AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011292.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011292.01.T01 MTR_2g101660 96.491 171 5 1 1 170 1 171 8.25e-124 345
MsG0280011292.01.T01 MTR_2g101660 98.374 123 2 0 48 170 1 123 9.91e-90 258
MsG0280011292.01.T01 MTR_4g086330 40.458 131 78 0 32 162 64 194 1.33e-29 107
MsG0280011292.01.T01 MTR_8g104890 34.320 169 108 1 2 170 4 169 1.21e-27 102
MsG0280011292.01.T01 MTR_4g086320 42.149 121 66 1 25 141 40 160 1.45e-26 99.0
MsG0280011292.01.T01 MTR_8g104870 38.938 113 69 0 32 144 52 164 4.71e-26 98.6
MsG0280011292.01.T01 MTR_1g075550 46.903 113 59 1 32 144 12 123 1.13e-25 95.9
MsG0280011292.01.T01 MTR_5g017650 37.931 116 69 1 32 144 52 167 1.60e-24 94.7
MsG0280011292.01.T01 MTR_6g084940 37.795 127 74 2 20 142 2 127 1.67e-22 88.2
MsG0280011292.01.T01 MTR_8g104830 35.172 145 82 4 25 161 2 142 2.21e-21 85.1
MsG0280011292.01.T01 MTR_5g008240 28.889 135 77 2 20 137 29 161 4.17e-14 67.0
MsG0280011292.01.T01 MTR_5g008240 30.233 129 71 2 26 137 101 227 1.36e-13 67.0
MsG0280011292.01.T01 MTR_5g008240 28.889 135 77 2 20 137 71 203 1.81e-13 66.2
MsG0280011292.01.T01 MTR_5g022670 30.714 140 74 3 32 168 295 414 5.22e-12 63.2
MsG0280011292.01.T01 MTR_2g011490 28.571 140 68 6 32 144 76 210 1.49e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011292.01.T01 AT1G52200 63.576 151 52 2 21 170 42 190 5.20e-72 215
MsG0280011292.01.T01 AT1G52200 65.891 129 44 0 21 149 42 170 3.55e-65 198
MsG0280011292.01.T01 AT1G49030 44.898 147 79 1 22 168 78 222 1.06e-36 126
MsG0280011292.01.T01 AT3G18470 47.788 113 59 0 32 144 5 117 1.45e-36 123
MsG0280011292.01.T01 AT3G18460 41.606 137 72 2 32 168 54 182 1.18e-34 120
MsG0280011292.01.T01 AT3G18450 40.876 137 75 3 32 168 52 182 1.94e-31 112
MsG0280011292.01.T01 AT1G58320 51.327 113 53 2 32 143 17 128 4.10e-31 110
MsG0280011292.01.T01 AT1G68630 41.441 111 64 1 32 142 29 138 1.57e-27 101
MsG0280011292.01.T01 AT5G35525 34.028 144 93 1 27 170 11 152 1.96e-27 100
MsG0280011292.01.T01 AT1G14870 38.095 126 78 0 27 152 11 136 2.95e-27 100
MsG0280011292.01.T01 AT1G14880 37.288 118 74 0 27 144 10 127 1.93e-24 93.2
MsG0280011292.01.T01 AT1G14870 39.130 115 70 0 27 141 11 125 2.25e-24 92.8
MsG0280011292.01.T01 AT1G68610 37.324 142 84 3 32 170 19 158 1.14e-20 83.6
MsG0280011292.01.T01 AT2G40935 32.479 117 62 2 32 132 47 162 1.08e-15 71.6
MsG0280011292.01.T01 AT2G40935 32.479 117 62 2 32 132 47 162 1.08e-15 71.6
MsG0280011292.01.T01 AT2G40935 32.479 117 62 2 32 132 47 162 1.08e-15 71.6
MsG0280011292.01.T01 AT2G40935 32.479 117 62 2 32 132 47 162 1.08e-15 71.6
