AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050214

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050214.t1 MTR_1g090400 94.737 171 7 1 34 204 168 336 1.20e-113 328
MS.gene050214.t1 MTR_7g106500 40.678 236 107 4 1 203 1 236 1.03e-51 168
MS.gene050214.t1 MTR_7g104720 52.419 124 56 2 80 202 248 369 1.48e-37 134
MS.gene050214.t1 MTR_8g099665 42.208 154 81 2 59 204 181 334 6.46e-34 124
MS.gene050214.t1 MTR_1g051180 47.414 116 60 1 87 201 203 318 1.25e-31 118
MS.gene050214.t1 MTR_5g083110 47.009 117 60 2 88 203 90 205 9.15e-31 113
MS.gene050214.t1 MTR_8g106900 51.456 103 49 1 83 184 113 215 1.58e-29 110
MS.gene050214.t1 MTR_3g017490 45.536 112 60 1 91 201 113 224 1.75e-28 108
MS.gene050214.t1 MTR_8g038440 43.103 116 62 1 90 201 103 218 2.10e-26 102
MS.gene050214.t1 MTR_7g090230 42.609 115 64 1 89 201 274 388 5.30e-26 103
MS.gene050214.t1 MTR_3g465550 44.828 116 61 2 89 202 84 198 7.91e-26 100
MS.gene050214.t1 MTR_7g010090 39.766 171 87 5 36 201 220 379 9.22e-26 103
MS.gene050214.t1 MTR_5g072400 43.478 115 63 2 89 202 106 219 2.47e-23 94.4
MS.gene050214.t1 MTR_3g071510 37.838 111 67 2 93 202 91 200 5.24e-21 87.4
MS.gene050214.t1 MTR_6g011640 32.203 177 94 5 37 201 187 349 3.73e-20 87.4
MS.gene050214.t1 MTR_3g030520 39.091 110 59 2 100 201 142 251 1.04e-17 79.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050214.t1 AT5G06470 43.415 205 106 4 1 203 1 197 1.51e-51 166
MS.gene050214.t1 AT5G01420 57.895 133 53 2 72 202 235 366 4.41e-46 157
MS.gene050214.t1 AT4G10630 48.120 133 58 2 83 204 166 298 2.33e-38 135
MS.gene050214.t1 AT3G11773 54.128 109 49 1 95 203 9 116 7.51e-37 126
MS.gene050214.t1 AT5G03870 43.210 162 75 3 30 184 178 329 2.06e-36 131
MS.gene050214.t1 AT1G64500 35.500 200 113 4 11 204 140 329 2.00e-30 115
MS.gene050214.t1 AT1G32760 46.018 113 56 2 77 184 144 256 1.17e-26 103
MS.gene050214.t1 AT5G13810 43.860 114 63 1 89 201 123 236 7.19e-26 101
MS.gene050214.t1 AT2G41330 46.789 109 56 1 95 201 256 364 2.03e-24 99.4
MS.gene050214.t1 AT3G57070 42.241 116 64 1 89 201 264 379 3.94e-24 98.6
MS.gene050214.t1 AT5G58530 42.276 123 60 3 89 201 109 230 9.97e-24 95.5
MS.gene050214.t1 AT3G28850 46.721 122 54 3 91 201 249 370 1.04e-23 97.8
MS.gene050214.t1 AT5G39865 45.082 122 56 3 91 201 223 344 1.12e-23 97.1
MS.gene050214.t1 AT3G11773 40.323 124 50 2 80 203 67 166 2.39e-21 87.4

Find 40 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGATGCTTGTGGTGGTTTA+AGG 0.148710 1.2:-67735282 MS.gene050214:CDS
TCGAACGCAGCAAGTAGTTT+TGG 0.302448 1.2:+67735745 None:intergenic
ATCAATGCACAAGGAGTATA+AGG 0.319818 1.2:-67735464 MS.gene050214:CDS
