AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene90031

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90031.t1 MTR_5g093010 75.796 157 26 1 1 157 1 145 4.78e-85 246
MS.gene90031.t1 MTR_7g028905 94.828 116 6 0 1 116 1 116 1.59e-81 236
MS.gene90031.t1 MTR_2g068760 49.524 105 53 0 6 110 14 118 8.57e-38 127
MS.gene90031.t1 MTR_5g083960 46.970 132 70 0 6 137 40 171 3.45e-37 126
MS.gene90031.t1 MTR_5g083230 50.459 109 54 0 6 114 7 115 5.22e-37 125
MS.gene90031.t1 MTR_4g083680 50.000 106 53 0 6 111 16 121 7.18e-36 122
MS.gene90031.t1 MTR_3g031660 47.222 108 57 0 6 113 8 115 1.98e-35 121
MS.gene90031.t1 MTR_3g094690 51.887 106 51 0 6 111 48 153 2.27e-35 123
MS.gene90031.t1 MTR_4g105170 51.402 107 52 0 6 112 12 118 3.93e-35 121
MS.gene90031.t1 MTR_3g071590 52.000 100 48 0 6 105 9 108 9.82e-35 119
MS.gene90031.t1 MTR_7g033800 46.774 124 57 1 6 120 12 135 1.90e-34 119
MS.gene90031.t1 MTR_3g077240 56.989 93 40 0 6 98 11 103 2.48e-34 119
MS.gene90031.t1 MTR_4g060950 46.429 112 59 1 1 111 20 131 5.28e-34 118
MS.gene90031.t1 MTR_3g452660 49.550 111 56 0 6 116 8 118 1.52e-33 119
MS.gene90031.t1 MTR_2g093310 44.144 111 62 0 1 111 29 139 2.47e-33 117
MS.gene90031.t1 MTR_3g073690 47.573 103 54 0 6 108 10 112 2.60e-33 117
MS.gene90031.t1 MTR_3g094690 51.887 106 50 1 6 111 48 152 2.87e-33 117
MS.gene90031.t1 MTR_6g005070 43.077 130 74 0 6 135 10 139 1.27e-32 113
MS.gene90031.t1 MTR_1g095850 40.845 142 76 1 6 147 73 206 4.87e-32 114
MS.gene90031.t1 MTR_5g075020 45.865 133 68 1 6 138 44 172 5.50e-32 114
MS.gene90031.t1 MTR_5g075020 45.865 133 68 1 6 138 48 176 7.42e-32 114
MS.gene90031.t1 MTR_5g017950 48.544 103 53 0 6 108 9 111 7.85e-32 115
MS.gene90031.t1 MTR_8g040900 50.467 107 51 1 6 112 8 112 1.55e-31 113
MS.gene90031.t1 MTR_6g005080 48.000 100 52 0 6 105 11 110 1.84e-30 107
MS.gene90031.t1 MTR_3g071420 46.392 97 52 0 6 102 15 111 8.85e-30 107
MS.gene90031.t1 MTR_5g083010 44.554 101 56 0 6 106 12 112 1.62e-29 106
MS.gene90031.t1 MTR_7g096530 46.602 103 54 1 6 107 15 117 2.57e-29 107
MS.gene90031.t1 MTR_6g011250 36.111 144 91 1 4 146 8 151 4.77e-28 102
MS.gene90031.t1 MTR_6g027710 43.396 106 59 1 6 110 41 146 7.01e-28 103
MS.gene90031.t1 MTR_1g070220 47.000 100 52 1 6 104 16 115 2.98e-27 101
MS.gene90031.t1 MTR_8g079660 40.000 105 63 0 2 106 5 109 9.71e-26 99.0
MS.gene90031.t1 MTR_6g011230 41.414 99 58 0 4 102 10 108 1.08e-25 97.4
MS.gene90031.t1 MTR_7g096610 39.007 141 83 2 6 143 9 149 1.61e-25 97.4
MS.gene90031.t1 MTR_8g036085 41.509 106 61 1 6 110 24 129 3.58e-25 96.7
MS.gene90031.t1 MTR_1g070205 44.118 102 56 1 6 106 13 114 7.06e-25 95.9
