AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene04854

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04854.t1 MTR_7g093010 92.857 140 4 2 1 138 185 320 3.32e-87 258
MS.gene04854.t1 MTR_1g053800 55.882 136 60 0 3 138 147 282 4.79e-41 139
MS.gene04854.t1 MTR_1g053835 41.667 144 76 2 2 138 220 362 3.15e-24 96.7
MS.gene04854.t1 MTR_7g093030 47.170 106 56 0 33 138 212 317 2.31e-23 94.0
MS.gene04854.t1 MTR_1g080330 41.026 117 68 1 23 138 165 281 5.43e-21 86.3
MS.gene04854.t1 MTR_1g080330 41.026 117 68 1 23 138 165 281 1.02e-20 86.7
MS.gene04854.t1 MTR_7g098250 39.474 152 66 6 1 138 229 368 1.87e-20 86.3
MS.gene04854.t1 MTR_7g115530 41.441 111 56 2 33 138 218 324 9.89e-19 80.5
MS.gene04854.t1 MTR_7g093030 50.000 82 41 0 33 114 212 293 1.62e-18 79.7
MS.gene04854.t1 MTR_7g088070 33.333 132 76 2 15 138 32 159 1.65e-18 79.3
MS.gene04854.t1 MTR_7g088070 32.258 124 84 0 15 138 32 155 1.85e-18 79.3
MS.gene04854.t1 MTR_7g115530 41.441 111 56 2 33 138 218 324 2.10e-18 80.5
MS.gene04854.t1 MTR_2g027860 41.593 113 55 3 33 138 49 157 2.16e-18 79.7
MS.gene04854.t1 MTR_5g027440 36.667 120 61 2 33 138 25 143 7.02e-15 69.7
MS.gene04854.t1 MTR_7g115530 42.105 95 42 2 33 127 218 299 7.09e-15 69.7
MS.gene04854.t1 MTR_2g027800 37.736 106 65 1 33 138 39 143 1.63e-14 68.9
MS.gene04854.t1 MTR_1g053830 42.391 92 47 3 17 107 1 87 2.82e-14 64.3
MS.gene04854.t1 MTR_8g086410 51.667 60 29 0 35 94 113 172 3.36e-14 68.6
MS.gene04854.t1 MTR_7g115530 54.545 55 25 0 33 87 218 272 4.67e-14 67.8
MS.gene04854.t1 MTR_2g027800 48.571 70 36 0 33 102 39 108 5.07e-14 67.4
MS.gene04854.t1 MTR_8g086410 60.377 53 21 0 35 87 111 163 5.37e-14 67.8
MS.gene04854.t1 MTR_8g086410 60.377 53 21 0 35 87 113 165 5.48e-14 67.8
MS.gene04854.t1 MTR_6g444980 38.017 121 59 4 33 138 35 154 1.27e-13 66.6
MS.gene04854.t1 MTR_7g115530 55.769 52 23 0 33 84 218 269 1.35e-13 65.9
MS.gene04854.t1 MTR_6g444980 38.017 121 59 4 33 138 35 154 1.71e-13 66.2
MS.gene04854.t1 MTR_1g090670 47.143 70 37 0 33 102 44 113 2.08e-13 65.9
MS.gene04854.t1 MTR_6g032990 33.871 124 65 2 32 138 41 164 4.10e-13 65.5
MS.gene04854.t1 MTR_3g450310 53.704 54 25 0 35 88 21 74 6.50e-13 63.5
MS.gene04854.t1 MTR_7g115530 54.902 51 23 0 33 83 218 268 9.27e-13 63.9
MS.gene04854.t1 MTR_2g023580 43.590 78 40 1 10 87 36 109 1.11e-12 63.2
