AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene56779

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene56779.t1 MTR_5g017210 56.604 265 85 12 1 253 1 247 6.89e-64 200
MS.gene56779.t1 MTR_3g101810 55.656 221 64 9 21 214 40 253 4.58e-62 196
MS.gene56779.t1 MTR_8g093500 75.824 91 22 0 108 198 87 177 4.73e-46 155
MS.gene56779.t1 MTR_2g100490 52.027 148 62 4 91 229 242 389 1.70e-29 114
MS.gene56779.t1 MTR_8g015450 59.596 99 36 1 107 201 296 394 2.61e-27 108
MS.gene56779.t1 MTR_7g069590 66.667 60 20 0 141 200 32 91 8.48e-23 91.3
MS.gene56779.t1 MTR_5g079500 54.430 79 34 1 121 197 202 280 1.06e-19 86.7
MS.gene56779.t1 MTR_1g106460 52.239 67 32 0 131 197 234 300 4.14e-17 79.7
MS.gene56779.t1 MTR_1g018090 60.714 56 22 0 142 197 281 336 5.19e-17 79.7
MS.gene56779.t1 MTR_5g005110 62.963 54 20 0 144 197 233 286 7.11e-17 79.0
MS.gene56779.t1 MTR_1g106470 60.714 56 22 0 142 197 203 258 1.81e-16 77.4
MS.gene56779.t1 MTR_3g103030 55.556 63 28 0 135 197 229 291 4.70e-16 76.6
MS.gene56779.t1 MTR_1g080890 51.429 70 34 0 128 197 186 255 5.58e-15 73.9
MS.gene56779.t1 MTR_4g131160 50.667 75 37 0 123 197 187 261 1.60e-14 72.8
MS.gene56779.t1 MTR_4g131160 50.667 75 37 0 123 197 184 258 1.68e-14 72.8
MS.gene56779.t1 MTR_1g106480 64.444 45 16 0 153 197 87 131 1.81e-13 66.6
MS.gene56779.t1 MTR_2g067000 48.000 75 32 1 131 198 146 220 4.10e-13 68.2
MS.gene56779.t1 MTR_1g060700 57.407 54 23 0 145 198 357 410 2.37e-12 66.6
MS.gene56779.t1 MTR_4g033295 57.143 56 23 1 145 199 128 183 7.97e-12 62.8
MS.gene56779.t1 MTR_4g033295 57.407 54 22 1 145 197 128 181 2.16e-11 61.6
MS.gene56779.t1 MTR_2g089070 48.148 54 28 0 145 198 146 199 7.06e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene56779.t1 AT5G67060 56.731 208 59 8 1 199 1 186 7.79e-50 164
MS.gene56779.t1 AT3G50330 61.828 186 55 7 17 199 11 183 1.07e-49 163
MS.gene56779.t1 AT5G67060 57.979 188 56 6 21 199 1 174 9.61e-48 158
MS.gene56779.t1 AT4G00120 68.750 96 27 1 110 202 87 182 4.50e-39 135
MS.gene56779.t1 AT3G21330 64.894 94 33 0 107 200 241 334 3.12e-36 132
MS.gene56779.t1 AT5G09750 76.667 90 21 0 108 197 92 181 1.87e-34 124
MS.gene56779.t1 AT5G01305 69.492 59 18 0 136 194 38 96 1.16e-21 89.0
MS.gene56779.t1 AT5G37800 36.145 166 77 5 35 197 124 263 3.61e-19 85.1
MS.gene56779.t1 AT5G43175 50.725 69 34 0 129 197 126 194 3.16e-18 81.3