MS.gene90031.t1 MTR_7g074990 44.554 101 55 1 6 105 21 121 9.29e-25 95.9
MS.gene90031.t1 MTR_8g079580 43.810 105 58 1 2 105 5 109 4.75e-24 93.6
MS.gene90031.t1 MTR_6g011200 37.273 110 68 1 4 112 8 117 4.91e-24 94.4
MS.gene90031.t1 MTR_6g027700 37.405 131 69 3 6 123 8 138 5.29e-23 90.5
MS.gene90031.t1 MTR_5g080470 41.176 102 59 1 6 106 8 109 5.58e-23 90.1
MS.gene90031.t1 MTR_8g079620 37.143 105 66 0 2 106 5 109 1.30e-22 90.1
MS.gene90031.t1 MTR_8g036105 41.176 102 59 1 6 106 19 120 1.55e-22 89.4
MS.gene90031.t1 MTR_4g099230 36.111 108 68 1 6 112 3 110 8.73e-22 85.9
MS.gene90031.t1 MTR_8g017090 39.604 101 61 0 6 106 13 113 1.14e-21 89.0
MS.gene90031.t1 MTR_4g107450 42.000 100 58 0 6 105 11 110 1.91e-21 88.2
MS.gene90031.t1 MTR_5g085390 36.283 113 70 2 4 114 8 120 1.12e-20 85.1
MS.gene90031.t1 MTR_7g075230 39.423 104 60 2 6 106 13 116 2.28e-20 83.6
MS.gene90031.t1 MTR_2g100020 33.663 101 67 0 6 106 20 120 2.76e-18 79.3
MS.gene90031.t1 MTR_4g088035 32.558 86 58 0 6 91 7 92 5.13e-13 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90031.t1 AT3G26660 66.019 103 35 0 4 106 4 106 1.32e-47 150
MS.gene90031.t1 AT3G26620 66.019 103 35 0 4 106 4 106 1.64e-47 150
MS.gene90031.t1 AT2G30130 51.852 108 52 0 6 113 9 116 5.21e-38 128
MS.gene90031.t1 AT1G31320 62.791 86 32 0 6 91 14 99 1.89e-35 121
MS.gene90031.t1 AT1G07900 43.902 123 64 1 6 128 34 151 9.58e-35 120
MS.gene90031.t1 AT5G63090 46.957 115 61 0 6 120 12 126 2.95e-34 119
MS.gene90031.t1 AT5G63090 46.957 115 61 0 6 120 12 126 2.95e-34 119
MS.gene90031.t1 AT5G63090 46.957 115 61 0 6 120 12 126 2.95e-34 119
MS.gene90031.t1 AT5G63090 46.957 115 61 0 6 120 12 126 2.95e-34 119
MS.gene90031.t1 AT2G30340 50.000 106 53 0 6 111 54 159 3.27e-34 121
MS.gene90031.t1 AT2G30340 50.000 106 53 0 6 111 53 158 3.37e-34 120
MS.gene90031.t1 AT2G28500 45.946 111 60 0 1 111 51 161 4.93e-34 119
MS.gene90031.t1 AT3G27650 50.000 100 50 0 6 105 40 139 3.40e-33 115
MS.gene90031.t1 AT5G66870 48.515 101 52 0 6 106 8 108 2.59e-32 117
MS.gene90031.t1 AT2G23660 48.515 101 52 0 6 106 6 106 8.81e-32 115
MS.gene90031.t1 AT2G23660 48.515 101 52 0 6 106 6 106 8.81e-32 115
MS.gene90031.t1 AT2G23660 48.515 101 52 0 6 106 6 106 8.81e-32 115
MS.gene90031.t1 AT2G40470 51.923 104 50 0 6 109 21 124 1.00e-31 112
MS.gene90031.t1 AT1G65620 48.077 104 54 0 6 109 10 113 1.72e-31 112
MS.gene90031.t1 AT1G65620 48.077 104 54 0 6 109 10 113 1.72e-31 112
MS.gene90031.t1 AT1G65620 48.077 104 54 0 6 109 10 113 1.72e-31 112
MS.gene90031.t1 AT1G65620 48.077 104 54 0 6 109 10 113 1.72e-31 112
MS.gene90031.t1 AT1G65620 48.077 104 54 0 6 109 10 113 1.72e-31 112
MS.gene90031.t1 AT2G40470 51.923 104 50 0 6 109 46 149 1.73e-31 112
