AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene037373


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037373.t1 MTR_1g114640 94.619 223 12 0 1 223 1 223 2.57e-156 432
MS.gene037373.t1 MTR_1g114640 92.727 165 12 0 1 165 1 165 1.98e-107 306
MS.gene037373.t1 MTR_1g033750 64.384 219 75 2 5 220 4 222 4.71e-96 280
MS.gene037373.t1 MTR_1g114690 55.702 228 82 3 1 220 1 217 1.36e-81 243
MS.gene037373.t1 MTR_1g114690 54.386 228 85 3 1 220 1 217 3.21e-79 237
MS.gene037373.t1 MTR_1g114750 53.363 223 98 4 1 220 1 220 2.17e-75 227
MS.gene037373.t1 MTR_1g114690 48.855 262 81 4 1 220 1 251 1.01e-74 226
MS.gene037373.t1 MTR_1g115130 64.189 148 53 0 73 220 46 193 4.51e-66 203
MS.gene037373.t1 MTR_6g077990 48.756 201 96 1 18 218 3 196 1.16e-60 189
MS.gene037373.t1 MTR_6g077990 58.442 154 64 0 65 218 42 195 1.92e-60 188
MS.gene037373.t1 MTR_8g100065 58.125 160 66 1 60 218 23 182 1.33e-59 186
MS.gene037373.t1 MTR_8g100065 58.125 160 66 1 60 218 45 204 3.83e-59 185
MS.gene037373.t1 MTR_1g114680 87.963 108 13 0 113 220 55 162 2.75e-58 182
MS.gene037373.t1 MTR_6g077990 59.589 146 59 0 73 218 8 153 1.24e-57 180
MS.gene037373.t1 MTR_1g114690 53.012 166 75 2 1 166 1 163 1.29e-50 163
MS.gene037373.t1 MTR_7g083570 36.872 179 113 0 40 218 96 274 4.44e-42 144
MS.gene037373.t1 MTR_3g100750 39.355 155 91 2 65 218 103 255 2.93e-39 136
MS.gene037373.t1 MTR_8g069110 36.813 182 102 3 48 218 88 267 1.23e-38 135
MS.gene037373.t1 MTR_6g077990 58.095 105 44 0 65 169 42 146 3.01e-37 127
MS.gene037373.t1 MTR_8g100065 57.944 107 44 1 60 165 23 129 1.03e-35 123
MS.gene037373.t1 MTR_8g100065 57.944 107 44 1 60 165 45 151 2.03e-35 123
MS.gene037373.t1 MTR_2g076350 36.364 176 111 1 46 220 52 227 6.37e-31 114
MS.gene037373.t1 MTR_5g015750 73.611 72 19 0 1 72 1 72 1.44e-29 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene037373.t1 AT5G23370 59.694 196 69 2 28 218 23 213 4.94e-77 231
MS.gene037373.t1 AT5G08350 56.098 205 80 3 19 218 13 212 7.65e-75 226
MS.gene037373.t1 AT5G23350 57.653 196 73 2 28 218 23 213 2.63e-73 222
MS.gene037373.t1 AT5G23360 56.021 191 76 2 28 218 23 205 1.43e-69 212
MS.gene037373.t1 AT4G01600 41.379 174 101 1 48 220 14 187 1.07e-42 143
MS.gene037373.t1 AT4G01600 41.379 174 101 1 48 220 53 226 2.62e-42 143
MS.gene037373.t1 AT5G13200 34.500 200 128 2 16 214 59 256 7.34e-42 143
MS.gene037373.t1 AT4G01600 39.891 183 107 2 41 220 39 221 7.20e-39 134
MS.gene037373.t1 AT1G28200 34.343 198 119 4 29 218 60 254 1.02e-37 132
MS.gene037373.t1 AT1G28200 34.343 198 119 4 29 218 60 254 1.02e-37 132
MS.gene037373.t1 AT2G22475 35.165 182 115 2 38 218 112 291 4.31e-37 131
