AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57900

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57900.t1 MTR_4g128750 97.688 173 4 0 1 173 1 173 9.59e-130 360
MS.gene57900.t1 MTR_4g128770 57.246 138 54 2 40 173 70 206 8.08e-54 170
MS.gene57900.t1 MTR_2g010600 44.509 173 83 3 3 173 1 162 3.10e-48 154
MS.gene57900.t1 MTR_4g050762 46.243 173 80 3 3 173 1 162 1.52e-47 153
MS.gene57900.t1 MTR_2g012370 46.243 173 80 3 3 173 1 162 1.52e-47 153
MS.gene57900.t1 MTR_2g435490 43.976 166 79 2 8 173 13 164 3.47e-47 152
MS.gene57900.t1 MTR_2g010590 44.444 171 83 3 3 173 1 159 3.18e-46 149
MS.gene57900.t1 MTR_2g010630 57.258 124 48 4 52 173 45 165 5.94e-43 140
MS.gene57900.t1 MTR_2g010650 47.977 173 74 7 6 173 4 165 7.42e-42 138
MS.gene57900.t1 MTR_4g092540 51.128 133 63 2 41 173 29 159 3.75e-40 133
MS.gene57900.t1 MTR_2g010580 49.624 133 64 3 41 173 35 164 1.17e-36 124
MS.gene57900.t1 MTR_2g010700 42.286 175 77 8 10 173 7 168 3.06e-34 119
MS.gene57900.t1 MTR_8g078770 37.349 166 100 2 11 173 8 172 9.28e-34 117
MS.gene57900.t1 MTR_1g067290 41.912 136 77 2 39 172 72 207 1.38e-32 115
MS.gene57900.t1 MTR_2g010610 54.639 97 42 2 77 173 44 138 1.67e-32 113
MS.gene57900.t1 MTR_5g018770 41.429 140 77 3 39 173 46 185 2.79e-32 114
MS.gene57900.t1 MTR_2g010640 50.420 119 53 5 57 173 49 163 5.55e-32 112
MS.gene57900.t1 MTR_2g010690 43.575 179 72 11 7 173 3 164 4.48e-31 110
MS.gene57900.t1 MTR_2g010670 42.697 178 75 10 7 173 3 164 1.62e-29 106
MS.gene57900.t1 MTR_5g018755 38.462 91 52 3 87 173 13 103 2.20e-15 68.6
MS.gene57900.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.gene57900.t1 AT4G30320 53.529 170 64 3 5 173 6 161 3.80e-63 192
MS.gene57900.t1 AT5G57625 56.463 147 64 0 27 173 61 207 1.76e-59 184
MS.gene57900.t1 AT4G25790 57.971 138 58 0 36 173 73 210 1.36e-57 179
MS.gene57900.t1 AT4G25780 60.870 138 49 3 40 173 54 190 5.37e-56 175
MS.gene57900.t1 AT3G19690 56.338 142 58 3 34 173 22 161 4.88e-52 164
MS.gene57900.t1 AT1G01310 54.478 134 60 1 40 173 87 219 5.09e-48 156
MS.gene57900.t1 AT4G33720 47.590 166 74 3 8 173 11 163 1.21e-46 150
MS.gene57900.t1 AT4G31470 47.222 144 75 1 30 173 43 185 1.20e-45 148
MS.gene57900.t1 AT2G19990 43.182 176 94 3 1 173 4 176 1.49e-44 145
MS.gene57900.t1 AT2G14610 45.342 161 80 4 13 173 9 161 8.03e-44 143
MS.gene57900.t1 AT3G09590 47.101 138 72 1 37 173 49 186 2.97e-43 142
MS.gene57900.t1 AT2G14580 42.105 171 89 5 3 173 1 161 1.20e-42 140
MS.gene57900.t1 AT5G02730 45.926 135 72 1 40 173 59 193 1.17e-41 139
MS.gene57900.t1 AT5G26130 47.853 163 77 4 13 173 10 166 1.91e-41 137
MS.gene57900.t1 AT4G33730 46.250 160 79 5 15 173 19 172 2.00e-41 137
MS.gene57900.t1 AT1G50060 50.376 133 65 1 41 173 30 161 3.96e-38 128
MS.gene57900.t1 AT4G33710 46.528 144 73 3 32 173 25 166 3.00e-34 119
