AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33661


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33661.t1 MTR_3g089035 96.825 126 4 0 1 126 1 126 5.55e-89 254
MS.gene33661.t1 MTR_3g089005 66.400 125 42 0 1 125 1 125 5.23e-61 183
MS.gene33661.t1 MTR_8g089110 62.698 126 40 2 1 125 1 120 1.15e-54 167
MS.gene33661.t1 MTR_2g043730 47.619 126 63 2 1 125 1 124 1.54e-39 129
MS.gene33661.t1 MTR_8g088830 55.882 102 44 1 25 125 20 121 4.45e-38 125
MS.gene33661.t1 MTR_2g043790 47.917 96 50 0 30 125 4 99 2.08e-29 102
MS.gene33661.t1 MTR_5g006040 37.607 117 64 3 14 123 7 121 3.82e-22 86.7
MS.gene33661.t1 MTR_8g007020 40.984 122 66 4 10 126 1 121 2.07e-21 84.7
MS.gene33661.t1 MTR_1g104800 37.168 113 62 3 18 123 10 120 1.62e-20 82.4
MS.gene33661.t1 MTR_8g007035 39.344 122 68 4 10 126 1 121 2.17e-19 79.7
MS.gene33661.t1 MTR_1g105130 35.780 109 66 3 19 123 11 119 7.18e-19 77.4
MS.gene33661.t1 MTR_1g105120 35.780 109 66 3 19 123 11 119 7.18e-19 77.4
MS.gene33661.t1 MTR_7g086160 34.167 120 75 3 8 123 2 121 1.97e-18 76.3
MS.gene33661.t1 MTR_7g086220 32.143 112 72 3 9 117 2 112 2.46e-18 76.3
MS.gene33661.t1 MTR_4g114870 39.394 99 53 2 32 123 190 288 6.01e-18 78.2
MS.gene33661.t1 MTR_4g114870 34.351 131 68 4 12 126 1 129 1.19e-15 72.0
MS.gene33661.t1 MTR_7g086140 34.167 120 74 4 8 123 2 120 1.34e-17 74.3
MS.gene33661.t1 MTR_7g086190 34.167 120 74 4 8 123 2 120 1.34e-17 74.3
MS.gene33661.t1 MTR_3g099580 38.393 112 65 3 15 123 8 118 3.15e-17 73.9
MS.gene33661.t1 MTR_0334s0010 35.484 124 69 4 10 123 1 123 4.71e-17 73.6
MS.gene33661.t1 MTR_7g086280 34.454 119 73 3 10 123 1 119 7.66e-17 72.8
MS.gene33661.t1 MTR_1g112700 34.483 116 71 4 12 123 13 127 1.48e-16 72.0
MS.gene33661.t1 MTR_2g088990 35.897 117 68 5 11 123 5 118 1.48e-16 72.8
MS.gene33661.t1 MTR_7g086230 36.538 104 63 2 23 123 16 119 1.67e-16 71.6
MS.gene33661.t1 MTR_7g086100 35.185 108 67 2 19 123 12 119 1.87e-16 72.8
MS.gene33661.t1 MTR_3g099980 38.053 113 66 3 15 123 8 120 1.89e-16 72.4
MS.gene33661.t1 MTR_6g083240 33.613 119 70 2 15 124 9 127 2.63e-16 71.2
MS.gene33661.t1 MTR_6g023760 40.816 98 53 4 30 123 23 119 4.75e-16 70.5
MS.gene33661.t1 MTR_4g067200 31.405 121 70 3 16 123 7 127 2.35e-15 68.6
MS.gene33661.t1 MTR_4g066110 31.405 121 70 3 16 123 7 127 2.35e-15 68.6
MS.gene33661.t1 MTR_3g099680 37.168 113 67 3 15 123 8 120 2.44e-15 69.7