MS.gene037373.t1 AT5G13200 32.800 125 84 0 42 166 84 208 4.75e-23 92.8
MS.gene037373.t1 AT4G40100 29.609 179 92 3 43 218 69 216 2.15e-21 89.0
MS.gene037373.t1 AT2G22475 32.143 112 76 0 38 149 112 223 2.79e-17 78.2

Find 39 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATAACAGATACAGTAAA+AGG 0.240338 1.3:-77681227 MS.gene037373:CDS
TTTCTTCAAGAGCTACTAAA+TGG 0.262025 1.3:-77681772 MS.gene037373:CDS
ACTCTACTCAATTCTCCTTT+TGG 0.282744 1.3:+77680999 None:intergenic
CTCTATCAGCTCAAGTTATC+TGG 0.303053 1.3:-77681746 MS.gene037373:CDS
ATTGAGTAGAGTTCGATATA+AGG 0.312499 1.3:-77680988 MS.gene037373:intron
CAGTATTTGCCAGTAGAATC+AGG 0.352707 1.3:+77681697 None:intergenic
TCCTCCAACCTGAAGAATTC+TGG 0.354329 1.3:+77681187 None:intergenic
GCTGGGAGCCAGAATTCTTC+AGG 0.362862 1.3:-77681195 MS.gene037373:CDS
TTATGGGTTTCTTTAATTAT+CGG 0.380305 1.3:-77680730 MS.gene037373:CDS
CTGGCTAAGATGAACATGTT+TGG 0.417230 1.3:-77681534 MS.gene037373:CDS
AGGTAAATTAAATTCAGTTC+TGG 0.426046 1.3:-77681553 MS.gene037373:CDS
GTCTATCACAAAATCAAAGA+AGG 0.465270 1.3:-77681671 MS.gene037373:CDS
ATCAGGCAAGTATCTCTTTG+AGG 0.466817 1.3:+77681714 None:intergenic
AGATACTTGCCTGATTCTAC+TGG 0.476216 1.3:-77681706 MS.gene037373:CDS
ATGAAGAGGAGGCCAGCTAT+AGG 0.476519 1.3:+77681074 None:intergenic
ATCAAGATCTCTTCCCCAAA+AGG 0.477640 1.3:-77681014 MS.gene037373:CDS
AGTAAAAGGGAAATTGAGGC+TGG 0.494835 1.3:-77681213 MS.gene037373:CDS
ATCAGCTCAAGTTATCTGGC+TGG 0.496115 1.3:-77681742 MS.gene037373:CDS
TAGTAGCTCTTGAAGAAATG+AGG 0.516240 1.3:+77681777 None:intergenic
ATACAGTAAAAGGGAAATTG+AGG 0.525157 1.3:-77681217 MS.gene037373:CDS
GCCAGAATTCTTCAGGTTGG+AGG 0.528156 1.3:-77681188 MS.gene037373:CDS
ACCACATCAGGTCCTATAGC+TGG 0.538413 1.3:-77681086 MS.gene037373:CDS
AGATAACAGATACAGTAAAA+GGG 0.539158 1.3:-77681226 MS.gene037373:CDS
TGTTACTTATCAACCACATC+AGG 0.547818 1.3:-77681098 MS.gene037373:CDS
GCACATGGCGTCCGAGAGCA+TGG 0.554650 1.3:-77681492 MS.gene037373:intron
TCAGCTCAAGTTATCTGGCT+GGG 0.557066 1.3:-77681741 MS.gene037373:CDS
GGAGCCAGAATTCTTCAGGT+TGG 0.558952 1.3:-77681191 MS.gene037373:CDS
AGCTTTAAGATATCTCCAGC+AGG 0.564241 1.3:-77680705 MS.gene037373:CDS
TCTATCACAAAATCAAAGAA+GGG 0.593364 1.3:-77681670 MS.gene037373:intron
AAGATTACATACCATGCTCT+CGG 0.597555 1.3:+77681481 None:intergenic
ATAGAAATAGTCACTGTGGA+TGG 0.601998 1.3:-77680767 MS.gene037373:CDS
CTTTGTGAGTGGATATGAAG+AGG 0.608902 1.3:+77681060 None:intergenic
AACATGTTTGGAAGAAAAGA+CGG 0.627231 1.3:-77681522 MS.gene037373:CDS
GCCAGCTATAGGACCTGATG+TGG 0.639099 1.3:+77681085 None:intergenic
GTAAAAGGGAAATTGAGGCT+GGG 0.644769 1.3:-77681212 MS.gene037373:CDS