MsG0280011292.01.T01 AT2G40935 32.479 117 62 2 32 132 47 162 1.08e-15 71.6
MsG0280011292.01.T01 AT2G40935 34.694 98 47 2 51 132 55 151 4.33e-12 61.6
MsG0280011292.01.T01 AT2G40935 34.694 98 47 2 51 132 42 138 1.06e-11 60.5
MsG0280011292.01.T01 AT2G40935 34.694 98 47 2 51 132 42 138 1.06e-11 60.5
MsG0280011292.01.T01 AT2G40935 34.694 98 47 2 51 132 42 138 1.06e-11 60.5
MsG0280011292.01.T01 AT4G35920 30.667 150 80 5 22 168 291 419 3.78e-11 60.8
MsG0280011292.01.T01 AT4G35920 30.667 150 80 5 22 168 291 419 3.78e-11 60.8
MsG0280011292.01.T01 AT4G35920 30.667 150 80 5 22 168 291 419 3.78e-11 60.8
MsG0280011292.01.T01 AT4G35920 30.667 150 80 5 22 168 291 419 3.78e-11 60.8
MsG0280011292.01.T01 AT4G35920 30.667 150 80 5 22 168 291 419 3.78e-11 60.8

Find 39 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAGATATTACCATTTGTT+TGG 0.364288 2:+82053786 None:intergenic
GTTAAGGAAGAAGTATGATT+TGG 0.371388 2:-82053017 MsG0280011292.01.T01:CDS
TTCAGAGAGCTCAAAATTAG+AGG 0.383494 2:-82052929 MsG0280011292.01.T01:CDS
TTTGTGCACACAATGGATTA+TGG 0.383643 2:-82053059 MsG0280011292.01.T01:CDS
TTGTGCACACAATGGATTAT+GGG 0.412784 2:-82053058 MsG0280011292.01.T01:CDS
ATAATGTAAGGTTGCCATCT+TGG 0.416334 2:-82053112 MsG0280011292.01.T01:intron
TCATACCTTGAGCCAACAAC+AGG 0.458603 2:+82053872 None:intergenic
GAGGGAGGATTGTTCAATGT+TGG 0.461435 2:+82052747 None:intergenic
AGAGGACTTGACCCTGCTCT+TGG 0.473756 2:-82052911 MsG0280011292.01.T01:intron
CAAAGTATAGAACAAAGTTA+AGG 0.474519 2:-82053033 MsG0280011292.01.T01:CDS
TGGACAGATAGCAGAAGTAT+TGG 0.475164 2:-82053227 MsG0280011292.01.T01:CDS
CAACAGCAGGAACCTGTTGT+TGG 0.477266 2:-82053884 MsG0280011292.01.T01:CDS
GTGAATTAAATACCAAGAGC+AGG 0.481342 2:+82052899 None:intergenic
CTAATACAATTCAGCATGTA+GGG 0.489705 2:-82053847 MsG0280011292.01.T01:CDS
TTAGACATGAATTGAGTTGA+GGG 0.500404 2:+82052729 None:intergenic
GTAGGGAGTCCATGGAGTAC+TGG 0.501789 2:-82053830 MsG0280011292.01.T01:CDS
AAGGAAGAAGTATGATTTGG+TGG 0.502714 2:-82053014 MsG0280011292.01.T01:CDS
GCTAATACAATTCAGCATGT+AGG 0.503756 2:-82053848 MsG0280011292.01.T01:CDS
ATCCATTGTGTGCACAAAGC+AGG 0.505668 2:+82053064 None:intergenic
CTCTCTGAACTCTTGACATA+GGG 0.516209 2:+82052943 None:intergenic
ACAAAGCAGGCATCATTAGC+AGG 0.519823 2:+82053077 None:intergenic
TTCAGCATGTAGGGAGTCCA+TGG 0.521718 2:-82053838 MsG0280011292.01.T01:CDS
TGTCATGAGAACCAAACAAA+TGG 0.529201 2:-82053797 MsG0280011292.01.T01:intron
GCTCTCTGAACTCTTGACAT+AGG 0.530518 2:+82052942 None:intergenic
CTTAGACATGAATTGAGTTG+AGG 0.545566 2:+82052728 None:intergenic
AGGAACCTGTTGTTGGCTCA+AGG 0.566558 2:-82053877 MsG0280011292.01.T01:CDS
TCAAATAATCCAGTACTCCA+TGG 0.579513 2:+82053821 None:intergenic