MS.gene57900.t1 AT1G50050 43.662 142 78 2 33 173 22 162 1.49e-32 114
MS.gene57900.t1 AT5G66590 40.876 137 77 2 41 173 49 185 1.54e-31 112
MS.gene57900.t1 AT1G50050 42.857 133 74 2 34 165 23 154 3.29e-28 105
MS.gene57900.t1 AT4G07820 37.324 142 85 4 32 173 23 160 3.86e-25 95.5
MS.gene57900.t1 AT2G19980 34.973 183 91 9 1 173 1 165 7.57e-22 87.0
MS.gene57900.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 8.1:+4085984 None:intergenic
GACATTATACACAGGTTGTT+TGG 0.250521 8.1:-4085730 MS.gene57900:CDS
TTAGGCATTTCCATTTAATA+AGG 0.316056 8.1:+4085602 None:intergenic
ACATTATACACAGGTTGTTT+GGG 0.333299 8.1:-4085729 MS.gene57900:CDS
GATCCTCCTGGGAATTACTA+TGG 0.352062 8.1:-4085632 MS.gene57900:CDS
ATGTGAGAAGTAACAGAAAC+AGG 0.368323 8.1:+4086089 None:intergenic
TGGCACAACTCTTGTGTTGA+TGG 0.370370 8.1:-4085764 MS.gene57900:CDS
AGTTTATCATCCCACACTAA+TGG 0.395533 8.1:+4085950 None:intergenic
GAACATTCTAATGGTCCATA+TGG 0.400241 8.1:-4085875 MS.gene57900:CDS
CAGAAAATGTTCTCACCATA+TGG 0.409373 8.1:+4085860 None:intergenic
ACATCCTCAAAATGAGCCTT+AGG 0.450766 8.1:-4086126 None:intergenic
TGTGCTTTGGAACATTCTAA+TGG 0.454082 8.1:-4085884 MS.gene57900:CDS
AACATTGCTCGTGCCACGGT+GGG 0.461205 8.1:-4085980 MS.gene57900:CDS
CGTGGCACGAGCAATGTTCT+GGG 0.464578 8.1:+4085985 None:intergenic
CAGCACAAGCAGTAAGTGCT+TGG 0.469294 8.1:-4085814 MS.gene57900:CDS
GAGGCGTAATGACTGTGCTT+TGG 0.478481 8.1:-4085897 MS.gene57900:CDS
CAAGCACTTACTGCTTGTGC+TGG 0.483462 8.1:+4085815 None:intergenic
TCTGGGGTAGTGGTGTTGGG+TGG 0.499740 8.1:-4085841 MS.gene57900:CDS
AACTAACACATTACGCGCAA+TGG 0.509259 8.1:-4085931 MS.gene57900:CDS
ACTTGTAACTATGATCCTCC+TGG 0.509796 8.1:-4085644 MS.gene57900:CDS
TGGGGTAGCACCACAAAAGT+TGG 0.510157 8.1:-4085710 MS.gene57900:CDS
AAGCACAGTCATTACGCCTC+TGG 0.517634 8.1:+4085900 None:intergenic
AGCACAAGCAGTAAGTGCTT+GGG 0.519274 8.1:-4085813 MS.gene57900:CDS
GGATATAATTGGCACTCACA+TGG 0.522085 8.1:+4086059 None:intergenic
CTCTCTCCATAGTAATTCCC+AGG 0.532209 8.1:+4085626 None:intergenic
CCAGAACATTGCTCGTGCCA+CGG 0.562841 8.1:-4085984 MS.gene57900:CDS
GATATAATTGGCACTCACAT+GGG 0.586109 8.1:+4086060 None:intergenic
GGGCGAAACTAAAACACCTA+AGG 0.588985 8.1:+4086110 None:intergenic
TGGGGTTACGACCATTAGTG+TGG 0.592243 8.1:-4085961 MS.gene57900:CDS
CGCAATGGTACGCGAACCAG+AGG 0.594092 8.1:-4085916 MS.gene57900:CDS
CTTGTAACTATGATCCTCCT+GGG 0.602594 8.1:-4085643 MS.gene57900:CDS
GAACATTGCTCGTGCCACGG+TGG 0.609893 8.1:-4085981 MS.gene57900:CDS
GTGGCACGAGCAATGTTCTG+GGG 0.623599 8.1:+4085986 None:intergenic
ACATTGCTCGTGCCACGGTG+GGG 0.632668 8.1:-4085979 MS.gene57900:CDS
GGGGTTACGACCATTAGTGT+GGG 0.642880 8.1:-4085960 MS.gene57900:CDS
GTTGTGTGTTCTGATGATAA+AGG 0.647257 8.1:-4085677 MS.gene57900:CDS
CATTATACACAGGTTGTTTG+GGG 0.647883 8.1:-4085728 MS.gene57900:CDS