AAAGACGGTGGTTTAGCACA+TGG 0.659022 1.3:-77681507 MS.gene037373:CDS
TGTGAGTGGATATGAAGAGG+AGG 0.670894 1.3:+77681063 None:intergenic
ATACATAGAAATAGTCACTG+TGG 0.703928 1.3:-77680771 MS.gene037373:CDS
ATGTTTGGAAGAAAAGACGG+TGG 0.712456 1.3:-77681519 MS.gene037373:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTTAAATTAATTGATCA+TGG - chr1.3:77680874-77680893 MS.gene037373:intron 10.0%
!! CTGAAATAGTAAAAAAATTA+AGG + chr1.3:77681607-77681626 None:intergenic 15.0%
!!! AATATGCATTATACATATTT+TGG + chr1.3:77681139-77681158 None:intergenic 15.0%
!!! AATATGTATAATGCATATTT+TGG - chr1.3:77681140-77681159 MS.gene037373:CDS 15.0%
!!! CTTAATTTTTTTACTATTTC+AGG - chr1.3:77681605-77681624 MS.gene037373:intron 15.0%
!! TTATGGGTTTCTTTAATTAT+CGG - chr1.3:77681736-77681755 MS.gene037373:CDS 20.0%
!!! ATTTCTATGTATTTTTCTGA+AGG + chr1.3:77681687-77681706 None:intergenic 20.0%
! AAGATAACAGATACAGTAAA+AGG - chr1.3:77681239-77681258 MS.gene037373:CDS 25.0%
! AGATAACAGATACAGTAAAA+GGG - chr1.3:77681240-77681259 MS.gene037373:CDS 25.0%
! AGGTAAATTAAATTCAGTTC+TGG - chr1.3:77680913-77680932 MS.gene037373:intron 25.0%
! TCTATCACAAAATCAAAGAA+GGG - chr1.3:77680796-77680815 MS.gene037373:CDS 25.0%
!! TTAAGTTTAAGATTACATGC+TGG + chr1.3:77681584-77681603 None:intergenic 25.0%
!!! ATGGTCTTTTTTCTATTTTC+AGG - chr1.3:77680893-77680912 MS.gene037373:intron 25.0%
AACATGTTTGGAAGAAAAGA+CGG - chr1.3:77680944-77680963 MS.gene037373:intron 30.0%
ATACAGTAAAAGGGAAATTG+AGG - chr1.3:77681249-77681268 MS.gene037373:intron 30.0%
ATACATAGAAATAGTCACTG+TGG - chr1.3:77681695-77681714 MS.gene037373:CDS 30.0%
ATTGAGTAGAGTTCGATATA+AGG - chr1.3:77681478-77681497 MS.gene037373:intron 30.0%
GTCTATCACAAAATCAAAGA+AGG - chr1.3:77680795-77680814 MS.gene037373:CDS 30.0%
TTTCTTCAAGAGCTACTAAA+TGG - chr1.3:77680694-77680713 MS.gene037373:CDS 30.0%
!!! AATGCATATTTTGGCATGAT+AGG - chr1.3:77681149-77681168 MS.gene037373:CDS 30.0%
!!! GTTTCTTCACATTTTGACTT+TGG + chr1.3:77681665-77681684 None:intergenic 30.0%
AAGATTACATACCATGCTCT+CGG + chr1.3:77680988-77681007 None:intergenic 35.0%
ACAAAAAGCAACTTTGTGAG+TGG + chr1.3:77681420-77681439 None:intergenic 35.0%
ATAGAAATAGTCACTGTGGA+TGG - chr1.3:77681699-77681718 MS.gene037373:CDS 35.0%
TAGTAGCTCTTGAAGAAATG+AGG + chr1.3:77680692-77680711 None:intergenic 35.0%
TCACAAAATCAAAGAAGGGT+AGG - chr1.3:77680800-77680819 MS.gene037373:CDS 35.0%
! ACATGCTGAATCTTTTCATG+TGG + chr1.3:77681639-77681658 None:intergenic 35.0%
! ACTCTACTCAATTCTCCTTT+TGG + chr1.3:77681470-77681489 None:intergenic 35.0%
! CTCTACTCAATTCTCCTTTT+GGG + chr1.3:77681469-77681488 None:intergenic 35.0%
! TCTACTCAATTCTCCTTTTG+GGG + chr1.3:77681468-77681487 None:intergenic 35.0%
