AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32330

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32330.t1 MTR_1g029100 96.591 88 3 0 43 130 1 88 4.37e-60 181
MS.gene32330.t1 MTR_1g029070 42.254 142 74 2 1 134 1 142 7.14e-32 112
MS.gene32330.t1 MTR_3g058980 39.394 99 59 1 49 147 32 129 1.47e-21 86.3
MS.gene32330.t1 MTR_4g133952 40.476 84 50 0 49 132 63 146 3.90e-21 86.3
MS.gene32330.t1 MTR_8g091720 39.604 101 60 1 49 149 33 132 4.90e-21 85.1
MS.gene32330.t1 MTR_1g072790 41.667 84 49 0 49 132 34 117 6.74e-21 84.0
MS.gene32330.t1 MTR_5g095740 42.857 84 48 0 49 132 28 111 1.03e-20 84.0
MS.gene32330.t1 MTR_1g088860 41.667 84 49 0 49 132 41 124 1.05e-20 84.0
MS.gene32330.t1 MTR_7g061270 37.736 106 62 2 49 151 31 135 1.60e-20 82.8
MS.gene32330.t1 MTR_7g100650 37.736 106 62 2 49 151 31 135 1.72e-20 82.8
MS.gene32330.t1 MTR_2g026710 41.573 89 51 1 49 137 22 109 2.22e-20 82.4
MS.gene32330.t1 MTR_1g039040 42.857 84 48 0 49 132 11 94 3.37e-20 82.4
MS.gene32330.t1 MTR_4g133938 40.909 88 52 0 45 132 20 107 4.26e-20 80.9
MS.gene32330.t1 MTR_8g093920 41.176 85 50 0 49 133 45 129 3.24e-19 80.5
MS.gene32330.t1 MTR_4g119500 35.000 100 65 0 49 148 27 126 3.38e-19 78.6
MS.gene32330.t1 MTR_0392s0020 38.095 84 52 0 49 132 23 106 4.76e-19 78.2
MS.gene32330.t1 MTR_1g083070 35.714 84 54 0 49 132 9 92 2.16e-18 76.3
MS.gene32330.t1 MTR_1g028480 40.476 84 36 1 79 148 24 107 1.44e-16 71.2
MS.gene32330.t1 MTR_5g095900 31.765 85 58 0 49 133 21 105 2.54e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32330.t1 AT2G38880 41.584 101 58 1 49 148 26 126 1.31e-22 87.4
MS.gene32330.t1 AT2G38880 40.777 103 58 1 49 148 26 128 2.63e-22 86.7
MS.gene32330.t1 AT2G38880 40.777 103 58 1 49 148 26 128 3.00e-22 86.7
MS.gene32330.t1 AT2G38880 40.777 103 58 1 49 148 26 128 3.00e-22 86.7
MS.gene32330.t1 AT2G38880 40.777 103 58 1 49 148 26 128 3.00e-22 86.7
MS.gene32330.t1 AT3G53340 41.346 104 58 1 49 149 34 137 1.36e-21 85.9
MS.gene32330.t1 AT3G53340 41.346 104 58 1 49 149 34 137 1.36e-21 85.9
MS.gene32330.t1 AT2G37060 40.187 107 61 1 49 152 35 141 2.89e-21 85.1
MS.gene32330.t1 AT2G37060 40.187 107 61 1 49 152 35 141 2.89e-21 85.1
MS.gene32330.t1 AT2G37060 40.187 107 61 1 49 152 35 141 2.89e-21 85.1
MS.gene32330.t1 AT4G14540 42.857 84 48 0 49 132 26 109 4.47e-21 84.3