MS.gene56779.t1 AT4G33880 59.677 62 25 0 136 197 267 328 3.32e-18 83.2
MS.gene56779.t1 AT1G27740 52.941 68 32 0 130 197 162 229 8.15e-18 80.5
MS.gene56779.t1 AT1G66470 36.879 141 69 4 72 197 122 257 8.17e-18 81.3
MS.gene56779.t1 AT2G14760 58.065 62 26 0 136 197 238 299 3.11e-17 80.1
MS.gene56779.t1 AT2G24260 41.071 112 47 3 133 226 28 138 1.08e-16 77.4
MS.gene56779.t1 AT2G24260 41.071 112 47 3 133 226 131 241 4.32e-16 77.0
MS.gene56779.t1 AT4G30980 46.591 88 45 1 131 216 126 213 1.09e-15 75.5
MS.gene56779.t1 AT4G30980 46.591 88 45 1 131 216 174 261 2.00e-15 75.1
MS.gene56779.t1 AT5G58010 53.030 66 31 0 132 197 96 161 4.88e-14 70.9
MS.gene56779.t1 AT2G14760 48.000 75 26 1 136 197 238 312 5.66e-14 70.9

Find 57 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTGAAGCAGTGTCCATTT+TGG 0.242900 8.2:+25747641 None:intergenic
AATAATGTGAATTATAATTC+TGG 0.269339 8.2:-25747483 MS.gene56779:CDS
CTTCGGCGGCCTAACGGATT+CGG 0.285239 8.2:+25747773 None:intergenic
AAAGGTTGATCAGAGAATTC+AGG 0.327420 8.2:+25748083 None:intergenic
CAGTGTTGTTGGTGATTTCT+TGG 0.347528 8.2:+25748039 None:intergenic
GTGGAGATGATAGTGCATTT+TGG 0.349652 8.2:+25747997 None:intergenic
GTGTAGCTGCTAGGCATAGA+AGG 0.352095 8.2:-25747716 MS.gene56779:CDS
CACATTGGTGATGGATTCAT+TGG 0.352366 8.2:-25747531 MS.gene56779:CDS
AAAGGATAAGTGAGAGGATA+AGG 0.357712 8.2:-25747692 MS.gene56779:CDS
TTCGGCGGCCTAACGGATTC+GGG 0.378261 8.2:+25747774 None:intergenic
AGTACCTGGTGGAACCAAAA+TGG 0.383832 8.2:-25747655 MS.gene56779:CDS
TAACTAGCTAAGCAATTGTT+TGG 0.384797 8.2:+25747413 None:intergenic
CCTTCTCTTCGGCGGCCTAA+CGG 0.391457 8.2:+25747767 None:intergenic
ATCTTCACATTCCTTCTCTT+CGG 0.392038 8.2:+25747756 None:intergenic
TGCCTAGCAGCTACACTTTG+TGG 0.400476 8.2:+25747723 None:intergenic
TAATTCTGGTTTGATGATGA+AGG 0.423318 8.2:-25747469 MS.gene56779:CDS
TCAATATTATTCAAAGTTTG+TGG 0.430454 8.2:+25747978 None:intergenic
AAAGAATTCGACTGCGAGTA+AGG 0.432337 8.2:+25747873 None:intergenic
GATTCGGGATCGATATGTAT+AGG 0.452777 8.2:+25747789 None:intergenic
AAGGTTGATCAGAGAATTCA+GGG 0.455273 8.2:+25748084 None:intergenic
GCTAAGCAATTGTTTGGAAG+TGG 0.457304 8.2:+25747419 None:intergenic
GTTGGTGATTTCTTGGTAAG+TGG 0.468287 8.2:+25748046 None:intergenic
CCGTTAGGCCGCCGAAGAGA+AGG 0.485491 8.2:-25747767 MS.gene56779:CDS
AAATAATGGAACAGTGTTGT+TGG 0.485998 8.2:+25748028 None:intergenic
GATAGCAATGATGATGCAAA+TGG 0.487640 8.2:-25748114 MS.gene56779:CDS