TTCTACACAACATCGCTTAG+AGG 0.320109 1.2:-67735568 MS.gene050214:CDS
GTTCCAATGGATTGTTCTAA+TGG 0.327957 1.2:-67735310 MS.gene050214:CDS
GGATGAACTGTGGAGCCTTT+TGG 0.348501 1.2:-67735443 MS.gene050214:CDS
CTTCAGGTAAAATCCATTGA+TGG 0.409719 1.2:-67736184 MS.gene050214:CDS
TTTGTTAAGGGAAGATATAT+AGG 0.419790 1.2:-67735394 MS.gene050214:CDS
AATGCCAGAACGTATTCTTC+AGG 0.424308 1.2:-67736200 MS.gene050214:CDS
AAAACTACTTGCTGCGTTCG+AGG 0.434476 1.2:-67735743 MS.gene050214:CDS
AGAAGTTGAAGTTGACCCTT+TGG 0.437150 1.2:-67735638 MS.gene050214:CDS
GTTTCTTCTACAAAGTTTCA+AGG 0.449292 1.2:-67735509 MS.gene050214:CDS
GAAGCTCAAATCAATCAAAC+AGG 0.457778 1.2:-67736233 MS.gene050214:CDS
TTTACCTGAAGAATACGTTC+TGG 0.475307 1.2:+67736196 None:intergenic
AAAATCTGCATACCCATCAA+TGG 0.498345 1.2:+67736171 None:intergenic
TGGTGGTTTAAGGTTTGTGA+TGG 0.503621 1.2:-67735272 MS.gene050214:CDS
TGAGGAAGAGTTTACAAAGG+TGG 0.505075 1.2:-67735689 MS.gene050214:CDS
AATTCTTGAAGGGGTTCCAA+TGG 0.506549 1.2:-67735323 MS.gene050214:CDS
AGTTGAAGAAAATTCTTGAA+GGG 0.524425 1.2:-67735333 MS.gene050214:CDS
AAGTTGAAGAAAATTCTTGA+AGG 0.526961 1.2:-67735334 MS.gene050214:CDS
GCACAACTTTCTCACCCAAA+AGG 0.528869 1.2:+67735428 None:intergenic
TTCAGGTAAAATCCATTGAT+GGG 0.528869 1.2:-67736183 MS.gene050214:intron
GTTGAAGAAAATTCTTGAAG+GGG 0.541357 1.2:-67735332 MS.gene050214:CDS
GTGAGAAAGTTGTGCCTCCA+AGG 0.543640 1.2:-67735420 MS.gene050214:CDS
TCTCTTCAAATAACGCCAAA+GGG 0.545226 1.2:+67735623 None:intergenic
AAGTGTCCACCAGGTGGTGA+TGG 0.545637 1.2:-67735601 MS.gene050214:CDS
TTCTCTTCAAATAACGCCAA+AGG 0.551664 1.2:+67735622 None:intergenic
TGCGTTCGAGGAAGCTGTGA+AGG 0.562144 1.2:-67735731 MS.gene050214:CDS
AATGGACCTTGTGATGCTTG+TGG 0.579467 1.2:-67735292 MS.gene050214:CDS
GGTCCATTAGAACAATCCAT+TGG 0.585251 1.2:+67735307 None:intergenic
GGACCTTGTGATGCTTGTGG+TGG 0.596799 1.2:-67735289 MS.gene050214:CDS
ATCACAGTACCATCACCACC+TGG 0.624770 1.2:+67735592 None:intergenic
TTTGAAGAGAAGTGTCCACC+AGG 0.629966 1.2:-67735610 MS.gene050214:CDS
AGTTGAGGAAGAGTTTACAA+AGG 0.642245 1.2:-67735692 MS.gene050214:CDS
AAACCACCACAAGCATCACA+AGG 0.679920 1.2:+67735286 None:intergenic
ACAGTACCATCACCACCTGG+TGG 0.680584 1.2:+67735595 None:intergenic
GAGGGATATATCAATGCACA+AGG 0.680749 1.2:-67735473 MS.gene050214:CDS
AGGAAGCTGTGAAGGAACAG+AGG 0.688483 1.2:-67735723 MS.gene050214:CDS
GAAGAGAAGTGTCCACCAGG+TGG 0.706764 1.2:-67735607 MS.gene050214:CDS
AGGAGTATAAGGATGAACTG+TGG 0.720579 1.2:-67735453 MS.gene050214:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTGAAAGATGAAATCTT+TGG + chr1.2:67735384-67735403 None:intergenic 20.0%