MS.gene32330.t1 AT2G38880 42.857 84 48 0 49 132 26 109 6.22e-21 82.4
MS.gene32330.t1 AT2G38880 42.857 84 48 0 49 132 26 109 1.72e-20 82.8
MS.gene32330.t1 AT2G38880 42.857 84 48 0 49 132 26 109 1.72e-20 82.8
MS.gene32330.t1 AT5G47640 44.048 84 47 0 49 132 32 115 2.23e-20 83.2
MS.gene32330.t1 AT2G38880 42.857 84 48 0 49 132 26 109 6.55e-20 80.9
MS.gene32330.t1 AT2G38880 42.857 84 48 0 49 132 26 109 6.55e-20 80.9
MS.gene32330.t1 AT2G38880 42.857 84 48 0 49 132 26 109 6.55e-20 80.9
MS.gene32330.t1 AT3G53340 44.048 84 47 0 49 132 34 117 2.14e-19 79.0
MS.gene32330.t1 AT2G47810 40.476 84 50 0 49 132 56 139 2.35e-19 79.7
MS.gene32330.t1 AT5G47670 36.842 95 60 0 49 143 34 128 2.74e-19 80.5
MS.gene32330.t1 AT5G47670 36.842 95 60 0 49 143 63 157 4.74e-19 80.5
MS.gene32330.t1 AT5G47670 36.842 95 60 0 49 143 63 157 4.74e-19 80.5
MS.gene32330.t1 AT2G13570 41.176 85 50 0 49 133 41 125 1.77e-18 78.6
MS.gene32330.t1 AT1G21970 37.755 98 59 1 37 132 50 147 2.17e-18 79.0
MS.gene32330.t1 AT3G53340 42.105 95 54 1 49 143 34 127 5.37e-18 75.9
MS.gene32330.t1 AT3G53340 42.105 95 54 1 49 143 34 127 5.37e-18 75.9
MS.gene32330.t1 AT1G09030 32.673 101 61 1 49 142 8 108 3.07e-17 73.6

Find 39 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGTGTGTGTCTAAATTTA+TGG 0.291429 1.4:+14188148 MS.gene32330:CDS
CGCACTTCCTCGCCCATTGC+TGG 0.309871 1.4:-14188038 None:intergenic
GATGTTCTACATTGGCTTGC+TGG 0.319904 1.4:-14188193 None:intergenic
TTTCTGCTGATGATTTACTA+TGG 0.322953 1.4:+14188225 MS.gene32330:CDS
GAGGAATTTGTTAGGTCTCT+TGG 0.362755 1.4:+14188269 MS.gene32330:CDS
ATTTACTATGGACAATGAAT+AGG 0.383466 1.4:+14188237 MS.gene32330:CDS
TTAACTTAGGTCATCATCAT+TGG 0.396111 1.4:-14188354 None:intergenic
AATGAATAGGTTGGGCTTTG+AGG 0.399900 1.4:+14188250 MS.gene32330:CDS
TGGGCTTTGAGGAATTTGTT+AGG 0.401864 1.4:+14188261 MS.gene32330:CDS
AGGAATTTGTTAGGTCTCTT+GGG 0.404606 1.4:+14188270 MS.gene32330:CDS
CTATGGACAATGAATAGGTT+GGG 0.416738 1.4:+14188242 MS.gene32330:CDS
GGAGTTGAATGTTGGTTCTC+AGG 0.440378 1.4:-14188017 None:intergenic
TTCCTTGTGTCGAATTGCTA+TGG 0.461454 1.4:-14187587 None:intergenic
GACTCTTGTCACATGATTGA+TGG 0.464195 1.4:-14188066 None:intergenic
CGCAACCACATGGATGGGTC+AGG 0.482696 1.4:+14188311 MS.gene32330:CDS
AACTATCGCAACCACATGGA+TGG 0.490022 1.4:+14188305 MS.gene32330:CDS
CAACATTCAACTCCAGCAAT+GGG 0.504417 1.4:+14188026 MS.gene32330:CDS