MS.gene33661.t1 MTR_3g099570 37.500 112 66 3 15 123 8 118 6.70e-15 67.8
MS.gene33661.t1 MTR_7g086090 34.454 119 73 3 10 123 1 119 1.66e-14 67.8
MS.gene33661.t1 MTR_6g013200 32.520 123 79 2 7 125 9 131 1.78e-14 66.2
MS.gene33661.t1 MTR_6g013420 31.579 133 81 3 3 125 2 134 2.50e-14 66.2
MS.gene33661.t1 MTR_6g080660 30.769 104 68 3 23 123 18 120 6.15e-14 65.5
MS.gene33661.t1 MTR_4g007250 32.653 98 64 1 30 125 26 123 5.32e-13 62.4
MS.gene33661.t1 MTR_4g081100 28.800 125 82 2 9 126 8 132 7.54e-13 62.8
MS.gene33661.t1 MTR_8g099220 27.350 117 79 2 13 123 9 125 5.84e-12 58.9
MS.gene33661.t1 MTR_2g079030 29.730 111 73 2 18 123 10 120 1.21e-11 60.8
MS.gene33661.t1 MTR_1g090420 35.294 102 58 3 29 123 24 124 2.16e-11 58.9
MS.gene33661.t1 MTR_6g013170 28.455 123 84 3 5 123 2 124 4.77e-11 57.4
MS.gene33661.t1 MTR_4g114830 33.019 106 59 4 26 120 21 125 9.27e-11 56.2
MS.gene33661.t1 MTR_8g086360 27.350 117 80 2 15 126 6 122 9.56e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33661.t1 AT2G02850 54.264 129 56 1 1 126 1 129 1.27e-47 149
MS.gene33661.t1 AT1G17800 38.095 126 72 3 7 126 12 137 1.40e-26 96.7
MS.gene33661.t1 AT2G32300 37.705 122 72 3 8 126 2 122 4.42e-23 90.9
MS.gene33661.t1 AT2G32300 37.705 122 72 3 8 126 32 152 6.85e-23 90.9
MS.gene33661.t1 AT5G26330 34.426 122 75 2 10 126 1 122 1.55e-22 87.8
MS.gene33661.t1 AT3G17675 35.246 122 76 2 5 123 4 125 1.36e-21 83.6
MS.gene33661.t1 AT5G07475 38.739 111 61 4 19 123 13 122 4.98e-20 81.3
MS.gene33661.t1 AT3G60280 41.237 97 53 3 30 123 21 116 1.35e-19 80.9
MS.gene33661.t1 AT3G27200 36.364 121 72 4 10 126 3 122 2.43e-19 79.0
MS.gene33661.t1 AT2G44790 40.741 108 54 5 24 126 23 125 1.42e-17 75.1
MS.gene33661.t1 AT3G60270 37.113 97 57 3 30 123 23 118 4.21e-17 73.6
MS.gene33661.t1 AT2G25060 32.773 119 72 3 16 126 14 132 1.92e-15 69.3
MS.gene33661.t1 AT2G31050 33.043 115 72 3 17 126 12 126 2.14e-15 69.3
MS.gene33661.t1 AT2G26720 30.579 121 79 3 11 126 6 126 3.78e-15 68.9
MS.gene33661.t1 AT4G31840 29.134 127 82 3 8 126 2 128 6.65e-15 67.8
MS.gene33661.t1 AT1G72230 35.345 116 69 4 11 123 3 115 2.01e-13 63.9
MS.gene33661.t1 AT3G20570 30.952 126 80 3 4 123 2 126 2.81e-13 63.9
MS.gene33661.t1 AT5G20230 34.000 100 60 2 33 126 25 124 9.07e-13 62.4
MS.gene33661.t1 AT2G27035 32.500 120 60 6 16 123 12 122 4.30e-12 60.1
MS.gene33661.t1 AT4G30590 27.907 129 81 4 10 126 1 129 1.35e-11 59.3