MS.gene04854.t1 MTR_2g084230 56.604 53 23 0 35 87 99 151 2.32e-12 63.2
MS.gene04854.t1 MTR_2g084230 56.604 53 23 0 35 87 99 151 2.44e-12 62.8
MS.gene04854.t1 MTR_0223s0040 42.500 80 34 2 35 102 20 99 2.94e-12 62.4
MS.gene04854.t1 MTR_7g069660 56.604 53 23 0 35 87 73 125 3.02e-12 62.8
MS.gene04854.t1 MTR_7g068600 36.364 121 65 4 26 138 6 122 4.35e-12 61.6
MS.gene04854.t1 MTR_2g016220 54.717 53 24 0 35 87 91 143 5.00e-12 62.0
MS.gene04854.t1 MTR_2g086450 31.343 134 59 3 32 138 44 171 5.03e-12 62.0
MS.gene04854.t1 MTR_2g016220 54.717 53 24 0 35 87 91 143 5.08e-12 62.0
MS.gene04854.t1 MTR_1g112370 46.479 71 37 1 35 105 24 93 3.53e-11 59.7
MS.gene04854.t1 MTR_2g016220 55.102 49 22 0 35 83 91 139 4.12e-11 59.7
MS.gene04854.t1 MTR_8g066310 50.943 53 26 0 35 87 175 227 5.94e-11 58.9
MS.gene04854.t1 MTR_6g071625 49.057 53 27 0 35 87 204 256 6.48e-11 58.9
MS.gene04854.t1 MTR_5g041350 46.296 54 29 0 33 86 15 68 8.74e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04854.t1 AT5G06800 44.643 112 60 1 29 138 186 297 7.98e-22 89.7
MS.gene04854.t1 AT5G06800 45.299 117 57 2 29 138 186 302 2.36e-21 88.2
MS.gene04854.t1 AT2G01060 38.710 124 66 2 21 138 3 122 1.54e-20 85.1
MS.gene04854.t1 AT5G29000 42.149 121 63 4 23 138 179 297 3.43e-19 82.4
MS.gene04854.t1 AT5G29000 42.149 121 63 4 23 138 179 297 3.43e-19 82.4
MS.gene04854.t1 AT5G29000 42.149 121 63 4 23 138 222 340 3.54e-19 82.4
MS.gene04854.t1 AT3G04450 40.708 113 61 2 31 138 236 347 6.15e-19 82.0
MS.gene04854.t1 AT3G04450 40.708 113 61 2 31 138 196 307 6.78e-19 81.6
MS.gene04854.t1 AT3G04450 40.708 113 61 2 31 138 196 307 6.78e-19 81.6
MS.gene04854.t1 AT4G28610 40.602 133 64 4 13 138 208 332 1.67e-18 80.5
MS.gene04854.t1 AT3G13040 37.241 145 75 3 5 138 213 352 8.57e-18 78.6
MS.gene04854.t1 AT3G13040 37.241 145 75 3 5 138 213 352 8.57e-18 78.6
MS.gene04854.t1 AT3G13040 37.241 145 75 3 5 138 213 352 8.57e-18 78.6
MS.gene04854.t1 AT5G06800 61.667 60 21 1 29 86 186 245 3.15e-17 75.9
MS.gene04854.t1 AT5G29000 53.846 65 29 1 23 87 222 285 1.07e-15 72.0
MS.gene04854.t1 AT3G04450 52.632 57 27 0 31 87 236 292 3.93e-15 70.5
MS.gene04854.t1 AT2G42660 60.377 53 21 0 35 87 52 104 8.22e-15 69.3
MS.gene04854.t1 AT3G12730 54.098 61 28 0 33 93 23 83 1.07e-14 68.6
MS.gene04854.t1 AT1G79430 36.937 111 64 3 33 138 34 143 6.47e-14 67.4