GGTAAATGAAGCTTCCAAGA+TGG 0.581380 2:+82053098 None:intergenic
GACATGAATTGAGTTGAGGG+AGG 0.606886 2:+82052732 None:intergenic
GGAGCAGAAGACTCAACAGC+AGG 0.615251 2:-82053897 MsG0280011292.01.T01:CDS
CAGATAGCAGAAGTATTGGA+TGG 0.622869 2:-82053223 MsG0280011292.01.T01:CDS
TTGAGTCTTCTGCTCCTCAG+TGG 0.624600 2:+82053904 None:intergenic
TGAATTAAATACCAAGAGCA+GGG 0.629149 2:+82052900 None:intergenic
ATCTGTCCAAATGTTACACA+AGG 0.643300 2:+82053241 None:intergenic
TGCCTGCTTTGTGCACACAA+TGG 0.656127 2:-82053066 MsG0280011292.01.T01:CDS
TGAGAAATCACATCTGAATG+TGG 0.657682 2:+82052986 None:intergenic
ATAGCAGAAGTATTGGATGG+TGG 0.672429 2:-82053220 MsG0280011292.01.T01:CDS
AAGGGAGATGCAGACCACTG+AGG 0.731299 2:-82053918 None:intergenic
TCTTGACATAGGGAACAACA+AGG 0.757057 2:+82052953 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATATATACCTTTTTTATA+TGG - Chr2:82053345-82053364 MsG0280011292.01.T01:intron 10.0%
!!! ATTTTATTTAATCAAATACA+TGG + Chr2:82053476-82053495 None:intergenic 10.0%
!! TTGTTAATTGTAATAATGTA+AGG - Chr2:82053512-82053531 MsG0280011292.01.T01:intron 15.0%
!! TTTATTCATCAAATATAAAG+TGG + Chr2:82053765-82053784 None:intergenic 15.0%
!!! TCATTTTCTCAAATTATTAT+CGG - Chr2:82053127-82053146 MsG0280011292.01.T01:intron 15.0%
!! ACAATGAAATAAAAATGTGT+TGG + Chr2:82053288-82053307 None:intergenic 20.0%
!! AGAAAAAACTTGATGAAATT+TGG - Chr2:82052959-82052978 MsG0280011292.01.T01:CDS 20.0%
! AAACAAACTAAGTAGTTCAA+TGG + Chr2:82052887-82052906 None:intergenic 25.0%
! AACAATTCATAGTTCATAGT+AGG + Chr2:82053227-82053246 None:intergenic 25.0%
! AATCAAATACATGGTGATTT+GGG + Chr2:82053467-82053486 None:intergenic 25.0%
! ACAATTCATAGTTCATAGTA+GGG + Chr2:82053226-82053245 None:intergenic 25.0%
! AGAAGATATTACCATTTGTT+TGG + Chr2:82052853-82052872 None:intergenic 25.0%
! ATTACTTAAGAACTTCAACA+AGG + Chr2:82052995-82053014 None:intergenic 25.0%
! ATTCATCAAATATAAAGTGG+AGG + Chr2:82053762-82053781 None:intergenic 25.0%
! CAAAGTATAGAACAAAGTTA+AGG - Chr2:82053603-82053622 MsG0280011292.01.T01:intron 25.0%
! TAATCAAATACATGGTGATT+TGG + Chr2:82053468-82053487 None:intergenic 25.0%
! TTGTTAAACTTGTAATATGC+AGG - Chr2:82053304-82053323 MsG0280011292.01.T01:intron 25.0%
!!! ATAACAAATTTTTGAGTGCA+GGG - Chr2:82053821-82053840 MsG0280011292.01.T01:CDS 25.0%
!!! TATAACAAATTTTTGAGTGC+AGG - Chr2:82053820-82053839 MsG0280011292.01.T01:CDS 25.0%
AGCTGCAAACCATATAAAAA+AGG + Chr2:82053357-82053376 None:intergenic 30.0%
CTAATACAATTCAGCATGTA+GGG - Chr2:82052789-82052808 MsG0280011292.01.T01:CDS 30.0%
TGAATTAAATACCAAGAGCA+GGG + Chr2:82053739-82053758 None:intergenic 30.0%
TTAAGTAATTCTTGAGCACA+TGG - Chr2:82053006-82053025 MsG0280011292.01.T01:CDS 30.0%
