AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene035687

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035687.t1 MTR_4g128750 97.688 173 4 0 1 173 1 173 9.59e-130 360
MS.gene035687.t1 MTR_4g128770 57.246 138 54 2 40 173 70 206 8.08e-54 170
MS.gene035687.t1 MTR_2g010600 44.509 173 83 3 3 173 1 162 3.10e-48 154
MS.gene035687.t1 MTR_4g050762 46.243 173 80 3 3 173 1 162 1.52e-47 153
MS.gene035687.t1 MTR_2g012370 46.243 173 80 3 3 173 1 162 1.52e-47 153
MS.gene035687.t1 MTR_2g435490 43.976 166 79 2 8 173 13 164 3.47e-47 152
MS.gene035687.t1 MTR_2g010590 44.444 171 83 3 3 173 1 159 3.18e-46 149
MS.gene035687.t1 MTR_2g010630 57.258 124 48 4 52 173 45 165 5.94e-43 140
MS.gene035687.t1 MTR_2g010650 47.977 173 74 7 6 173 4 165 7.42e-42 138
MS.gene035687.t1 MTR_4g092540 51.128 133 63 2 41 173 29 159 3.75e-40 133
MS.gene035687.t1 MTR_2g010580 49.624 133 64 3 41 173 35 164 1.17e-36 124
MS.gene035687.t1 MTR_2g010700 42.286 175 77 8 10 173 7 168 3.06e-34 119
MS.gene035687.t1 MTR_8g078770 37.349 166 100 2 11 173 8 172 9.28e-34 117
MS.gene035687.t1 MTR_1g067290 41.912 136 77 2 39 172 72 207 1.38e-32 115
MS.gene035687.t1 MTR_2g010610 54.639 97 42 2 77 173 44 138 1.67e-32 113
MS.gene035687.t1 MTR_5g018770 41.429 140 77 3 39 173 46 185 2.79e-32 114
MS.gene035687.t1 MTR_2g010640 50.420 119 53 5 57 173 49 163 5.55e-32 112
MS.gene035687.t1 MTR_2g010690 43.575 179 72 11 7 173 3 164 4.48e-31 110
MS.gene035687.t1 MTR_2g010670 42.697 178 75 10 7 173 3 164 1.62e-29 106
MS.gene035687.t1 MTR_5g018755 38.462 91 52 3 87 173 13 103 2.20e-15 68.6
MS.gene035687.t1 MTR_4g092515 42.222 90 43 2 7 95 6 87 3.22e-14 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035687.t1 AT4G30320 53.529 170 64 3 5 173 6 161 3.80e-63 192
MS.gene035687.t1 AT5G57625 56.463 147 64 0 27 173 61 207 1.76e-59 184
MS.gene035687.t1 AT4G25790 57.971 138 58 0 36 173 73 210 1.36e-57 179
MS.gene035687.t1 AT4G25780 60.870 138 49 3 40 173 54 190 5.37e-56 175
MS.gene035687.t1 AT3G19690 56.338 142 58 3 34 173 22 161 4.88e-52 164
MS.gene035687.t1 AT1G01310 54.478 134 60 1 40 173 87 219 5.09e-48 156
MS.gene035687.t1 AT4G33720 47.590 166 74 3 8 173 11 163 1.21e-46 150
MS.gene035687.t1 AT4G31470 47.222 144 75 1 30 173 43 185 1.20e-45 148
MS.gene035687.t1 AT2G19990 43.182 176 94 3 1 173 4 176 1.49e-44 145
MS.gene035687.t1 AT2G14610 45.342 161 80 4 13 173 9 161 8.03e-44 143
MS.gene035687.t1 AT3G09590 47.101 138 72 1 37 173 49 186 2.97e-43 142
MS.gene035687.t1 AT2G14580 42.105 171 89 5 3 173 1 161 1.20e-42 140
MS.gene035687.t1 AT5G02730 45.926 135 72 1 40 173 59 193 1.17e-41 139
MS.gene035687.t1 AT5G26130 47.853 163 77 4 13 173 10 166 1.91e-41 137
MS.gene035687.t1 AT4G33730 46.250 160 79 5 15 173 19 172 2.00e-41 137
MS.gene035687.t1 AT1G50060 50.376 133 65 1 41 173 30 161 3.96e-38 128