MS.gene33661.t1 AT1G22480 37.069 116 64 5 12 123 1 111 2.18e-11 58.2
MS.gene33661.t1 AT5G15350 29.060 117 78 3 12 123 7 123 5.58e-11 57.4

Find 34 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTTCACTGCTGTGCCTTT+TGG 0.295835 3.4:-82323103 MS.gene33661:CDS
TATCCTGGTCACTGCCAATC+TGG 0.329505 3.4:-82322647 MS.gene33661:CDS
GTCCTCTTGATAGCCTGATT+TGG 0.349417 3.4:+82322690 None:intergenic
AAAACTGATACTTGGCCTAA+TGG 0.367231 3.4:-82323018 MS.gene33661:CDS
GGTGCTAAAGTGTTCAGTTC+AGG 0.375248 3.4:-82322719 MS.gene33661:CDS
AGAGGACTAAACTGCATAGA+TGG 0.414690 3.4:+82322613 None:intergenic
TCTTACACCGTTGGAGGACC+TGG 0.442628 3.4:-82323054 MS.gene33661:CDS
GTTCAGGGAATGACCAAATC+AGG 0.451771 3.4:-82322703 MS.gene33661:CDS
TACTTCATATGCAGCTATCC+TGG 0.480047 3.4:-82322662 MS.gene33661:CDS
GAGAATATGACTGAGGGAAG+AGG 0.490305 3.4:-82323153 None:intergenic
ATCCTGGTCACTGCCAATCT+GGG 0.503016 3.4:-82322646 MS.gene33661:CDS
CACTTTCAGCCAGAACCAAA+AGG 0.511460 3.4:+82323088 None:intergenic
GTGCTAAAGTGTTCAGTTCA+GGG 0.512300 3.4:-82322718 MS.gene33661:CDS
ATCCCAGATTGGCAGTGACC+AGG 0.530524 3.4:+82322644 None:intergenic
GGACATACAAAACTGATACT+TGG 0.540585 3.4:-82323026 MS.gene33661:CDS
TGGAAACCTTCATCCCAGAT+TGG 0.543764 3.4:+82322633 None:intergenic
TCACTGCCAATCTGGGATGA+AGG 0.545313 3.4:-82322639 MS.gene33661:CDS
GCAGCATCTTACACCGTTGG+AGG 0.574303 3.4:-82323060 MS.gene33661:CDS
GTGGTTGCCGTGGACAAAAG+TGG 0.576000 3.4:-82322767 MS.gene33661:CDS
CTGAACACTTTAGCACCTCC+CGG 0.578857 3.4:+82322725 None:intergenic
AATGCAGCATCTTACACCGT+TGG 0.578987 3.4:-82323063 MS.gene33661:CDS
CACACACAATGTGGTTGCCG+TGG 0.585202 3.4:-82322777 MS.gene33661:CDS
AATAGTGAGAATATGACTGA+GGG 0.586297 3.4:-82323159 None:intergenic
CTTACACCGTTGGAGGACCT+GGG 0.588429 3.4:-82323053 MS.gene33661:CDS
AAATAGTGAGAATATGACTG+AGG 0.592419 3.4:-82323160 None:intergenic
TACAACAACTGTAAGACACC+GGG 0.625426 3.4:-82322743 MS.gene33661:CDS
TTACACCGTTGGAGGACCTG+GGG 0.632787 3.4:-82323052 MS.gene33661:CDS
CACGGCAACCACATTGTGTG+TGG 0.635175 3.4:+82322778 None:intergenic
GACCAAATCAGGCTATCAAG+AGG 0.635565 3.4:-82322692 MS.gene33661:CDS
AGGCAGTGCATCTATGAACA+TGG 0.647845 3.4:-82323133 MS.gene33661:CDS
TGATTCAACCACACACAATG+TGG 0.661122 3.4:-82322786 MS.gene33661:CDS
ATACAACAACTGTAAGACAC+CGG 0.661265 3.4:-82322744 MS.gene33661:CDS
TACACCGTTGGAGGACCTGG+GGG 0.694377 3.4:-82323051 MS.gene33661:CDS