MS.gene04854.t1 AT4G13640 35.294 119 64 3 33 138 37 155 1.16e-13 66.6
MS.gene04854.t1 AT4G13640 35.294 119 64 3 33 138 37 155 1.29e-13 66.2
MS.gene04854.t1 AT4G04605 47.619 63 32 1 35 97 16 77 1.63e-13 65.1
MS.gene04854.t1 AT2G20400 38.393 112 58 2 33 138 231 337 1.64e-13 66.6
MS.gene04854.t1 AT3G04030 33.333 126 62 3 32 138 44 166 3.11e-13 65.9
MS.gene04854.t1 AT3G04030 33.333 126 62 3 32 138 44 166 3.14e-13 65.9
MS.gene04854.t1 AT3G24120 35.294 119 64 2 33 138 41 159 3.85e-13 65.1
MS.gene04854.t1 AT3G24120 35.294 119 64 2 33 138 41 159 4.01e-13 65.1
MS.gene04854.t1 AT2G20400 38.393 112 59 2 33 138 231 338 4.52e-13 65.1
MS.gene04854.t1 AT5G18240 32.520 123 67 2 32 138 44 166 5.42e-13 65.1
MS.gene04854.t1 AT5G18240 32.520 123 67 2 32 138 44 166 5.42e-13 65.1
MS.gene04854.t1 AT2G06020 43.662 71 33 1 23 86 69 139 5.96e-13 64.7
MS.gene04854.t1 AT5G18240 32.520 123 67 2 32 138 44 166 6.20e-13 64.7
MS.gene04854.t1 AT5G18240 32.520 123 67 2 32 138 44 166 6.20e-13 64.7
MS.gene04854.t1 AT5G18240 32.520 123 67 2 32 138 44 166 6.69e-13 64.7
MS.gene04854.t1 AT2G40260 54.717 53 24 0 35 87 84 136 9.98e-13 64.3
MS.gene04854.t1 AT4G04555 54.902 51 23 0 37 87 18 68 1.51e-12 60.1
MS.gene04854.t1 AT5G45580 51.852 54 26 0 33 86 23 76 2.10e-12 62.8
MS.gene04854.t1 AT5G45580 51.852 54 26 0 33 86 7 60 2.17e-12 62.8
MS.gene04854.t1 AT1G14600 45.455 77 38 1 16 88 2 78 2.32e-12 62.4
MS.gene04854.t1 AT2G38300 56.604 53 23 0 35 87 56 108 6.84e-12 61.6
MS.gene04854.t1 AT1G69580 50.000 54 27 0 33 86 34 87 1.33e-11 60.8
MS.gene04854.t1 AT1G69580 50.000 54 27 0 33 86 34 87 1.40e-11 60.8
MS.gene04854.t1 AT4G04580 50.943 53 26 0 35 87 16 68 1.48e-11 58.9
MS.gene04854.t1 AT2G02060 50.877 57 28 0 35 91 31 87 1.63e-11 60.1
MS.gene04854.t1 AT2G02060 50.877 57 28 0 35 91 31 87 1.63e-11 60.1
MS.gene04854.t1 AT4G37180 48.333 60 31 0 33 92 210 269 2.73e-11 60.1
MS.gene04854.t1 AT4G37180 48.333 60 31 0 33 92 217 276 3.25e-11 59.7
MS.gene04854.t1 AT1G32240 44.928 69 34 1 26 94 210 274 6.27e-11 58.9
MS.gene04854.t1 AT1G32240 44.928 69 34 1 26 94 210 274 6.31e-11 58.9
MS.gene04854.t1 AT5G16560 46.032 63 30 1 26 88 216 274 9.05e-11 58.5
MS.gene04854.t1 AT5G42630 48.148 54 28 0 35 88 107 160 9.49e-11 57.8