MS.gene035687.t1 AT4G33710 46.528 144 73 3 32 173 25 166 3.00e-34 119
MS.gene035687.t1 AT1G50050 43.662 142 78 2 33 173 22 162 1.49e-32 114
MS.gene035687.t1 AT5G66590 40.876 137 77 2 41 173 49 185 1.54e-31 112
MS.gene035687.t1 AT1G50050 42.857 133 74 2 34 165 23 154 3.29e-28 105
MS.gene035687.t1 AT4G07820 37.324 142 85 4 32 173 23 160 3.86e-25 95.5
MS.gene035687.t1 AT2G19980 34.973 183 91 9 1 173 1 165 7.57e-22 87.0
MS.gene035687.t1 AT2G19970 33.540 161 87 7 26 173 24 177 4.77e-21 85.1

Find 43 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGTGGCACGAGCAATGTTC+TGG 0.226719 8.4:+5870259 None:intergenic
GACATTATACACAGGTTGTT+TGG 0.250521 8.4:-5870005 MS.gene035687:CDS
TTAGGCATTTCCATTTAATA+AGG 0.316056 8.4:+5869877 None:intergenic
ACATTATACACAGGTTGTTT+GGG 0.333299 8.4:-5870004 MS.gene035687:CDS
GATCCTCCTGGGAATTACTA+TGG 0.352062 8.4:-5869907 MS.gene035687:CDS
ATGTGAGAAGTAACAGAAAC+AGG 0.368323 8.4:+5870364 None:intergenic
TGGCACAACTCTTGTGTTGA+TGG 0.370370 8.4:-5870039 MS.gene035687:CDS
AGTTTATCATCCCACACTAA+TGG 0.395533 8.4:+5870225 None:intergenic
GAACATTCTAATGGTCCATA+TGG 0.400241 8.4:-5870150 MS.gene035687:CDS
CAGAAAATGTTCTCACCATA+TGG 0.409373 8.4:+5870135 None:intergenic
ACATCCTCAAAATGAGCCTT+AGG 0.450766 8.4:-5870401 None:intergenic
TGTGCTTTGGAACATTCTAA+TGG 0.454082 8.4:-5870159 MS.gene035687:CDS
AACATTGCTCGTGCCACGGT+GGG 0.461205 8.4:-5870255 MS.gene035687:CDS
CGTGGCACGAGCAATGTTCT+GGG 0.464578 8.4:+5870260 None:intergenic
CAGCACAAGCAGTAAGTGCT+TGG 0.469294 8.4:-5870089 MS.gene035687:CDS
GAGGCGTAATGACTGTGCTT+TGG 0.478481 8.4:-5870172 MS.gene035687:CDS
CAAGCACTTACTGCTTGTGC+TGG 0.483462 8.4:+5870090 None:intergenic
TCTGGGGTAGTGGTGTTGGG+TGG 0.499740 8.4:-5870116 MS.gene035687:CDS
AACTAACACATTACGCGCAA+TGG 0.509259 8.4:-5870206 MS.gene035687:CDS
ACTTGTAACTATGATCCTCC+TGG 0.509796 8.4:-5869919 MS.gene035687:CDS
TGGGGTAGCACCACAAAAGT+TGG 0.510157 8.4:-5869985 MS.gene035687:CDS
AAGCACAGTCATTACGCCTC+TGG 0.517634 8.4:+5870175 None:intergenic
AGCACAAGCAGTAAGTGCTT+GGG 0.519274 8.4:-5870088 MS.gene035687:CDS
GGATATAATTGGCACTCACA+TGG 0.522085 8.4:+5870334 None:intergenic
CTCTCTCCATAGTAATTCCC+AGG 0.532209 8.4:+5869901 None:intergenic
CCAGAACATTGCTCGTGCCA+CGG 0.562841 8.4:-5870259 MS.gene035687:CDS
GATATAATTGGCACTCACAT+GGG 0.586109 8.4:+5870335 None:intergenic
GGGCGAAACTAAAACACCTA+AGG 0.588985 8.4:+5870385 None:intergenic
TGGGGTTACGACCATTAGTG+TGG 0.592243 8.4:-5870236 MS.gene035687:CDS
CGCAATGGTACGCGAACCAG+AGG 0.594092 8.4:-5870191 MS.gene035687:CDS
CTTGTAACTATGATCCTCCT+GGG 0.602594 8.4:-5869918 MS.gene035687:CDS
GAACATTGCTCGTGCCACGG+TGG 0.609893 8.4:-5870256 MS.gene035687:CDS
GTGGCACGAGCAATGTTCTG+GGG 0.623599 8.4:+5870261 None:intergenic
ACATTGCTCGTGCCACGGTG+GGG 0.632668 8.4:-5870254 MS.gene035687:CDS
GGGGTTACGACCATTAGTGT+GGG 0.642880 8.4:-5870235 MS.gene035687:CDS
GTTGTGTGTTCTGATGATAA+AGG 0.647257 8.4:-5869952 MS.gene035687:CDS