! TGGAAGCATGACAGAATATT+TGG + chr1.3:77681092-77681111 None:intergenic 35.0%
! TGTTACTTATCAACCACATC+AGG - chr1.3:77681368-77681387 MS.gene037373:intron 35.0%
!! TTCACTTTTGCTTAGTTGCA+AGG - chr1.3:77681028-77681047 MS.gene037373:CDS 35.0%
!!! GGTTTTGACTTCTGGTTTAT+GGG - chr1.3:77681720-77681739 MS.gene037373:CDS 35.0%
!!! TGGTTTTGACTTCTGGTTTA+TGG - chr1.3:77681719-77681738 MS.gene037373:CDS 35.0%
AGATACTTGCCTGATTCTAC+TGG - chr1.3:77680760-77680779 MS.gene037373:CDS 40.0%
AGTAAAAGGGAAATTGAGGC+TGG - chr1.3:77681253-77681272 MS.gene037373:intron 40.0%
ATCAAGATCTCTTCCCCAAA+AGG - chr1.3:77681452-77681471 MS.gene037373:intron 40.0%
ATCAGGCAAGTATCTCTTTG+AGG + chr1.3:77680755-77680774 None:intergenic 40.0%
ATGTTTGGAAGAAAAGACGG+TGG - chr1.3:77680947-77680966 MS.gene037373:intron 40.0%
CAGTATTTGCCAGTAGAATC+AGG + chr1.3:77680772-77680791 None:intergenic 40.0%
CTCTATCAGCTCAAGTTATC+TGG - chr1.3:77680720-77680739 MS.gene037373:CDS 40.0%
CTGGCTAAGATGAACATGTT+TGG - chr1.3:77680932-77680951 MS.gene037373:intron 40.0%
CTTCCAAAACTACTAGGCTT+AGG - chr1.3:77681106-77681125 MS.gene037373:CDS 40.0%
CTTTGTGAGTGGATATGAAG+AGG + chr1.3:77681409-77681428 None:intergenic 40.0%
GTAAAAGGGAAATTGAGGCT+GGG - chr1.3:77681254-77681273 MS.gene037373:intron 40.0%
GTCATGCTTCCAAAACTACT+AGG - chr1.3:77681100-77681119 MS.gene037373:CDS 40.0%
! GAGAGCATGGTATGTAATCT+TGG - chr1.3:77680987-77681006 MS.gene037373:intron 40.0%
! TGACCTAAGCCTAGTAGTTT+TGG + chr1.3:77681112-77681131 None:intergenic 40.0%
! TTTTAACCTGCAGTGAGACT+TGG - chr1.3:77681212-77681231 MS.gene037373:CDS 40.0%
!! AGCTTTAAGATATCTCCAGC+AGG - chr1.3:77681761-77681780 MS.gene037373:CDS 40.0%
!! TTTTGGGGAAGAGATCTTGA+TGG + chr1.3:77681453-77681472 None:intergenic 40.0%
AAAGACGGTGGTTTAGCACA+TGG - chr1.3:77680959-77680978 MS.gene037373:intron 45.0%
ATCAGCTCAAGTTATCTGGC+TGG - chr1.3:77680724-77680743 MS.gene037373:CDS 45.0%
TCAGCTCAAGTTATCTGGCT+GGG - chr1.3:77680725-77680744 MS.gene037373:CDS 45.0%
TCCTCCAACCTGAAGAATTC+TGG + chr1.3:77681282-77681301 None:intergenic 45.0%
TGTGAGTGGATATGAAGAGG+AGG + chr1.3:77681406-77681425 None:intergenic 45.0%
TTTGTTCCAAGTCTCACTGC+AGG + chr1.3:77681221-77681240 None:intergenic 45.0%
!! TTTTCTGAAGGATAGCCTGC+TGG + chr1.3:77681779-77681798 None:intergenic 45.0%
!!! CTGTGGATGGTTTTGACTTC+TGG - chr1.3:77681712-77681731 MS.gene037373:CDS 45.0%
ACCACATCAGGTCCTATAGC+TGG - chr1.3:77681380-77681399 MS.gene037373:intron 50.0%
ATGAAGAGGAGGCCAGCTAT+AGG + chr1.3:77681395-77681414 None:intergenic 50.0%
GGAGCCAGAATTCTTCAGGT+TGG - chr1.3:77681275-77681294 MS.gene037373:intron 50.0%