Find 0 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTATTGAAATTGTTGAA+TGG - 50884:20674-20693 MS.gene04854:intergenic 15.0%
!! TTAGTTAATTACTTACTTTC+TGG - 50884:20505-20524 MS.gene04854:intergenic 20.0%
!!! TTTTTTTCTCTTCTGATTAC+TGG + 50884:21020-21039 MS.gene04854:intron 25.0%
ACAACACTGCTTACTTATTA+AGG + 50884:20836-20855 MS.gene04854:intron 30.0%
ACAATGTTAGAGTCAATTAC+CGG - 50884:20726-20745 MS.gene04854:intergenic 30.0%
ATCATATCTAGTATAGCCTT+AGG - 50884:20593-20612 MS.gene04854:intergenic 30.0%
CATGTAAAAGAAGAGTAAGA+TGG + 50884:20428-20447 MS.gene04854:CDS 30.0%
TTAAGCAAATTGAGGAATCA+CGG + 50884:21086-21105 MS.gene04854:CDS 30.0%
! ATGGCTTTTAACATGAGAAA+TGG - 50884:20633-20652 MS.gene04854:intergenic 30.0%
! CTTACTCTTCTTTTACATGT+TGG - 50884:20427-20446 MS.gene04854:intergenic 30.0%
! TTCACTGATTATAATTGCAG+AGG + 50884:20562-20581 MS.gene04854:intron 30.0%
!! GAAATAGTTTTACCTGCAAA+TGG - 50884:20652-20671 MS.gene04854:intergenic 30.0%
ACACTGCTTACTTATTAAGG+AGG + 50884:20839-20858 MS.gene04854:intron 35.0%
AGAAGCAGAATTGTTAGAAG+TGG - 50884:20395-20414 MS.gene04854:intergenic 35.0%
ATGATAATCGTTGATCACCT+TGG + 50884:20475-20494 MS.gene04854:CDS 35.0%
CTTCTAACAATTCTGCTTCT+AGG + 50884:20395-20414 MS.gene04854:CDS 35.0%
TCATGTTAAAAGCCATTTGC+AGG + 50884:20637-20656 MS.gene04854:CDS 35.0%
TTATCTTTCAGAAAGACCTG+AGG + 50884:20890-20909 MS.gene04854:intron 35.0%
! GTGATTCCTCAATTTGCTTA+AGG - 50884:21087-21106 MS.gene04854:intergenic 35.0%
AAGAAGAGTAAGATGGACAG+AGG + 50884:20435-20454 MS.gene04854:CDS 40.0%
AAGCAGACTCCTCAACTTAA+TGG + 50884:20361-20380 MS.gene04854:CDS 40.0%
ATAATCGTTGATCACCTTGG+TGG + 50884:20478-20497 MS.gene04854:CDS 40.0%
TAGCAGCCTTAAGCAAATTG+AGG + 50884:21078-21097 MS.gene04854:intron 40.0%
TGTAGATCGACATTTCTGCA+CGG - 50884:20762-20781 MS.gene04854:intergenic 40.0%
! GCACACATTCCATTAAGTTG+AGG - 50884:20373-20392 MS.gene04854:intergenic 40.0%
! TCAATTTGCTTAAGGCTGCT+AGG - 50884:21079-21098 MS.gene04854:intergenic 40.0%
AATTGCAGAGGCAAAGCCTA+AGG + 50884:20574-20593 MS.gene04854:intron 45.0%
ACGCATGCATAAAGCTTTGC+AGG + 50884:20784-20803 MS.gene04854:CDS 45.0%
ACTTACTTTCTGGACCACCA+AGG - 50884:20495-20514 MS.gene04854:intergenic 45.0%
CGCATGCATAAAGCTTTGCA+GGG + 50884:20785-20804 MS.gene04854:CDS 45.0%
CTTTCAGAAAGACCTGAGGA+AGG + 50884:20894-20913 MS.gene04854:intron 45.0%