CATTATACACAGGTTGTTTG+GGG 0.647883 8.4:-5870003 MS.gene035687:CDS
TGGCACGAGCAATGTTCTGG+GGG 0.654775 8.4:+5870262 None:intergenic
TGTGTTGATGGAGAAATGTG+TGG 0.656782 8.4:-5870027 MS.gene035687:CDS
TGTGAGAAGTAACAGAAACA+GGG 0.667518 8.4:+5870365 None:intergenic
TCTCCATAGTAATTCCCAGG+AGG 0.722031 8.4:+5869904 None:intergenic
AATGTGTGGACATTATACAC+AGG 0.722792 8.4:-5870013 MS.gene035687:CDS
TAATGGTCGTAACCCCACCG+TGG 0.766270 8.4:+5870242 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGAAACAGTTTTACAATTAT+TGG - chr8.4:5870222-5870241 MS.gene035687:CDS 20.0%
!!! ATTTGAAACTTTTTCTGTTT+GGG + chr8.4:5869971-5869990 None:intergenic 20.0%
!!! GATTTGAAACTTTTTCTGTT+TGG + chr8.4:5869972-5869991 None:intergenic 25.0%
!!! TTTTCTGTTTGGGATATAAT+TGG + chr8.4:5869961-5869980 None:intergenic 25.0%
ACATTATACACAGGTTGTTT+GGG - chr8.4:5870277-5870296 MS.gene035687:CDS 30.0%
! ATATGGTGAGAACATTTTCT+GGG - chr8.4:5870148-5870167 MS.gene035687:CDS 30.0%
!!! AAATTGGTTTTTGAAGCTTC+TGG + chr8.4:5869994-5870013 None:intergenic 30.0%
AATGTGTGGACATTATACAC+AGG - chr8.4:5870268-5870287 MS.gene035687:CDS 35.0%
AGTTTATCATCCCACACTAA+TGG + chr8.4:5870059-5870078 None:intergenic 35.0%
ATGTGAGAAGTAACAGAAAC+AGG + chr8.4:5869920-5869939 None:intergenic 35.0%
CAGAAAATGTTCTCACCATA+TGG + chr8.4:5870149-5870168 None:intergenic 35.0%
CATTATACACAGGTTGTTTG+GGG - chr8.4:5870278-5870297 MS.gene035687:CDS 35.0%
GAACATTCTAATGGTCCATA+TGG - chr8.4:5870131-5870150 MS.gene035687:CDS 35.0%
GACATTATACACAGGTTGTT+TGG - chr8.4:5870276-5870295 MS.gene035687:CDS 35.0%
GATATAATTGGCACTCACAT+GGG + chr8.4:5869949-5869968 None:intergenic 35.0%
GTTGTGTGTTCTGATGATAA+AGG - chr8.4:5870329-5870348 MS.gene035687:CDS 35.0%
TGTGAGAAGTAACAGAAACA+GGG + chr8.4:5869919-5869938 None:intergenic 35.0%
! CATATGGTGAGAACATTTTC+TGG - chr8.4:5870147-5870166 MS.gene035687:CDS 35.0%
! TATGGTGAGAACATTTTCTG+GGG - chr8.4:5870149-5870168 MS.gene035687:CDS 35.0%
!! TGTGCTTTGGAACATTCTAA+TGG - chr8.4:5870122-5870141 MS.gene035687:CDS 35.0%
AACTAACACATTACGCGCAA+TGG - chr8.4:5870075-5870094 MS.gene035687:CDS 40.0%
ACTTGTAACTATGATCCTCC+TGG - chr8.4:5870362-5870381 MS.gene035687:CDS 40.0%
CTTGTAACTATGATCCTCCT+GGG - chr8.4:5870363-5870382 MS.gene035687:CDS 40.0%
GGATATAATTGGCACTCACA+TGG + chr8.4:5869950-5869969 None:intergenic 40.0%
! ACTAGCACATCCAACTTTTG+TGG + chr8.4:5870309-5870328 None:intergenic 40.0%
! TGTGTTGATGGAGAAATGTG+TGG - chr8.4:5870254-5870273 MS.gene035687:CDS 40.0%
AGCACAAGCAGTAAGTGCTT+GGG - chr8.4:5870193-5870212 MS.gene035687:CDS 45.0%
CTCTCTCCATAGTAATTCCC+AGG + chr8.4:5870383-5870402 None:intergenic 45.0%
GATCCTCCTGGGAATTACTA+TGG - chr8.4:5870374-5870393 MS.gene035687:CDS 45.0%
GGGCGAAACTAAAACACCTA+AGG + chr8.4:5869899-5869918 None:intergenic 45.0%
TCTCCATAGTAATTCCCAGG+AGG + chr8.4:5870380-5870399 None:intergenic 45.0%