! ACACTTTCAATTTGAAGTGT+CGG + Chr2:82053054-82053073 None:intergenic 30.0%
! GTTAAGGAAGAAGTATGATT+TGG - Chr2:82053619-82053638 MsG0280011292.01.T01:intron 30.0%
! TTTTTGCCTTGTGTAACATT+TGG - Chr2:82053389-82053408 MsG0280011292.01.T01:intron 30.0%
!! TTAGACATGAATTGAGTTGA+GGG + Chr2:82053910-82053929 None:intergenic 30.0%
ATAATGTAAGGTTGCCATCT+TGG - Chr2:82053524-82053543 MsG0280011292.01.T01:intron 35.0%
ATCTGTCCAAATGTTACACA+AGG + Chr2:82053398-82053417 None:intergenic 35.0%
GCTAATACAATTCAGCATGT+AGG - Chr2:82052788-82052807 MsG0280011292.01.T01:CDS 35.0%
GTGAATTAAATACCAAGAGC+AGG + Chr2:82053740-82053759 None:intergenic 35.0%
TCAAATAATCCAGTACTCCA+TGG + Chr2:82052818-82052837 None:intergenic 35.0%
TGAGAAATCACATCTGAATG+TGG + Chr2:82053653-82053672 None:intergenic 35.0%
TGTCATGAGAACCAAACAAA+TGG - Chr2:82052839-82052858 MsG0280011292.01.T01:intron 35.0%
TGTTCATGTCATGTCTGTAT+TGG - Chr2:82053167-82053186 MsG0280011292.01.T01:intron 35.0%
TTCAGAGAGCTCAAAATTAG+AGG - Chr2:82053707-82053726 MsG0280011292.01.T01:intron 35.0%
! AAGGAAGAAGTATGATTTGG+TGG - Chr2:82053622-82053641 MsG0280011292.01.T01:intron 35.0%
! CTTAGACATGAATTGAGTTG+AGG + Chr2:82053911-82053930 None:intergenic 35.0%
! GGTGCTACATATATTTGTGA+CGG + Chr2:82053033-82053052 None:intergenic 35.0%
!! TTGTGCACACAATGGATTAT+GGG - Chr2:82053578-82053597 MsG0280011292.01.T01:intron 35.0%
!! TTTGTGCACACAATGGATTA+TGG - Chr2:82053577-82053596 MsG0280011292.01.T01:intron 35.0%
CTCTCTGAACTCTTGACATA+GGG + Chr2:82053696-82053715 None:intergenic 40.0%
GGTAAATGAAGCTTCCAAGA+TGG + Chr2:82053541-82053560 None:intergenic 40.0%
TCTTGACATAGGGAACAACA+AGG + Chr2:82053686-82053705 None:intergenic 40.0%
! TGGACAGATAGCAGAAGTAT+TGG - Chr2:82053409-82053428 MsG0280011292.01.T01:intron 40.0%
!! ATAGCAGAAGTATTGGATGG+TGG - Chr2:82053416-82053435 MsG0280011292.01.T01:intron 40.0%
!! CAGATAGCAGAAGTATTGGA+TGG - Chr2:82053413-82053432 MsG0280011292.01.T01:intron 40.0%
!!! ACAAATTTTTGAGTGCAGGG+TGG - Chr2:82053824-82053843 MsG0280011292.01.T01:CDS 40.0%
ACAAAGCAGGCATCATTAGC+AGG + Chr2:82053562-82053581 None:intergenic 45.0%
ATCCATTGTGTGCACAAAGC+AGG + Chr2:82053575-82053594 None:intergenic 45.0%
GAGGGAGGATTGTTCAATGT+TGG + Chr2:82053892-82053911 None:intergenic 45.0%
GCTCTCTGAACTCTTGACAT+AGG + Chr2:82053697-82053716 None:intergenic 45.0%
TCATACCTTGAGCCAACAAC+AGG + Chr2:82052767-82052786 None:intergenic 45.0%
! GGTGATTTGGGAGTTAGAGA+GGG + Chr2:82053455-82053474 None:intergenic 45.0%
! TGGTGATTTGGGAGTTAGAG+AGG + Chr2:82053456-82053475 None:intergenic 45.0%
!! GACATGAATTGAGTTGAGGG+AGG + Chr2:82053907-82053926 None:intergenic 45.0%