TGGCACGAGCAATGTTCTGG+GGG 0.654775 8.1:+4085987 None:intergenic
TGTGTTGATGGAGAAATGTG+TGG 0.656782 8.1:-4085752 MS.gene57900:CDS
TGTGAGAAGTAACAGAAACA+GGG 0.667518 8.1:+4086090 None:intergenic
TCTCCATAGTAATTCCCAGG+AGG 0.722031 8.1:+4085629 None:intergenic
AATGTGTGGACATTATACAC+AGG 0.722792 8.1:-4085738 MS.gene57900:CDS
TAATGGTCGTAACCCCACCG+TGG 0.766270 8.1:+4085967 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGAAACAGTTTTACAATTAT+TGG - chr8.1:4085947-4085966 MS.gene57900:CDS 20.0%
!!! ATTTGAAACTTTTTCTGTTT+GGG + chr8.1:4085696-4085715 None:intergenic 20.0%
!!! GATTTGAAACTTTTTCTGTT+TGG + chr8.1:4085697-4085716 None:intergenic 25.0%
!!! TTTTCTGTTTGGGATATAAT+TGG + chr8.1:4085686-4085705 None:intergenic 25.0%
ACATTATACACAGGTTGTTT+GGG - chr8.1:4086002-4086021 MS.gene57900:CDS 30.0%
! ATATGGTGAGAACATTTTCT+GGG - chr8.1:4085873-4085892 MS.gene57900:CDS 30.0%
!!! AAATTGGTTTTTGAAGCTTC+TGG + chr8.1:4085719-4085738 None:intergenic 30.0%
AATGTGTGGACATTATACAC+AGG - chr8.1:4085993-4086012 MS.gene57900:CDS 35.0%
AGTTTATCATCCCACACTAA+TGG + chr8.1:4085784-4085803 None:intergenic 35.0%
ATGTGAGAAGTAACAGAAAC+AGG + chr8.1:4085645-4085664 None:intergenic 35.0%
CAGAAAATGTTCTCACCATA+TGG + chr8.1:4085874-4085893 None:intergenic 35.0%
CATTATACACAGGTTGTTTG+GGG - chr8.1:4086003-4086022 MS.gene57900:CDS 35.0%
GAACATTCTAATGGTCCATA+TGG - chr8.1:4085856-4085875 MS.gene57900:CDS 35.0%
GACATTATACACAGGTTGTT+TGG - chr8.1:4086001-4086020 MS.gene57900:CDS 35.0%
GATATAATTGGCACTCACAT+GGG + chr8.1:4085674-4085693 None:intergenic 35.0%
GTTGTGTGTTCTGATGATAA+AGG - chr8.1:4086054-4086073 MS.gene57900:CDS 35.0%
TGTGAGAAGTAACAGAAACA+GGG + chr8.1:4085644-4085663 None:intergenic 35.0%
! CATATGGTGAGAACATTTTC+TGG - chr8.1:4085872-4085891 MS.gene57900:CDS 35.0%
! TATGGTGAGAACATTTTCTG+GGG - chr8.1:4085874-4085893 MS.gene57900:CDS 35.0%
!! TGTGCTTTGGAACATTCTAA+TGG - chr8.1:4085847-4085866 MS.gene57900:CDS 35.0%
AACTAACACATTACGCGCAA+TGG - chr8.1:4085800-4085819 MS.gene57900:CDS 40.0%
ACTTGTAACTATGATCCTCC+TGG - chr8.1:4086087-4086106 MS.gene57900:CDS 40.0%
CTTGTAACTATGATCCTCCT+GGG - chr8.1:4086088-4086107 MS.gene57900:CDS 40.0%
GGATATAATTGGCACTCACA+TGG + chr8.1:4085675-4085694 None:intergenic 40.0%
! ACTAGCACATCCAACTTTTG+TGG + chr8.1:4086034-4086053 None:intergenic 40.0%
! TGTGTTGATGGAGAAATGTG+TGG - chr8.1:4085979-4085998 MS.gene57900:CDS 40.0%
AGCACAAGCAGTAAGTGCTT+GGG - chr8.1:4085918-4085937 MS.gene57900:CDS 45.0%
CTCTCTCCATAGTAATTCCC+AGG + chr8.1:4086108-4086127 None:intergenic 45.0%
GATCCTCCTGGGAATTACTA+TGG - chr8.1:4086099-4086118 MS.gene57900:CDS 45.0%
GGGCGAAACTAAAACACCTA+AGG + chr8.1:4085624-4085643 None:intergenic 45.0%
TCTCCATAGTAATTCCCAGG+AGG + chr8.1:4086105-4086124 None:intergenic 45.0%