AACAACTGTAAGACACCGGG+AGG 0.711932 3.4:-82322740 MS.gene33661:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTAATTACAGTACAATT+GGG - chr3.4:82322841-82322860 MS.gene33661:intron 15.0%
!! TAATTTAATTACAGTACAAT+TGG - chr3.4:82322840-82322859 MS.gene33661:intron 15.0%
!!! AAAATTGAGAAATATAGTTT+TGG + chr3.4:82322880-82322899 None:intergenic 15.0%
!!! TCAATTTTACAAAATTGTTT+TGG - chr3.4:82322892-82322911 MS.gene33661:intron 15.0%
!! ACTTTAATTATATGTGCATA+TGG - chr3.4:82322931-82322950 MS.gene33661:intron 20.0%
!! AATGGAAAAAAGTTTAAAGC+TGG - chr3.4:82322766-82322785 MS.gene33661:CDS 25.0%
!!! GCTTTAAACTTTTTTCCATT+AGG + chr3.4:82322766-82322785 None:intergenic 25.0%
ATATGGTAATTGATTGTTGC+AGG - chr3.4:82322948-82322967 MS.gene33661:intron 30.0%
AAAACTGATACTTGGCCTAA+TGG - chr3.4:82322748-82322767 MS.gene33661:CDS 35.0%
ATACAACAACTGTAAGACAC+CGG - chr3.4:82323022-82323041 MS.gene33661:CDS 35.0%
GGACATACAAAACTGATACT+TGG - chr3.4:82322740-82322759 MS.gene33661:CDS 35.0%
TACAACAACTGTAAGACACC+GGG - chr3.4:82323023-82323042 MS.gene33661:CDS 40.0%
TACTTCATATGCAGCTATCC+TGG - chr3.4:82323104-82323123 MS.gene33661:CDS 40.0%
TGATTCAACCACACACAATG+TGG - chr3.4:82322980-82322999 MS.gene33661:intron 40.0%
! AATTTCACTGCTGTGCCTTT+TGG - chr3.4:82322663-82322682 MS.gene33661:CDS 40.0%
! GTGCTAAAGTGTTCAGTTCA+GGG - chr3.4:82323048-82323067 MS.gene33661:CDS 40.0%
!! GTTGTATCCACTTTTGTCCA+CGG + chr3.4:82323009-82323028 None:intergenic 40.0%
AATGCAGCATCTTACACCGT+TGG - chr3.4:82322703-82322722 MS.gene33661:CDS 45.0%
AGGCAGTGCATCTATGAACA+TGG - chr3.4:82322633-82322652 MS.gene33661:CDS 45.0%
CACTTTCAGCCAGAACCAAA+AGG + chr3.4:82322681-82322700 None:intergenic 45.0%
GACCAAATCAGGCTATCAAG+AGG - chr3.4:82323074-82323093 MS.gene33661:CDS 45.0%
GTTCAGGGAATGACCAAATC+AGG - chr3.4:82323063-82323082 MS.gene33661:CDS 45.0%
TGGAAACCTTCATCCCAGAT+TGG + chr3.4:82323136-82323155 None:intergenic 45.0%
! GGTGCTAAAGTGTTCAGTTC+AGG - chr3.4:82323047-82323066 MS.gene33661:CDS 45.0%
! GTCCTCTTGATAGCCTGATT+TGG + chr3.4:82323079-82323098 None:intergenic 45.0%
AACAACTGTAAGACACCGGG+AGG - chr3.4:82323026-82323045 MS.gene33661:CDS 50.0%
ATCCTGGTCACTGCCAATCT+GGG - chr3.4:82323120-82323139 MS.gene33661:CDS 50.0%
CTGAACACTTTAGCACCTCC+CGG + chr3.4:82323044-82323063 None:intergenic 50.0%
TATCCTGGTCACTGCCAATC+TGG - chr3.4:82323119-82323138 MS.gene33661:CDS 50.0%