TGGCACAACTCTTGTGTTGA+TGG - chr8.4:5870242-5870261 MS.gene035687:CDS 45.0%
!! TGTTCTGGGGGATCAGAAAT+TGG + chr8.4:5870010-5870029 None:intergenic 45.0%
!!! ATTTTCTGGGGTAGTGGTGT+TGG - chr8.4:5870161-5870180 MS.gene035687:CDS 45.0%
!!! GAGAACATTTTCTGGGGTAG+TGG - chr8.4:5870155-5870174 MS.gene035687:CDS 45.0%
!!! TTTTCTGGGGTAGTGGTGTT+GGG - chr8.4:5870162-5870181 MS.gene035687:CDS 45.0%
AAGCACAGTCATTACGCCTC+TGG + chr8.4:5870109-5870128 None:intergenic 50.0%
CAAGCACTTACTGCTTGTGC+TGG + chr8.4:5870194-5870213 None:intergenic 50.0%
CAGCACAAGCAGTAAGTGCT+TGG - chr8.4:5870192-5870211 MS.gene035687:CDS 50.0%
GAGGCGTAATGACTGTGCTT+TGG - chr8.4:5870109-5870128 MS.gene035687:CDS 50.0%
GGGGTTACGACCATTAGTGT+GGG - chr8.4:5870046-5870065 MS.gene035687:CDS 50.0%
TGGGGTAGCACCACAAAAGT+TGG - chr8.4:5870296-5870315 MS.gene035687:CDS 50.0%
TGGGGTTACGACCATTAGTG+TGG - chr8.4:5870045-5870064 MS.gene035687:CDS 50.0%
AACATTGCTCGTGCCACGGT+GGG - chr8.4:5870026-5870045 MS.gene035687:CDS 55.0%
CCAGAACATTGCTCGTGCCA+CGG - chr8.4:5870022-5870041 MS.gene035687:CDS 55.0%
CGTGGCACGAGCAATGTTCT+GGG + chr8.4:5870024-5870043 None:intergenic 55.0%
GTGGCACGAGCAATGTTCTG+GGG + chr8.4:5870023-5870042 None:intergenic 55.0%
TAATGGTCGTAACCCCACCG+TGG + chr8.4:5870042-5870061 None:intergenic 55.0%
TGGCACGAGCAATGTTCTGG+GGG + chr8.4:5870022-5870041 None:intergenic 55.0%
ACATTGCTCGTGCCACGGTG+GGG - chr8.4:5870027-5870046 MS.gene035687:CDS 60.0%
CCGTGGCACGAGCAATGTTC+TGG + chr8.4:5870025-5870044 None:intergenic 60.0%
CGCAATGGTACGCGAACCAG+AGG - chr8.4:5870090-5870109 MS.gene035687:CDS 60.0%
GAACATTGCTCGTGCCACGG+TGG - chr8.4:5870025-5870044 MS.gene035687:CDS 60.0%
! TCTGGGGTAGTGGTGTTGGG+TGG - chr8.4:5870165-5870184 MS.gene035687:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 5869891 5870412 5869891 ID=MS.gene035687
chr8.4 mRNA 5869891 5870412 5869891 ID=MS.gene035687.t1;Parent=MS.gene035687
chr8.4 exon 5869891 5870412 5869891 ID=MS.gene035687.t1.exon1;Parent=MS.gene035687.t1
chr8.4 CDS 5869891 5870412 5869891 ID=cds.MS.gene035687.t1;Parent=MS.gene035687.t1
Gene Sequence

>MS.gene035687

ATGAGCCTTAGGTGTTTTAGTTTCGCCCTGTTTCTGTTACTTCTCACATTCATTTCCCATGTGAGTGCCAATTATATCCCAAACAGAAAAAGTTTCAAATCCAGAAGCTTCAAAAACCAATTTCTGATCCCCCAGAACATTGCTCGTGCCACGGTGGGGTTACGACCATTAGTGTGGGATGATAAACTAACACATTACGCGCAATGGTACGCGAACCAGAGGCGTAATGACTGTGCTTTGGAACATTCTAATGGTCCATATGGTGAGAACATTTTCTGGGGTAGTGGTGTTGGGTGGAATCCAGCACAAGCAGTAAGTGCTTGGGTTGATGAGAAACAGTTTTACAATTATTGGCACAACTCTTGTGTTGATGGAGAAATGTGTGGACATTATACACAGGTTGTTTGGGGTAGCACCACAAAAGTTGGATGTGCTAGTGTTGTGTGTTCTGATGATAAAGGTACTTTCATGACTTGTAACTATGATCCTCCTGGGAATTACTATGGAGAGAGACCTTATTAA
Protein sequence

>MS.gene035687.t1

MSLRCFSFALFLLLLTFISHVSANYIPNRKSFKSRSFKNQFLIPQNIARATVGLRPLVWDDKLTHYAQWYANQRRNDCALEHSNGPYGENIFWGSGVGWNPAQAVSAWVDEKQFYNYWHNSCVDGEMCGHYTQVVWGSTTKVGCASVVCSDDKGTFMTCNYDPPGNYYGERPY