TGGCACAACTCTTGTGTTGA+TGG - chr8.1:4085967-4085986 MS.gene57900:CDS 45.0%
!! TGTTCTGGGGGATCAGAAAT+TGG + chr8.1:4085735-4085754 None:intergenic 45.0%
!!! ATTTTCTGGGGTAGTGGTGT+TGG - chr8.1:4085886-4085905 MS.gene57900:CDS 45.0%
!!! GAGAACATTTTCTGGGGTAG+TGG - chr8.1:4085880-4085899 MS.gene57900:CDS 45.0%
!!! TTTTCTGGGGTAGTGGTGTT+GGG - chr8.1:4085887-4085906 MS.gene57900:CDS 45.0%
AAGCACAGTCATTACGCCTC+TGG + chr8.1:4085834-4085853 None:intergenic 50.0%
CAAGCACTTACTGCTTGTGC+TGG + chr8.1:4085919-4085938 None:intergenic 50.0%
CAGCACAAGCAGTAAGTGCT+TGG - chr8.1:4085917-4085936 MS.gene57900:CDS 50.0%
GAGGCGTAATGACTGTGCTT+TGG - chr8.1:4085834-4085853 MS.gene57900:CDS 50.0%
GGGGTTACGACCATTAGTGT+GGG - chr8.1:4085771-4085790 MS.gene57900:CDS 50.0%
TGGGGTAGCACCACAAAAGT+TGG - chr8.1:4086021-4086040 MS.gene57900:CDS 50.0%
TGGGGTTACGACCATTAGTG+TGG - chr8.1:4085770-4085789 MS.gene57900:CDS 50.0%
AACATTGCTCGTGCCACGGT+GGG - chr8.1:4085751-4085770 MS.gene57900:CDS 55.0%
CCAGAACATTGCTCGTGCCA+CGG - chr8.1:4085747-4085766 MS.gene57900:CDS 55.0%
CGTGGCACGAGCAATGTTCT+GGG + chr8.1:4085749-4085768 None:intergenic 55.0%
GTGGCACGAGCAATGTTCTG+GGG + chr8.1:4085748-4085767 None:intergenic 55.0%
TAATGGTCGTAACCCCACCG+TGG + chr8.1:4085767-4085786 None:intergenic 55.0%
TGGCACGAGCAATGTTCTGG+GGG + chr8.1:4085747-4085766 None:intergenic 55.0%
ACATTGCTCGTGCCACGGTG+GGG - chr8.1:4085752-4085771 MS.gene57900:CDS 60.0%
CCGTGGCACGAGCAATGTTC+TGG + chr8.1:4085750-4085769 None:intergenic 60.0%
CGCAATGGTACGCGAACCAG+AGG - chr8.1:4085815-4085834 MS.gene57900:CDS 60.0%
GAACATTGCTCGTGCCACGG+TGG - chr8.1:4085750-4085769 MS.gene57900:CDS 60.0%
! TCTGGGGTAGTGGTGTTGGG+TGG - chr8.1:4085890-4085909 MS.gene57900:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 4085616 4086137 4085616 ID=MS.gene57900
chr8.1 mRNA 4085616 4086137 4085616 ID=MS.gene57900.t1;Parent=MS.gene57900
chr8.1 exon 4085616 4086137 4085616 ID=MS.gene57900.t1.exon1;Parent=MS.gene57900.t1
chr8.1 CDS 4085616 4086137 4085616 ID=cds.MS.gene57900.t1;Parent=MS.gene57900.t1
Gene Sequence

>MS.gene57900

ATGAGCCTTAGGTGTTTTAGTTTCGCCCTGTTTCTGTTACTTCTCACATTCATTTCCCATGTGAGTGCCAATTATATCCCAAACAGAAAAAGTTTCAAATCCAGAAGCTTCAAAAACCAATTTCTGATCCCCCAGAACATTGCTCGTGCCACGGTGGGGTTACGACCATTAGTGTGGGATGATAAACTAACACATTACGCGCAATGGTACGCGAACCAGAGGCGTAATGACTGTGCTTTGGAACATTCTAATGGTCCATATGGTGAGAACATTTTCTGGGGTAGTGGTGTTGGGTGGAATCCAGCACAAGCAGTAAGTGCTTGGGTTGATGAGAAACAGTTTTACAATTATTGGCACAACTCTTGTGTTGATGGAGAAATGTGTGGACATTATACACAGGTTGTTTGGGGTAGCACCACAAAAGTTGGATGTGCTAGTGTTGTGTGTTCTGATGATAAAGGTACTTTCATGACTTGTAACTATGATCCTCCTGGGAATTACTATGGAGAGAGACCTTATTAA
Protein sequence

>MS.gene57900.t1

MSLRCFSFALFLLLLTFISHVSANYIPNRKSFKSRSFKNQFLIPQNIARATVGLRPLVWDDKLTHYAQWYANQRRNDCALEHSNGPYGENIFWGSGVGWNPAQAVSAWVDEKQFYNYWHNSCVDGEMCGHYTQVVWGSTTKVGCASVVCSDDKGTFMTCNYDPPGNYYGERPY