! GTTTTGTATGTCCATCCCCC+AGG + chr3.4:82322733-82322752 None:intergenic 50.0%
! TCACTGCCAATCTGGGATGA+AGG - chr3.4:82323127-82323146 MS.gene33661:CDS 50.0%
!!! ACTGCTGTGCCTTTTGGTTC+TGG - chr3.4:82322669-82322688 MS.gene33661:CDS 50.0%
ATCCCAGATTGGCAGTGACC+AGG + chr3.4:82323125-82323144 None:intergenic 55.0%
CACACACAATGTGGTTGCCG+TGG - chr3.4:82322989-82323008 MS.gene33661:CDS 55.0%
CACGGCAACCACATTGTGTG+TGG + chr3.4:82322991-82323010 None:intergenic 55.0%
CTTACACCGTTGGAGGACCT+GGG - chr3.4:82322713-82322732 MS.gene33661:CDS 55.0%
GCAGCATCTTACACCGTTGG+AGG - chr3.4:82322706-82322725 MS.gene33661:CDS 55.0%
GTGGTTGCCGTGGACAAAAG+TGG - chr3.4:82322999-82323018 MS.gene33661:CDS 55.0%
TCTTACACCGTTGGAGGACC+TGG - chr3.4:82322712-82322731 MS.gene33661:CDS 55.0%
TTACACCGTTGGAGGACCTG+GGG - chr3.4:82322714-82322733 MS.gene33661:CDS 55.0%
TACACCGTTGGAGGACCTGG+GGG - chr3.4:82322715-82322734 MS.gene33661:CDS 60.0%
CCATCCCCCAGGTCCTCCAA+CGG + chr3.4:82322722-82322741 None:intergenic 65.0%
CCGTTGGAGGACCTGGGGGA+TGG - chr3.4:82322719-82322738 MS.gene33661:CDS 70.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 82322619 82323169 82322619 ID=MS.gene33661
chr3.4 mRNA 82322619 82323169 82322619 ID=MS.gene33661.t1;Parent=MS.gene33661
chr3.4 exon 82322989 82323169 82322989 ID=MS.gene33661.t1.exon1;Parent=MS.gene33661.t1
chr3.4 CDS 82322989 82323169 82322989 ID=cds.MS.gene33661.t1;Parent=MS.gene33661.t1
chr3.4 exon 82322619 82322818 82322619 ID=MS.gene33661.t1.exon2;Parent=MS.gene33661.t1
chr3.4 CDS 82322619 82322818 82322619 ID=cds.MS.gene33661.t1;Parent=MS.gene33661.t1
Gene Sequence

>MS.gene33661

ATGACTGAGGGAAGAGGCAGTGCATCTATGAACATGGTCACTGTAATTTCACTGCTGTGCCTTTTGGTTCTGGCTGAAAGTGCTAATGCAGCATCTTACACCGTTGGAGGACCTGGGGGATGGACATACAAAACTGATACTTGGCCTAATGGAAAAAAGTTTAAAGCTGGTGATGTGCTCAGTAAGTATAAATTTAATTTGTCATACATACTGATATAAATTAATTTAATTACAGTACAATTGGGATATTTGATGAGACCAAAACTATATTTCTCAATTTTACAAAATTGTTTTGGAAGAAATCAAGTTGTAACTTTAATTATATGTGCATATGGTAATTGATTGTTGCAGGCTTCAACTATGATTCAACCACACACAATGTGGTTGCCGTGGACAAAAGTGGATACAACAACTGTAAGACACCGGGAGGTGCTAAAGTGTTCAGTTCAGGGAATGACCAAATCAGGCTATCAAGAGGACAAAACTACTTCATATGCAGCTATCCTGGTCACTGCCAATCTGGGATGAAGGTTTCCATCTATGCAGTTTAG

Protein sequence

>MS.gene33661.t1

MTEGRGSASMNMVTVISLLCLLVLAESANAASYTVGGPGGWTYKTDTWPNGKKFKAGDVLSFNYDSTTHNVVAVDKSGYNNCKTPGGAKVFSSGNDQIRLSRGQNYFICSYPGHCQSGMKVSIYAV