MS.gene90031.t1 AT1G16530 49.515 103 51 1 6 107 15 117 4.29e-31 110
MS.gene90031.t1 AT3G11090 44.660 103 57 0 6 108 12 114 8.22e-31 109
MS.gene90031.t1 AT4G00210 37.500 144 80 3 6 139 12 155 7.12e-27 100
MS.gene90031.t1 AT3G50510 34.899 149 81 2 6 154 13 145 1.83e-26 99.4
MS.gene90031.t1 AT3G50510 34.899 149 81 2 6 154 13 145 1.83e-26 99.4
MS.gene90031.t1 AT2G42430 44.762 105 57 1 6 109 16 120 2.27e-26 100
MS.gene90031.t1 AT3G03760 44.554 101 55 1 6 105 52 152 2.68e-26 100
MS.gene90031.t1 AT5G06080 43.119 109 61 1 6 113 8 116 3.90e-25 95.1
MS.gene90031.t1 AT2G42440 45.000 100 54 1 6 104 8 107 5.00e-25 96.7
MS.gene90031.t1 AT3G13850 35.714 154 91 2 6 151 37 190 9.16e-25 96.7
MS.gene90031.t1 AT3G58190 44.118 102 56 1 6 106 12 113 1.03e-24 95.1
MS.gene90031.t1 AT4G00220 42.308 104 59 1 8 110 20 123 1.34e-23 92.4
MS.gene90031.t1 AT2G45420 42.308 104 59 1 8 110 40 143 4.96e-23 91.7
MS.gene90031.t1 AT2G45410 41.000 100 58 1 8 106 19 118 1.61e-22 89.0
MS.gene90031.t1 AT5G35900 37.624 101 63 0 6 106 6 106 1.13e-21 87.0
MS.gene90031.t1 AT3G47870 37.500 104 65 0 6 109 37 140 1.50e-21 89.0
MS.gene90031.t1 AT2G31310 34.314 102 66 1 6 106 8 109 1.27e-19 81.3
MS.gene90031.t1 AT1G06280 36.782 87 55 0 6 92 25 111 4.70e-17 75.1
MS.gene90031.t1 AT1G72980 35.000 100 65 0 6 105 14 113 6.46e-17 74.7
MS.gene90031.t1 AT2G19820 32.979 94 62 1 6 98 13 106 1.18e-14 66.6
MS.gene90031.t1 AT4G22700 33.043 115 71 3 1 110 1 114 3.37e-13 64.3
MS.gene90031.t1 AT5G15060 43.243 74 38 2 6 76 18 90 8.98e-13 62.4
MS.gene90031.t1 AT1G36000 29.545 88 62 0 4 91 8 95 1.62e-11 58.5

Find 31 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCTTCAAATTGTTGATTT+TGG 0.080390 7.4:+72973706 None:intergenic
AGGATTCAAGATCCTGTTTA+TGG 0.232394 7.4:-72973822 MS.gene90031:CDS
GGCCTAGTCAAACTCCTAAT+TGG 0.295938 7.4:-72973593 MS.gene90031:CDS
GGATCATTGGGAGGGAAATA+TGG 0.321654 7.4:+72974327 None:intergenic
GCTTCTGTTCACCGAATCTA+TGG 0.327300 7.4:-72974294 MS.gene90031:CDS
AGCAAATCTTTGAGGATCAT+TGG 0.352548 7.4:+72974314 None:intergenic
AACTCCTAATTGGTTCAATT+AGG 0.365498 7.4:-72973583 None:intergenic
TTAACATCATGATTTATAGA+AGG 0.383363 7.4:-72974404 None:intergenic
AAGTCCTAATTGAACCAATT+AGG 0.385923 7.4:+72973579 None:intergenic
ATCCCAACACATCCATAAAC+AGG 0.432009 7.4:+72973810 None:intergenic
GCAAATCTTTGAGGATCATT+GGG 0.442273 7.4:+72974315 None:intergenic
CTCCAAAATCAACAATTTGA+AGG 0.458414 7.4:-72973708 MS.gene90031:CDS
ATCTATGGTGGTAGCAATGT+TGG 0.480363 7.4:-72974279 MS.gene90031:CDS
TGTATTTAGAAGCACAATGT+AGG 0.497154 7.4:-72973842 MS.gene90031:CDS
ATCCTGTTTATGGATGTGTT+GGG 0.518295 7.4:-72973812 MS.gene90031:CDS