GTGGAACCCACCATTTGAAA+AGG 0.490966 8.2:+25747438 None:intergenic
GTGGTGGGAGTGTTATAAAA+AGG 0.493586 8.2:+25748065 None:intergenic
ATATCGATCCCGAATCCGTT+AGG 0.506193 8.2:-25747782 MS.gene56779:CDS
GTGATTTCTTGGTAAGTGGT+GGG 0.510263 8.2:+25748050 None:intergenic
GTAAGGAAATGATGAAGAGT+TGG 0.515713 8.2:+25747890 None:intergenic
TTCACACGTTGGAACAAGTA+GGG 0.518979 8.2:-25747575 MS.gene56779:CDS
GAATTCGATGGCAGCGATGA+GGG 0.520911 8.2:-25747841 MS.gene56779:CDS
GTGTGATATTCAAGTGTTGT+TGG 0.525349 8.2:+25747928 None:intergenic
GGTGATTTCTTGGTAAGTGG+TGG 0.542766 8.2:+25748049 None:intergenic
TTGGTGATGGATTCATTGGA+GGG 0.543517 8.2:-25747527 MS.gene56779:CDS
ATTGGTGATGGATTCATTGG+AGG 0.557738 8.2:-25747528 MS.gene56779:CDS
GAAGAGTTGGTTTGAAGAGA+TGG 0.565464 8.2:+25747903 None:intergenic
TTCACATTCCTTCTCTTCGG+CGG 0.566092 8.2:+25747759 None:intergenic
GAAGGGAAAGGATAAGTGAG+AGG 0.571416 8.2:-25747698 MS.gene56779:CDS
TTGACATTGGAGTGTAGAAG+TGG 0.581516 8.2:+25747954 None:intergenic
AATTCTGGTTTGATGATGAA+GGG 0.584821 8.2:-25747468 MS.gene56779:CDS
AGTGAAAACTGACGGAAGCA+TGG 0.586477 8.2:-25748141 MS.gene56779:CDS
GTTCACACGTTGGAACAAGT+AGG 0.594798 8.2:-25747576 MS.gene56779:CDS
TCACAATCACACATTGGTGA+TGG 0.595812 8.2:-25747540 MS.gene56779:CDS
GAAGAAACAAGTTCACACGT+TGG 0.614768 8.2:-25747586 MS.gene56779:CDS
AGAATTCGATGGCAGCGATG+AGG 0.615506 8.2:-25747842 MS.gene56779:CDS
TGTAGCTGCTAGGCATAGAA+GGG 0.616015 8.2:-25747715 MS.gene56779:CDS
CTGCTAGGCATAGAAGGGAA+AGG 0.619057 8.2:-25747710 MS.gene56779:CDS
ATCCACAAAGTGTAGCTGCT+AGG 0.619623 8.2:-25747725 MS.gene56779:CDS
AAGGAATGTGAAGATATCAA+AGG 0.620019 8.2:-25747748 MS.gene56779:CDS
GTGTTGTTGGAAATTGACAT+TGG 0.623317 8.2:+25747941 None:intergenic
GTCGACATAGTGAAAACTGA+CGG 0.646360 8.2:-25748149 MS.gene56779:CDS
GAGTTGGTTTGAAGAGATGG+TGG 0.649591 8.2:+25747906 None:intergenic
AATAGATCACAATCACACAT+TGG 0.653131 8.2:-25747546 MS.gene56779:CDS
TCACACGTTGGAACAAGTAG+GGG 0.679972 8.2:-25747574 MS.gene56779:CDS
ATATTACAAAGATTAGTACC+TGG 0.683168 8.2:-25747669 MS.gene56779:CDS
TTACAAAGATTAGTACCTGG+TGG 0.689802 8.2:-25747666 MS.gene56779:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATGTGAATTATAATTC+TGG - chr8.2:25748088-25748107 MS.gene56779:CDS 15.0%
!! TCAATATTATTCAAAGTTTG+TGG + chr8.2:25747596-25747615 None:intergenic 20.0%
!!! TTTTGGTTAAGGTTAAATAA+TGG + chr8.2:25747560-25747579 None:intergenic 20.0%