CCATTGCTGGAGTTGAATGT+TGG 0.510977 1.4:-14188025 None:intergenic
CATTAACTCCTTAGCATCAC+CGG 0.525471 1.4:-14188123 None:intergenic
TCACCGGTGATTATTGTGTC+TGG 0.531603 1.4:-14188107 None:intergenic
ATGGATGGGTCAGGTGCTAG+TGG 0.541112 1.4:+14188320 MS.gene32330:CDS
AATCATTTGATGTTCTACAT+TGG 0.545949 1.4:-14188201 None:intergenic
CCAACATTCAACTCCAGCAA+TGG 0.549683 1.4:+14188025 MS.gene32330:CDS
ACTATGGACAATGAATAGGT+TGG 0.553647 1.4:+14188241 MS.gene32330:CDS
AATAATCACCGGTGATGCTA+AGG 0.556556 1.4:+14188115 MS.gene32330:CDS
TTCAACTCCAGCAATGGGCG+AGG 0.564498 1.4:+14188031 MS.gene32330:CDS
AATTCGACACAAGGAAACTC+TGG 0.570594 1.4:+14187594 MS.gene32330:CDS
ACTCTTGTCACATGATTGAT+GGG 0.597608 1.4:-14188065 None:intergenic
TATGGACATGGTCACAAGTG+AGG 0.597827 1.4:+14188166 MS.gene32330:CDS
ACTATCGCAACCACATGGAT+GGG 0.604393 1.4:+14188306 MS.gene32330:CDS
AACAACAACAACATTGACGA+TGG 0.605722 1.4:+14187993 MS.gene32330:CDS
GAATTGCTATGGTTAGCAGA+GGG 0.608648 1.4:-14187576 None:intergenic
AACCATAGCAATTCGACACA+AGG 0.618498 1.4:+14187585 MS.gene32330:CDS
CGAATTGCTATGGTTAGCAG+AGG 0.624127 1.4:-14187577 None:intergenic
CCGGTGATTATTGTGTCTGG+TGG 0.626278 1.4:-14188104 None:intergenic
CCACCAGACACAATAATCAC+CGG 0.631108 1.4:+14188104 MS.gene32330:CDS
AATTGCTATGGTTAGCAGAG+GGG 0.653798 1.4:-14187575 None:intergenic
TGTGTCTAAATTTATGGACA+TGG 0.681958 1.4:+14188154 MS.gene32330:CDS
TAGCACCTGACCCATCCATG+TGG 0.736156 1.4:-14188316 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCTTCAAAATTAAAAGATT+TGG - chr1.4:14187902-14187921 None:intergenic 15.0%
!! TAACAATAGATTGTACTAAA+GGG + chr1.4:14187767-14187786 MS.gene32330:intron 20.0%
!! TTAACAATAGATTGTACTAA+AGG + chr1.4:14187766-14187785 MS.gene32330:intron 20.0%
! AATCATTTGATGTTCTACAT+TGG - chr1.4:14188204-14188223 None:intergenic 25.0%
! ATTGTGTGTGTCTAAATTTA+TGG + chr1.4:14188148-14188167 MS.gene32330:CDS 25.0%
! ATTTACTATGGACAATGAAT+AGG + chr1.4:14188237-14188256 MS.gene32330:CDS 25.0%
!! ACTCAATCTTTTACAAAGTA+GGG - chr1.4:14187657-14187676 None:intergenic 25.0%
!!! ATGTTTTTGACAGAGATAAA+AGG - chr1.4:14187948-14187967 None:intergenic 25.0%
TGTGTCTAAATTTATGGACA+TGG + chr1.4:14188154-14188173 MS.gene32330:CDS 30.0%
TTAACTTAGGTCATCATCAT+TGG - chr1.4:14188357-14188376 None:intergenic 30.0%