! AAAGAGAATATTAGTCACAA+AGG - chr1.2:67735570-67735589 MS.gene050214:CDS 25.0%
! AAGTTGAAGAAAATTCTTGA+AGG - chr1.2:67736192-67736211 MS.gene050214:CDS 25.0%
! AGTTGAAGAAAATTCTTGAA+GGG - chr1.2:67736193-67736212 MS.gene050214:CDS 25.0%
! TCTGATACATCAATAATTTC+TGG + chr1.2:67735480-67735499 None:intergenic 25.0%
! TGAAGAAAATGAAGAAGAAA+TGG - chr1.2:67735515-67735534 MS.gene050214:CDS 25.0%
! TTTGTTAAGGGAAGATATAT+AGG - chr1.2:67736132-67736151 MS.gene050214:intron 25.0%
!! AAATGAAGAAGAAATGGATT+TGG - chr1.2:67735521-67735540 MS.gene050214:CDS 25.0%
GAGCTAATACTGATAGAAAA+AGG - chr1.2:67735686-67735705 MS.gene050214:CDS 30.0%
GTTGAAGAAAATTCTTGAAG+GGG - chr1.2:67736194-67736213 MS.gene050214:CDS 30.0%
GTTTCTTCTACAAAGTTTCA+AGG - chr1.2:67736017-67736036 MS.gene050214:intron 30.0%
TTCAGGTAAAATCCATTGAT+GGG - chr1.2:67735343-67735362 MS.gene050214:CDS 30.0%
! CATTTTCTCGAGAAACAAAT+GGG + chr1.2:67735413-67735432 None:intergenic 30.0%
! TCATTTTCTCGAGAAACAAA+TGG + chr1.2:67735414-67735433 None:intergenic 30.0%
! TTTCTATCAGTATTAGCTCT+TGG + chr1.2:67735685-67735704 None:intergenic 30.0%
!! ACATCAATAATTTCTGGTTG+TGG + chr1.2:67735474-67735493 None:intergenic 30.0%
!!! GTAGAAGAAACCGAATTTTT+TGG + chr1.2:67736008-67736027 None:intergenic 30.0%
AAAATCTGCATACCCATCAA+TGG + chr1.2:67735358-67735377 None:intergenic 35.0%
AAACTATCACTCTCAGAAAG+AGG + chr1.2:67735718-67735737 None:intergenic 35.0%
AACTATCACTCTCAGAAAGA+GGG + chr1.2:67735717-67735736 None:intergenic 35.0%
AAGAAACAGAGTCAAAACAG+AGG - chr1.2:67735625-67735644 MS.gene050214:CDS 35.0%
AGAAACAGAGTCAAAACAGA+GGG - chr1.2:67735626-67735645 MS.gene050214:CDS 35.0%
AGTTGAGGAAGAGTTTACAA+AGG - chr1.2:67735834-67735853 MS.gene050214:intron 35.0%
CTTCAGGTAAAATCCATTGA+TGG - chr1.2:67735342-67735361 MS.gene050214:CDS 35.0%
GAAGCTCAAATCAATCAAAC+AGG - chr1.2:67735293-67735312 MS.gene050214:CDS 35.0%
TCGAAGACTGCCAAAAAATT+CGG - chr1.2:67735995-67736014 MS.gene050214:intron 35.0%
TCTCTTCAAATAACGCCAAA+GGG + chr1.2:67735906-67735925 None:intergenic 35.0%
TTCTCTTCAAATAACGCCAA+AGG + chr1.2:67735907-67735926 None:intergenic 35.0%
TTTACCTGAAGAATACGTTC+TGG + chr1.2:67735333-67735352 None:intergenic 35.0%
! AGAGTGATAGTTTGTCGTTT+CGG - chr1.2:67735725-67735744 MS.gene050214:CDS 35.0%
! ATCAATGCACAAGGAGTATA+AGG - chr1.2:67736062-67736081 MS.gene050214:intron 35.0%
! GTTGTTTCGGTTTCGAAAAT+TGG - chr1.2:67735594-67735613 MS.gene050214:CDS 35.0%
! TTTTGGATCAAACAAGCTAC+CGG + chr1.2:67735767-67735786 None:intergenic 35.0%
!! CAAGGTTTTGTATCTTGAGA+GGG - chr1.2:67736035-67736054 MS.gene050214:intron 35.0%