!!! TTTTTGAGTGCAGGGTGGAA+TGG - Chr2:82053829-82053848 MsG0280011292.01.T01:CDS 45.0%
CAACAGCAGGAACCTGTTGT+TGG - Chr2:82052752-82052771 MsG0280011292.01.T01:CDS 50.0%
TGCCTGCTTTGTGCACACAA+TGG - Chr2:82053570-82053589 MsG0280011292.01.T01:intron 50.0%
TGTCAGACACAGATGACGTG+TGG + Chr2:82053079-82053098 None:intergenic 50.0%
TTCAGCATGTAGGGAGTCCA+TGG - Chr2:82052798-82052817 MsG0280011292.01.T01:intron 50.0%
TTGAGTCTTCTGCTCCTCAG+TGG + Chr2:82052735-82052754 None:intergenic 50.0%
!! AGGAACCTGTTGTTGGCTCA+AGG - Chr2:82052759-82052778 MsG0280011292.01.T01:CDS 50.0%
AGAGGACTTGACCCTGCTCT+TGG - Chr2:82053725-82053744 MsG0280011292.01.T01:intron 55.0%
GGAGCAGAAGACTCAACAGC+AGG - Chr2:82052739-82052758 MsG0280011292.01.T01:CDS 55.0%
GTAGGGAGTCCATGGAGTAC+TGG - Chr2:82052806-82052825 MsG0280011292.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 82052725 82053933 82052725 ID=MsG0280011292.01;Name=MsG0280011292.01
Chr2 mRNA 82052725 82053933 82052725 ID=MsG0280011292.01.T01;Parent=MsG0280011292.01;Name=MsG0280011292.01.T01;_AED=0.17;_eAED=0.18;_QI=0|0|0|1|1|1|4|0|170
Chr2 exon 82053798 82053933 82053798 ID=MsG0280011292.01.T01:exon:12188;Parent=MsG0280011292.01.T01
Chr2 exon 82053212 82053283 82053212 ID=MsG0280011292.01.T01:exon:12187;Parent=MsG0280011292.01.T01
Chr2 exon 82052912 82053124 82052912 ID=MsG0280011292.01.T01:exon:12186;Parent=MsG0280011292.01.T01
Chr2 exon 82052725 82052816 82052725 ID=MsG0280011292.01.T01:exon:12185;Parent=MsG0280011292.01.T01
Chr2 CDS 82053798 82053933 82053798 ID=MsG0280011292.01.T01:cds;Parent=MsG0280011292.01.T01
Chr2 CDS 82053212 82053283 82053212 ID=MsG0280011292.01.T01:cds;Parent=MsG0280011292.01.T01
Chr2 CDS 82052912 82053124 82052912 ID=MsG0280011292.01.T01:cds;Parent=MsG0280011292.01.T01
Chr2 CDS 82052725 82052816 82052725 ID=MsG0280011292.01.T01:cds;Parent=MsG0280011292.01.T01
Gene Sequence

>MsG0280011292.01.T01

ATGCAGACCACTGAGGAGCAGAAGACTCAACAGCAGGAACCTGTTGTTGGCTCAAGGTATGAAGCTAATACAATTCAGCATGTAGGGAGTCCATGGAGTACTGGATTATTTGACTGTCATGAGAACCAAACAAATGCTATTATGACAGCATTTTTGCCTTGTGTAACATTTGGACAGATAGCAGAAGTATTGGATGGTGGAGAACTTAGTTGCCATCTTGGAAGCTTCATTTACCTGCTAATGATGCCTGCTTTGTGCACACAATGGATTATGGGTTCAAAGTATAGAACAAAGTTAAGGAAGAAGTATGATTTGGTGGAAGCTCCACATTCAGATGTGATTTCTCACATCTTTTGTCCTTGTTGTTCCCTATGTCAAGAGTTCAGAGAGCTCAAAATTAGAGGACTTGACCCTGCTCTTGGGTGGAATGGTATTCTTGCACTACAGCATTCAAAACAGCAAAGTGATCCAACATTGAACAATCCTCCCTCAACTCAATTCATGTCTAAGTGA

Protein sequence

>MsG0280011292.01.T01

MQTTEEQKTQQQEPVVGSRYEANTIQHVGSPWSTGLFDCHENQTNAIMTAFLPCVTFGQIAEVLDGGELSCHLGSFIYLLMMPALCTQWIMGSKYRTKLRKKYDLVEAPHSDVISHIFCPCCSLCQEFRELKIRGLDPALGWNGILALQHSKQQSDPTLNNPPSTQFMSK*