TTTCTGCTGATGATTTACTA+TGG + chr1.4:14188225-14188244 MS.gene32330:CDS 30.0%
! CACTCAATCTTTTACAAAGT+AGG - chr1.4:14187658-14187677 None:intergenic 30.0%
AACAACAACAACATTGACGA+TGG + chr1.4:14187993-14188012 MS.gene32330:CDS 35.0%
ACTATGGACAATGAATAGGT+TGG + chr1.4:14188241-14188260 MS.gene32330:CDS 35.0%
ACTCTTGTCACATGATTGAT+GGG - chr1.4:14188068-14188087 None:intergenic 35.0%
CTATGGACAATGAATAGGTT+GGG + chr1.4:14188242-14188261 MS.gene32330:CDS 35.0%
TTGTAAAAGATTGAGTGTGC+TGG + chr1.4:14187661-14187680 MS.gene32330:intron 35.0%
! AATGTTGTTGTTGTTGTTGG+TGG - chr1.4:14187988-14188007 None:intergenic 35.0%
! GTCAATGTTGTTGTTGTTGT+TGG - chr1.4:14187991-14188010 None:intergenic 35.0%
!! AGGAATTTGTTAGGTCTCTT+GGG + chr1.4:14188270-14188289 MS.gene32330:CDS 35.0%
AACCATAGCAATTCGACACA+AGG + chr1.4:14187585-14187604 MS.gene32330:CDS 40.0%
AATAATCACCGGTGATGCTA+AGG + chr1.4:14188115-14188134 MS.gene32330:CDS 40.0%
AATTCGACACAAGGAAACTC+TGG + chr1.4:14187594-14187613 MS.gene32330:CDS 40.0%
AATTGCTATGGTTAGCAGAG+GGG - chr1.4:14187578-14187597 None:intergenic 40.0%
CAAAAACTATCGCAACCACA+TGG + chr1.4:14188301-14188320 MS.gene32330:CDS 40.0%
CAACATTCAACTCCAGCAAT+GGG + chr1.4:14188026-14188045 MS.gene32330:CDS 40.0%
CATTAACTCCTTAGCATCAC+CGG - chr1.4:14188126-14188145 None:intergenic 40.0%
GAATTGCTATGGTTAGCAGA+GGG - chr1.4:14187579-14187598 None:intergenic 40.0%
GACTCTTGTCACATGATTGA+TGG - chr1.4:14188069-14188088 None:intergenic 40.0%
TTCCTTGTGTCGAATTGCTA+TGG - chr1.4:14187590-14187609 None:intergenic 40.0%
! AATGAATAGGTTGGGCTTTG+AGG + chr1.4:14188250-14188269 MS.gene32330:CDS 40.0%
! TGTGGTTGCGATAGTTTTTG+AGG - chr1.4:14188301-14188320 None:intergenic 40.0%
!! GAGGAATTTGTTAGGTCTCT+TGG + chr1.4:14188269-14188288 MS.gene32330:CDS 40.0%
!! TGGGCTTTGAGGAATTTGTT+AGG + chr1.4:14188261-14188280 MS.gene32330:CDS 40.0%
AACTATCGCAACCACATGGA+TGG + chr1.4:14188305-14188324 MS.gene32330:CDS 45.0%
ACTATCGCAACCACATGGAT+GGG + chr1.4:14188306-14188325 MS.gene32330:CDS 45.0%
CCAACATTCAACTCCAGCAA+TGG + chr1.4:14188025-14188044 MS.gene32330:CDS 45.0%
CCACCAGACACAATAATCAC+CGG + chr1.4:14188104-14188123 MS.gene32330:CDS 45.0%
CCATTGCTGGAGTTGAATGT+TGG - chr1.4:14188028-14188047 None:intergenic 45.0%
CGAATTGCTATGGTTAGCAG+AGG - chr1.4:14187580-14187599 None:intergenic 45.0%
TATGGACATGGTCACAAGTG+AGG + chr1.4:14188166-14188185 MS.gene32330:CDS 45.0%