!! GTTCCAATGGATTGTTCTAA+TGG - chr1.2:67736216-67736235 MS.gene050214:CDS 35.0%
!! TAGTCACAAAGGTGTTGTTT+CGG - chr1.2:67735581-67735600 MS.gene050214:CDS 35.0%
!! TCAAGGTTTTGTATCTTGAG+AGG - chr1.2:67736034-67736053 MS.gene050214:intron 35.0%
!!! GTTTTGAGTTTGCATGAACA+AGG - chr1.2:67736168-67736187 MS.gene050214:intron 35.0%
AAGCTACCGGAATTCAAATC+CGG + chr1.2:67735754-67735773 None:intergenic 40.0%
AATGCCAGAACGTATTCTTC+AGG - chr1.2:67735326-67735345 MS.gene050214:CDS 40.0%
AATTCTTGAAGGGGTTCCAA+TGG - chr1.2:67736203-67736222 MS.gene050214:CDS 40.0%
ACAGAGGAAAAACAGAGTTG+AGG - chr1.2:67735819-67735838 MS.gene050214:intron 40.0%
AGAAGTTGAAGTTGACCCTT+TGG - chr1.2:67735888-67735907 MS.gene050214:intron 40.0%
CTTCCCTTAACAAAAAGCCT+TGG + chr1.2:67736126-67736145 None:intergenic 40.0%
GAAAAGTTGCGAGAATTTGC+AGG - chr1.2:67735440-67735459 MS.gene050214:CDS 40.0%
GAGGGATATATCAATGCACA+AGG - chr1.2:67736053-67736072 MS.gene050214:intron 40.0%
GGTCCATTAGAACAATCCAT+TGG + chr1.2:67736222-67736241 None:intergenic 40.0%
TGAGGAAGAGTTTACAAAGG+TGG - chr1.2:67735837-67735856 MS.gene050214:intron 40.0%
TTCTACACAACATCGCTTAG+AGG - chr1.2:67735958-67735977 MS.gene050214:intron 40.0%
! AGGAGTATAAGGATGAACTG+TGG - chr1.2:67736073-67736092 MS.gene050214:intron 40.0%
! CCTCCAAGGCTTTTTGTTAA+GGG - chr1.2:67736120-67736139 MS.gene050214:intron 40.0%
! GTATTAGCTCTTGGTAACAG+TGG + chr1.2:67735676-67735695 None:intergenic 40.0%
! TCTCGAGAAACAAATGGGTT+TGG + chr1.2:67735408-67735427 None:intergenic 40.0%
! TGGTGGTTTAAGGTTTGTGA+TGG - chr1.2:67736254-67736273 MS.gene050214:CDS 40.0%
AAACCACCACAAGCATCACA+AGG + chr1.2:67736243-67736262 None:intergenic 45.0%
AACAGAGTCAAAACAGAGGG+AGG - chr1.2:67735629-67735648 MS.gene050214:CDS 45.0%
AATGGACCTTGTGATGCTTG+TGG - chr1.2:67736234-67736253 MS.gene050214:CDS 45.0%
CCCTTAACAAAAAGCCTTGG+AGG + chr1.2:67736123-67736142 None:intergenic 45.0%
GCACAACTTTCTCACCCAAA+AGG + chr1.2:67736101-67736120 None:intergenic 45.0%
GTGATGCTTGTGGTGGTTTA+AGG - chr1.2:67736244-67736263 MS.gene050214:CDS 45.0%
! AAAACTACTTGCTGCGTTCG+AGG - chr1.2:67735783-67735802 MS.gene050214:intron 45.0%
! GATGAACTGTGGAGCCTTTT+GGG - chr1.2:67736084-67736103 MS.gene050214:intron 45.0%
! GCCTCCAAGGCTTTTTGTTA+AGG - chr1.2:67736119-67736138 MS.gene050214:intron 45.0%
! TAGTTTGTCGTTTCGGAGAC+CGG - chr1.2:67735732-67735751 MS.gene050214:CDS 45.0%
! TCGAACGCAGCAAGTAGTTT+TGG + chr1.2:67735784-67735803 None:intergenic 45.0%
! TTAGCTCTTGGTAACAGTGG+TGG + chr1.2:67735673-67735692 None:intergenic 45.0%
!! TTTGAAGAGAAGTGTCCACC+AGG - chr1.2:67735916-67735935 MS.gene050214:intron 45.0%