!! GCCAGAATTCTTCAGGTTGG+AGG - chr1.3:77681278-77681297 MS.gene037373:intron 50.0%
GCCAGCTATAGGACCTGATG+TGG + chr1.3:77681384-77681403 None:intergenic 55.0%
GCTGGGAGCCAGAATTCTTC+AGG - chr1.3:77681271-77681290 MS.gene037373:intron 55.0%
GCACATGGCGTCCGAGAGCA+TGG - chr1.3:77680974-77680993 MS.gene037373:intron 65.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 77680682 77681806 77680682 ID=MS.gene037373
chr1.3 mRNA 77680682 77681806 77680682 ID=MS.gene037373.t1;Parent=MS.gene037373
chr1.3 exon 77681671 77681806 77681671 ID=MS.gene037373.t1.exon1;Parent=MS.gene037373.t1
chr1.3 CDS 77681671 77681806 77681671 ID=cds.MS.gene037373.t1;Parent=MS.gene037373.t1
chr1.3 exon 77681493 77681573 77681493 ID=MS.gene037373.t1.exon2;Parent=MS.gene037373.t1
chr1.3 CDS 77681493 77681573 77681493 ID=cds.MS.gene037373.t1;Parent=MS.gene037373.t1
chr1.3 exon 77680989 77681263 77680989 ID=MS.gene037373.t1.exon3;Parent=MS.gene037373.t1
chr1.3 CDS 77680989 77681263 77680989 ID=cds.MS.gene037373.t1;Parent=MS.gene037373.t1
chr1.3 exon 77680682 77680861 77680682 ID=MS.gene037373.t1.exon4;Parent=MS.gene037373.t1
chr1.3 CDS 77680682 77680861 77680682 ID=cds.MS.gene037373.t1;Parent=MS.gene037373.t1
Gene Sequence

>MS.gene037373

ATGAATACCTCATTTCTTCAAGAGCTACTAAATGGAATCTCTATCAGCTCAAGTTATCTGGCTGGGAAATCCTCAAAGAGATACTTGCCTGATTCTACTGGCAAATACTGCAAGTCTATCACAAAATCAAAGAAGGGTAGGACACATCACACATCTACATTAATAAATCTATATTTCATCAAATATTCTTTTAAATTTAAATTAATTGATCATGGTCTTTTTTCTATTTTCAGGTAAATTAAATTCAGTTCTGGCTAAGATGAACATGTTTGGAAGAAAAGACGGTGGTTTAGCACATGGCGTCCGAGAGCATGGTATGTAATCTTGGAAGACTTATTTTCAATTTTTCACTTTTGCTTAGTTGCAAGGCATGAAACAAGAACTTAATGATAGTACTTTATGAAAATCCAAATATTCTGTCATGCTTCCAAAACTACTAGGCTTAGGTCAATTTCCAAAATATGTATAATGCATATTTTGGCATGATAGGAAAATAGAGTGAAGTTGTAACTGATAGCTTGAAACTGTTATTTTAACCTGCAGTGAGACTTGGAACAAAGATAACAGATACAGTAAAAGGGAAATTGAGGCTGGGAGCCAGAATTCTTCAGGTTGGAGGAGTAGAAAAAGTGTTTATCGAACTTTTTAGTGTTAAAGAAGAAGAAAAGCTGTTGAAAGCATCACAGTGTTACTTATCAACCACATCAGGTCCTATAGCTGGCCTCCTCTTCATATCCACTCACAAAGTTGCTTTTTGTAGTGAGAAATCCATCAAGATCTCTTCCCCAAAAGGAGAATTGAGTAGAGTTCGATATAAGGTGATTTTTTTGCTTAAATGTGCATGTTAATGCTCTCTATCACTTTTATTTTCTCAACACTTAATTTGTTTACTATTTCAGCCAGCATGTAATCTTAAACTTAACCTTAATTTTTTTACTATTTCAGGTATCTATTCCACATGAAAAGATTCAGCATGTCAACCAAAGTCAAAATGTGAAGAAACCTTCAGAAAAATACATAGAAATAGTCACTGTGGATGGTTTTGACTTCTGGTTTATGGGTTTCTTTAATTATCGGAAAGCTTTAAGATATCTCCAGCAGGCTATCCTTCAGAAAAGCACATAG

Protein sequence

>MS.gene037373.t1

MNTSFLQELLNGISISSSYLAGKSSKRYLPDSTGKYCKSITKSKKGKLNSVLAKMNMFGRKDGGLAHGVREHVRLGTKITDTVKGKLRLGARILQVGGVEKVFIELFSVKEEEKLLKASQCYLSTTSGPIAGLLFISTHKVAFCSEKSIKISSPKGELSRVRYKVSIPHEKIQHVNQSQNVKKPSEKYIEIVTVDGFDFWFMGFFNYRKALRYLQQAILQKST