! ATATTACAAAGATTAGTACC+TGG - chr8.2:25747902-25747921 MS.gene56779:CDS 25.0%
!!! TTTTGAAAAGAAGAATTCGA+TGG - chr8.2:25747718-25747737 MS.gene56779:CDS 25.0%
AAGGAATGTGAAGATATCAA+AGG - chr8.2:25747823-25747842 MS.gene56779:CDS 30.0%
AATAGATCACAATCACACAT+TGG - chr8.2:25748025-25748044 MS.gene56779:CDS 30.0%
! AAATAATGGAACAGTGTTGT+TGG + chr8.2:25747546-25747565 None:intergenic 30.0%
!! AATTCTGGTTTGATGATGAA+GGG - chr8.2:25748103-25748122 MS.gene56779:CDS 30.0%
!! TAATTCTGGTTTGATGATGA+AGG - chr8.2:25748102-25748121 MS.gene56779:CDS 30.0%
!!! ATGATAGTGCATTTTGGTTA+AGG + chr8.2:25747571-25747590 None:intergenic 30.0%
AAAGGATAAGTGAGAGGATA+AGG - chr8.2:25747879-25747898 MS.gene56779:CDS 35.0%
ATCTTCACATTCCTTCTCTT+CGG + chr8.2:25747818-25747837 None:intergenic 35.0%
GTAAGGAAATGATGAAGAGT+TGG + chr8.2:25747684-25747703 None:intergenic 35.0%
TTACAAAGATTAGTACCTGG+TGG - chr8.2:25747905-25747924 MS.gene56779:CDS 35.0%
! AAAGGTTGATCAGAGAATTC+AGG + chr8.2:25747491-25747510 None:intergenic 35.0%
! AAGGTTGATCAGAGAATTCA+GGG + chr8.2:25747490-25747509 None:intergenic 35.0%
! GATAGCAATGATGATGCAAA+TGG - chr8.2:25747457-25747476 MS.gene56779:CDS 35.0%
! GTGTGATATTCAAGTGTTGT+TGG + chr8.2:25747646-25747665 None:intergenic 35.0%
! GTGTTGTTGGAAATTGACAT+TGG + chr8.2:25747633-25747652 None:intergenic 35.0%
! TGTCAACCTTTTCAAATGGT+GGG - chr8.2:25748127-25748146 MS.gene56779:CDS 35.0%
! TTGTCAACCTTTTCAAATGG+TGG - chr8.2:25748126-25748145 MS.gene56779:CDS 35.0%
AAAGAATTCGACTGCGAGTA+AGG + chr8.2:25747701-25747720 None:intergenic 40.0%
GAAGAAACAAGTTCACACGT+TGG - chr8.2:25747985-25748004 MS.gene56779:CDS 40.0%
GATTCGGGATCGATATGTAT+AGG + chr8.2:25747785-25747804 None:intergenic 40.0%
GCTAAGCAATTGTTTGGAAG+TGG + chr8.2:25748155-25748174 None:intergenic 40.0%
GTCGACATAGTGAAAACTGA+CGG - chr8.2:25747422-25747441 MS.gene56779:CDS 40.0%
GTGATTTCTTGGTAAGTGGT+GGG + chr8.2:25747524-25747543 None:intergenic 40.0%
TCACAATCACACATTGGTGA+TGG - chr8.2:25748031-25748050 MS.gene56779:CDS 40.0%
TTCACACGTTGGAACAAGTA+GGG - chr8.2:25747996-25748015 MS.gene56779:CDS 40.0%
TTGACATTGGAGTGTAGAAG+TGG + chr8.2:25747620-25747639 None:intergenic 40.0%
! CATTGAAGCAGTGTCCATTT+TGG + chr8.2:25747933-25747952 None:intergenic 40.0%
! GGGTTGTCAACCTTTTCAAA+TGG - chr8.2:25748123-25748142 MS.gene56779:CDS 40.0%