TCAAGATACAGAAGTTGAGT+TGG 0.518830 7.4:-72973763 MS.gene90031:CDS
TATGGAGAGAAAATGCAATC+AGG 0.521384 7.4:+72974345 None:intergenic
ACAACATGGAGCAGATTCAA+TGG 0.528352 7.4:-72973614 MS.gene90031:CDS
CATTGCTACCACCATAGATT+CGG 0.528587 7.4:+72974283 None:intergenic
GATCCTGTTTATGGATGTGT+TGG 0.530554 7.4:-72973813 MS.gene90031:CDS
TGAACAGAAGCAAATCTTTG+AGG 0.534397 7.4:+72974306 None:intergenic
AATACATAGAATTTGCAGCT+TGG 0.550687 7.4:+72973859 None:intergenic
CTTGCAAGAGTCAAAGAAGA+AGG 0.562843 7.4:-72974374 MS.gene90031:CDS
ATCTTTGAGGATCATTGGGA+GGG 0.584186 7.4:+72974319 None:intergenic
AATCTTTGAGGATCATTGGG+AGG 0.604113 7.4:+72974318 None:intergenic
TCTGTTCACCGAATCTATGG+TGG 0.619615 7.4:-72974291 MS.gene90031:CDS
AACCAATTAGGAGTTTGACT+AGG 0.647531 7.4:+72973591 None:intergenic
TCCATGTTGTTACTATGTAG+TGG 0.647940 7.4:+72973627 None:intergenic
GCCACTACATAGTAACAACA+TGG 0.651155 7.4:-72973628 MS.gene90031:CDS
GCTTGGTGTCGTACATAGTG+AGG 0.654586 7.4:+72973876 None:intergenic
GGAGAGAAAATGCAATCAGG+AGG 0.655607 7.4:+72974348 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTAAAATAATCTTATTG+TGG - chr7.4:72974059-72974078 MS.gene90031:intron 10.0%
!! AACATTATATAATTATAGCA+TGG - chr7.4:72973967-72973986 MS.gene90031:intron 15.0%
!! TACCATGTAATATATTATTG+TGG - chr7.4:72973821-72973840 MS.gene90031:CDS 20.0%
!! TCAATGTAAGAATCAATATT+TGG - chr7.4:72973864-72973883 MS.gene90031:CDS 20.0%
!! TTCCACAATAATATATTACA+TGG + chr7.4:72973826-72973845 None:intergenic 20.0%
AATACATAGAATTTGCAGCT+TGG + chr7.4:72974124-72974143 None:intergenic 30.0%
CTCCAAAATCAACAATTTGA+AGG - chr7.4:72974272-72974291 MS.gene90031:CDS 30.0%
! TGTATTTAGAAGCACAATGT+AGG - chr7.4:72974138-72974157 MS.gene90031:intron 30.0%
!!! CACCTTCAAATTGTTGATTT+TGG + chr7.4:72974277-72974296 None:intergenic 30.0%
AACCAATTAGGAGTTTGACT+AGG + chr7.4:72974392-72974411 None:intergenic 35.0%
AGGATTCAAGATCCTGTTTA+TGG - chr7.4:72974158-72974177 MS.gene90031:intron 35.0%
ATCCTGTTTATGGATGTGTT+GGG - chr7.4:72974168-72974187 MS.gene90031:intron 35.0%
TATGGAGAGAAAATGCAATC+AGG + chr7.4:72973638-72973657 None:intergenic 35.0%
TCAAGATACAGAAGTTGAGT+TGG - chr7.4:72974217-72974236 MS.gene90031:intron 35.0%
TCCATGTTGTTACTATGTAG+TGG + chr7.4:72974356-72974375 None:intergenic 35.0%
TGAACAGAAGCAAATCTTTG+AGG + chr7.4:72973677-72973696 None:intergenic 35.0%
! AGCAAATCTTTGAGGATCAT+TGG + chr7.4:72973669-72973688 None:intergenic 35.0%
! GCAAATCTTTGAGGATCATT+GGG + chr7.4:72973668-72973687 None:intergenic 35.0%
ACAACATGGAGCAGATTCAA+TGG - chr7.4:72974366-72974385 MS.gene90031:CDS 40.0%
ATCCCAACACATCCATAAAC+AGG + chr7.4:72974173-72974192 None:intergenic 40.0%