TCACCGGTGATTATTGTGTC+TGG - chr1.4:14188110-14188129 None:intergenic 45.0%
!! GATGTTCTACATTGGCTTGC+TGG - chr1.4:14188196-14188215 None:intergenic 45.0%
!! GGAGTTGAATGTTGGTTCTC+AGG - chr1.4:14188020-14188039 None:intergenic 45.0%
!!! TTAATTTTTTTTTTTTTTTC+AGG - chr1.4:14187867-14187886 None:intergenic 5.0%
CCGGTGATTATTGTGTCTGG+TGG - chr1.4:14188107-14188126 None:intergenic 50.0%
ATGGATGGGTCAGGTGCTAG+TGG + chr1.4:14188320-14188339 MS.gene32330:CDS 55.0%
TAGCACCTGACCCATCCATG+TGG - chr1.4:14188319-14188338 None:intergenic 55.0%
TTCAACTCCAGCAATGGGCG+AGG + chr1.4:14188031-14188050 MS.gene32330:CDS 55.0%
CGCAACCACATGGATGGGTC+AGG + chr1.4:14188311-14188330 MS.gene32330:CDS 60.0%
CGCACTTCCTCGCCCATTGC+TGG - chr1.4:14188041-14188060 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 14187561 14188376 14187561 ID=MS.gene32330
chr1.4 mRNA 14187561 14188376 14187561 ID=MS.gene32330.t1;Parent=MS.gene32330
chr1.4 exon 14187561 14187615 14187561 ID=MS.gene32330.t1.exon1;Parent=MS.gene32330.t1
chr1.4 CDS 14187561 14187615 14187561 ID=cds.MS.gene32330.t1;Parent=MS.gene32330.t1
chr1.4 exon 14187973 14188376 14187973 ID=MS.gene32330.t1.exon2;Parent=MS.gene32330.t1
chr1.4 CDS 14187973 14188376 14187973 ID=cds.MS.gene32330.t1;Parent=MS.gene32330.t1
Gene Sequence

>MS.gene32330

ATGGAGCATGGAAGCCCCTCTGCTAACCATAGCAATTCGACACAAGGAAACTCTGGTAAGCACTCTAAACAACATTTTTAGATATTCTAACTTCCCTACTTTGTAAAAGATTGAGTGTGCTGGTTTTTCATTTGTATATATTCAATCACATCAAAAGCTGATTTTTATTATCGTGCAAGAAATAAATATTTTCTCAATATTTAATTTAACAATAGATTGTACTAAAGGGAAAAAAAATTAAGCTTACTAACATATATTTTTATTATCTTATACTAGATTTTTATCTATGAAGTTTTGTTAAAACCTGAAAAAAAAAAAAAAATTAATTTTCTCTTGCACCAAATCTTTTAATTTTGAAGATTTAAATTGATTTCATTTTTTTTTCCTTTTATCTCTGTCAAAAACATTGTAGCTGAAAGAAACACCACCAACAACAACAACAACATTGACGATGGACCTGAGAACCAACATTCAACTCCAGCAATGGGCGAGGAAGTGCGTATGCCCATCAATCATGTGACAAGAGTCATGCAGAGTGTTCTTCCACCAGACACAATAATCACCGGTGATGCTAAGGAGTTAATGCAATTGTGTGTGTCTAAATTTATGGACATGGTCACAAGTGAGGCTTTCCAGCAAGCCAATGTAGAACATCAAATGATTGTTTCTGCTGATGATTTACTATGGACAATGAATAGGTTGGGCTTTGAGGAATTTGTTAGGTCTCTTGGGAAAGACCTCAAAAACTATCGCAACCACATGGATGGGTCAGGTGCTAGTGGCTCAAACAATGCCAATGATGATGACCTAAGTTAA
Protein sequence

>MS.gene32330.t1

MEHGSPSANHSNSTQGNSAERNTTNNNNNIDDGPENQHSTPAMGEEVRMPINHVTRVMQSVLPPDTIITGDAKELMQLCVSKFMDMVTSEAFQQANVEHQMIVSADDLLWTMNRLGFEEFVRSLGKDLKNYRNHMDGSGASGSNNANDDDLS