAGTCACTATGTTCTGACCCACCTCTCTTAAAACAAGCTTATTGGTTAGCTGATAGTGAACTCATGGTACCTAAGTGTGAAAAAGAGGTAACAAAAGATTATGAAGTTGTTGAAAAGGAAATTATGAAAAAGGAAAGGTTTGATTTTGAGGGGTTTGAGGTTGATGTTAACAATGGTCAAAATCCAATTCCAACAAGGAGGTGTACACATTGTTTGTCACAAAGGACACCACAATGGAGGGCAGGCCCATTAGGCCCAAAGACACTATGCAATGCATGTGGTGTGAGGTACAAATCTGGTAGGTTGTTGCCAGAGTATAGACCTGCTAAGAGTCCAACTTTTGTGAGTTTTTTGCATTCAAATTCACACAAGAAAGTCATGGAGATGAGGATGAATGTGAATGTTGTATCTTCCATTAATCCTAGTGAGTAG
Protein sequence

>MS.gene067791.t1

MDVCQNVQVSSECKQEKVLNPSCSNLSSSLDDLFSAQNMEVDVGMEWLSVFVEDCFSSPQSCVLLPSSVQNTTSTVSSKPSNTVKKPKEEQNESPFAVPGKARSKRKRLSAPRRPKDPLSILSNTLNPQNESLCSDPPLLKQAYWLADSELMVPKCEKEVTKDYEVVEKEIMKKERFDFEGFEVDVNNGQNPIPTRRCTHCLSQRTPQWRAGPLGPKTLCNACGVRYKSGRLLPEYRPAKSPTFVSFLHSNSHKKVMEMRMNVNVVSSINPSE