AGGAAGCTGTGAAGGAACAG+AGG - chr1.2:67735803-67735822 MS.gene050214:intron 50.0%
ATCACAGTACCATCACCACC+TGG + chr1.2:67735937-67735956 None:intergenic 50.0%
CGGAGACCGGATTTGAATTC+CGG - chr1.2:67735745-67735764 MS.gene050214:CDS 50.0%
GTGAGAAAGTTGTGCCTCCA+AGG - chr1.2:67736106-67736125 MS.gene050214:intron 50.0%
! GGATGAACTGTGGAGCCTTT+TGG - chr1.2:67736083-67736102 MS.gene050214:intron 50.0%
AAGTGTCCACCAGGTGGTGA+TGG - chr1.2:67735925-67735944 MS.gene050214:intron 55.0%
ACAGTACCATCACCACCTGG+TGG + chr1.2:67735934-67735953 None:intergenic 55.0%
GGACCTTGTGATGCTTGTGG+TGG - chr1.2:67736237-67736256 MS.gene050214:CDS 55.0%
TGCGTTCGAGGAAGCTGTGA+AGG - chr1.2:67735795-67735814 MS.gene050214:intron 55.0%
!! GAAGAGAAGTGTCCACCAGG+TGG - chr1.2:67735919-67735938 MS.gene050214:intron 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 67735264 67736284 67735264 ID=MS.gene050214
chr1.2 mRNA 67735264 67736284 67735264 ID=MS.gene050214.t1;Parent=MS.gene050214
chr1.2 exon 67736184 67736284 67736184 ID=MS.gene050214.t1.exon1;Parent=MS.gene050214.t1
chr1.2 CDS 67736184 67736284 67736184 ID=cds.MS.gene050214.t1;Parent=MS.gene050214.t1
chr1.2 exon 67735264 67735777 67735264 ID=MS.gene050214.t1.exon2;Parent=MS.gene050214.t1
chr1.2 CDS 67735264 67735777 67735264 ID=cds.MS.gene050214.t1;Parent=MS.gene050214.t1
Gene Sequence

>MS.gene050214

ATGAAGGGAGTGAAAGGAAAATTGTTGAAGAAGCTCAAATCAATCAAACAGGTCAATTATCTAATGCCAGAACGTATTCTTCAGGTAAAATCCATTGATGGGTATGCAGATTTTCTTCCAAAGATTTCATCTTTCAATATACCAAACCCATTTGTTTCTCGAGAAAATGAGTCGAAGAAAAGTTGCGAGAATTTGCAGGAAGAACAACCACAACCAGAAATTATTGATGTATCAGAGCTTATGAAAGATCTTGAAGAAAATGAAGAAGAAATGGATTTGGATGATGATGATGATTACAATGATAATAAAGAGAATATTAGTCACAAAGGTGTTGTTTCGGTTTCGAAAATTGGTAACAGAGAAGAAACAGAGTCAAAACAGAGGGAGGTTTTTCAGAGAAAAAAGACCACCACTGTTACCAAGAGCTAATACTGATAGAAAAAGGAAAAGCCCTCTTTCTGAGAGTGATAGTTTGTCGTTTCGGAGACCGGATTTGAATTCCGGTAGCTTGTTTGATCCAAAACTACTTGCTGCGTTCGAGGAAGCTGTGAAGGAACAGAGGAAAAACAGAGTTGAGGAAGAGTTTACAAAGGTGGATAAAATTGAATTTTTTGATGAAGATGAAGAAGTTGAAGTTGACCCTTTGGCGTTATTTGAAGAGAAGTGTCCACCAGGTGGTGATGGTACTGTGATTTTCTACACAACATCGCTTAGAGGAATCAGAAAGACTTTCGAAGACTGCCAAAAAATTCGGTTTCTTCTACAAAGTTTCAAGGTTTTGTATCTTGAGAGGGATATATCAATGCACAAGGAGTATAAGGATGAACTGTGGAGCCTTTTGGGTGAGAAAGTTGTGCCTCCAAGGCTTTTTGTTAAGGGAAGATATATAGGTGCAACAGAAGAAGTTTTGAGTTTGCATGAACAAGGAAAGTTGAAGAAAATTCTTGAAGGGGTTCCAATGGATTGTTCTAATGGACCTTGTGATGCTTGTGGTGGTTTAAGGTTTGTGATGGTGTTTTAA
Protein sequence

>MS.gene050214.t1

MKGVKGKLLKKLKSIKQVNYLMPERILQVKSIDGLFDPKLLAAFEEAVKEQRKNRVEEEFTKVDKIEFFDEDEEVEVDPLALFEEKCPPGGDGTVIFYTTSLRGIRKTFEDCQKIRFLLQSFKVLYLERDISMHKEYKDELWSLLGEKVVPPRLFVKGRYIGATEEVLSLHEQGKLKKILEGVPMDCSNGPCDACGGLRFVMVF