ATCTATGGTGGTAGCAATGT+TGG - chr7.4:72973701-72973720 MS.gene90031:CDS 40.0%
CAATGTTGGAAAAACGCTTC+AGG - chr7.4:72973715-72973734 MS.gene90031:CDS 40.0%
CATTGCTACCACCATAGATT+CGG + chr7.4:72973700-72973719 None:intergenic 40.0%
CTTGCAAGAGTCAAAGAAGA+AGG - chr7.4:72973606-72973625 MS.gene90031:CDS 40.0%
GATCCTGTTTATGGATGTGT+TGG - chr7.4:72974167-72974186 MS.gene90031:intron 40.0%
GCCACTACATAGTAACAACA+TGG - chr7.4:72974352-72974371 MS.gene90031:CDS 40.0%
! AATCTTTGAGGATCATTGGG+AGG + chr7.4:72973665-72973684 None:intergenic 40.0%
! ATCTTTGAGGATCATTGGGA+GGG + chr7.4:72973664-72973683 None:intergenic 40.0%
GCTTCTGTTCACCGAATCTA+TGG - chr7.4:72973686-72973705 MS.gene90031:CDS 45.0%
GGAGAGAAAATGCAATCAGG+AGG + chr7.4:72973635-72973654 None:intergenic 45.0%
GGATCATTGGGAGGGAAATA+TGG + chr7.4:72973656-72973675 None:intergenic 45.0%
GGCCTAGTCAAACTCCTAAT+TGG - chr7.4:72974387-72974406 MS.gene90031:CDS 45.0%
TCTGTTCACCGAATCTATGG+TGG - chr7.4:72973689-72973708 MS.gene90031:CDS 45.0%
!! GCTTGGTGTCGTACATAGTG+AGG + chr7.4:72974107-72974126 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 72973584 72974418 72973584 ID=MS.gene90031
chr7.4 mRNA 72973584 72974418 72973584 ID=MS.gene90031.t1;Parent=MS.gene90031
chr7.4 exon 72974266 72974418 72974266 ID=MS.gene90031.t1.exon1;Parent=MS.gene90031.t1
chr7.4 CDS 72974266 72974418 72974266 ID=cds.MS.gene90031.t1;Parent=MS.gene90031.t1
chr7.4 exon 72973584 72973904 72973584 ID=MS.gene90031.t1.exon2;Parent=MS.gene90031.t1
chr7.4 CDS 72973584 72973904 72973584 ID=cds.MS.gene90031.t1;Parent=MS.gene90031.t1
Gene Sequence

>MS.gene90031

ATGATTTATAGAAGGTGTGCTGCTTGCAAGAGTCAAAGAAGAAGGTGTCCTCCTGATTGCATTTTCTCTCCATATTTCCCTCCCAATGATCCTCAAAGATTTGCTTCTGTTCACCGAATCTATGGTGGTAGCAATGTTGGAAAAACGCTTCAGGTACTCTTAATAATATAATAAATATATCAATTCAATATTTAGTTTTTTTTTTGAAATAATCAATATTTAGTATCTAGTATGTATTACCATGTAATATATTATTGTGGAATTTACTTGTAATTTTGTGTCAATGTAAGAATCAATATTTGGTATCTAGATTTCATTAGTGTACTTTTAACTTATAAATTATCAATATCAATATTTAGTATCTAGTGTATGTATTAGTATGTAACATTATATAATTATAGCATGGACATAATATAAGAGTTAGAAAAAGTATACTTTTTACTTATAGTTTTTTTTTTTTAATGAAAATTTGTATATTTTAAAATAATCTTATTGTGGAATTTTAATGTTGTAGCAATTGCCTCACTATGTACGACACCAAGCTGCAAATTCTATGTATTTAGAAGCACAATGTAGGATTCAAGATCCTGTTTATGGATGTGTTGGGATTATCTCTAAATTATCTCAACAAATTCAAGATACAGAAGTTGAGTTGGCTAAAATCAAAACTCAGATTGCTTATCATAAACTCCAAAATCAACAATTTGAAGGTGAATCAAACTTCAATGTCTTGTCAACAATTGATGCTGAATCAAACTTAAGCTCTTTGCCACTACATAGTAACAACATGGAGCAGATTCAATGGCCTAGTCAAACTCCTAATTGGTTCAATTAG
Protein sequence

>MS.gene90031.t1

MIYRRCAACKSQRRRCPPDCIFSPYFPPNDPQRFASVHRIYGGSNVGKTLQQLPHYVRHQAANSMYLEAQCRIQDPVYGCVGIISKLSQQIQDTEVELAKIKTQIAYHKLQNQQFEGESNFNVLSTIDAESNLSSLPLHSNNMEQIQWPSQTPNWFN