GAGTCAATTACCGGCAAATG+AGG - 50884:20717-20736 MS.gene04854:intergenic 45.0%
GCTTAAGGCTGCTAGGAAAT+AGG - 50884:21072-21091 MS.gene04854:intergenic 45.0%
TCTGTTCTATGTCCTTCCTC+AGG - 50884:20909-20928 MS.gene04854:intergenic 45.0%
TTCTGTGAAGCCTCATTTGC+CGG + 50884:20704-20723 MS.gene04854:intron 45.0%
ATCACGGCAGTTGCATCTAG+AGG + 50884:21102-21121 MS.gene04854:CDS 50.0%


Chromosome Type Strat End Strand Name
50884 gene 20337 21153 20337 ID=MS.gene04854
50884 mRNA 20337 21153 20337 ID=MS.gene04854.t1;Parent=MS.gene04854
50884 exon 20337 20508 20337 ID=MS.gene04854.t1.exon1;Parent=MS.gene04854.t1
50884 CDS 20337 20508 20337 ID=cds.MS.gene04854.t1;Parent=MS.gene04854.t1
50884 exon 20582 20658 20582 ID=MS.gene04854.t1.exon2;Parent=MS.gene04854.t1
50884 CDS 20582 20658 20582 ID=cds.MS.gene04854.t1;Parent=MS.gene04854.t1
50884 exon 20767 20806 20767 ID=MS.gene04854.t1.exon3;Parent=MS.gene04854.t1
50884 CDS 20767 20806 20767 ID=cds.MS.gene04854.t1;Parent=MS.gene04854.t1
50884 exon 20901 20955 20901 ID=MS.gene04854.t1.exon4;Parent=MS.gene04854.t1
50884 CDS 20901 20955 20901 ID=cds.MS.gene04854.t1;Parent=MS.gene04854.t1
50884 exon 21084 21153 21084 ID=MS.gene04854.t1.exon5;Parent=MS.gene04854.t1
50884 CDS 21084 21153 21084 ID=cds.MS.gene04854.t1;Parent=MS.gene04854.t1
Gene Sequence

>MS.gene04854

TCAGGCTCATCTACAAAGTCACAAAAGCAGACTCCTCAACTTAATGGAATGTGTGCCACTTCTAACAATTCTGCTTCTAGGAAAGCTCCAACATGTAAAAGAAGAGTAAGATGGACAGAGGATCTGCATGAATCATTCATGATAATCGTTGATCACCTTGGTGGTCCAGAAAGTAAGTAATTAACTAAGTAATAGCATTAGTTACACATAAGCAAATTCAATTAATTCACTGATTATAATTGCAGAGGCAAAGCCTAAGGCTATACTAGATATGATGAAATCAAATTTGCTATCCATTTCTCATGTTAAAAGCCATTTGCAGGTAAAACTATTTCCATTCAACAATTTCAATAATTTGTAAATGTTGTTCTGTGAAGCCTCATTTGCCGGTAATTGACTCTAACATTGTTCTTATATGATTGCCGTGCAGAAATGTCGATCTACAATACGCATGCATAAAGCTTTGCAGGGTAAATTAATTTTTTCATTGCATTCTATTACAACACTGCTTACTTATTAAGGAGGCTATGCGTATATTGTGACACGTTTATCTTTATCTTTCAGAAAGACCTGAGGAAGGACATAGAACAGATAGAGTCGCAGATCTTCAACTCAAAATGTAAATATTTTAGTGTTACGAATGATACTTATTGATTCTTTATGTAGTAATTGCAAGTTTTTTTTTTTTTTCTCTTCTGATTACTGGTTTTTTAAATTTATACACTTTGTTTTCCTATTTCCTAGCAGCCTTAAGCAAATTGAGGAATCACGGCAGTTGCATCTAGAGGTTCGAAAAAGTATTTCGCAACAGTTAGAG
Protein sequence

>MS.gene04854.t1

SGSSTKSQKQTPQLNGMCATSNNSASRKAPTCKRRVRWTEDLHESFMIIVDHLGGPEKAKPKAILDMMKSNLLSISHVKSHLQKCRSTIRMHKALQERPEEGHRTDRVADLQLKILKQIEESRQLHLEVRKSISQQLE