!! ATTGGTGATGGATTCATTGG+AGG - chr8.2:25748043-25748062 MS.gene56779:CDS 40.0%
!! CACATTGGTGATGGATTCAT+TGG - chr8.2:25748040-25748059 MS.gene56779:CDS 40.0%
!! CAGTGTTGTTGGTGATTTCT+TGG + chr8.2:25747535-25747554 None:intergenic 40.0%
!! GAAGAGTTGGTTTGAAGAGA+TGG + chr8.2:25747671-25747690 None:intergenic 40.0%
!! GTGGAGATGATAGTGCATTT+TGG + chr8.2:25747577-25747596 None:intergenic 40.0%
!! GTGGTGGGAGTGTTATAAAA+AGG + chr8.2:25747509-25747528 None:intergenic 40.0%
!! GTTGGTGATTTCTTGGTAAG+TGG + chr8.2:25747528-25747547 None:intergenic 40.0%
!! TTGGTGATGGATTCATTGGA+GGG - chr8.2:25748044-25748063 MS.gene56779:CDS 40.0%
AGTACCTGGTGGAACCAAAA+TGG - chr8.2:25747916-25747935 MS.gene56779:CDS 45.0%
AGTGAAAACTGACGGAAGCA+TGG - chr8.2:25747430-25747449 MS.gene56779:CDS 45.0%
ATATCGATCCCGAATCCGTT+AGG - chr8.2:25747789-25747808 MS.gene56779:CDS 45.0%
ATCCACAAAGTGTAGCTGCT+AGG - chr8.2:25747846-25747865 MS.gene56779:CDS 45.0%
GAAGGGAAAGGATAAGTGAG+AGG - chr8.2:25747873-25747892 MS.gene56779:CDS 45.0%
GGTGATTTCTTGGTAAGTGG+TGG + chr8.2:25747525-25747544 None:intergenic 45.0%
GTGGAACCCACCATTTGAAA+AGG + chr8.2:25748136-25748155 None:intergenic 45.0%
GTTCACACGTTGGAACAAGT+AGG - chr8.2:25747995-25748014 MS.gene56779:CDS 45.0%
TCACACGTTGGAACAAGTAG+GGG - chr8.2:25747997-25748016 MS.gene56779:CDS 45.0%
TGTAGCTGCTAGGCATAGAA+GGG - chr8.2:25747856-25747875 MS.gene56779:CDS 45.0%
TTCACATTCCTTCTCTTCGG+CGG + chr8.2:25747815-25747834 None:intergenic 45.0%
!! GAGTTGGTTTGAAGAGATGG+TGG + chr8.2:25747668-25747687 None:intergenic 45.0%
AGAATTCGATGGCAGCGATG+AGG - chr8.2:25747729-25747748 MS.gene56779:CDS 50.0%
CTGCTAGGCATAGAAGGGAA+AGG - chr8.2:25747861-25747880 MS.gene56779:CDS 50.0%
GAATTCGATGGCAGCGATGA+GGG - chr8.2:25747730-25747749 MS.gene56779:CDS 50.0%
GTGTAGCTGCTAGGCATAGA+AGG - chr8.2:25747855-25747874 MS.gene56779:CDS 50.0%
TGCCTAGCAGCTACACTTTG+TGG + chr8.2:25747851-25747870 None:intergenic 50.0%
!!! GTGTCCATTTTGGTTCCACC+AGG + chr8.2:25747923-25747942 None:intergenic 50.0%
CCTTCTCTTCGGCGGCCTAA+CGG + chr8.2:25747807-25747826 None:intergenic 60.0%
!! CTTCGGCGGCCTAACGGATT+CGG + chr8.2:25747801-25747820 None:intergenic 60.0%
!! TTCGGCGGCCTAACGGATTC+GGG + chr8.2:25747800-25747819 None:intergenic 60.0%
CCGTTAGGCCGCCGAAGAGA+AGG - chr8.2:25747804-25747823 MS.gene56779:CDS 65.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 25747416 25748177 25747416 ID=MS.gene56779
chr8.2 mRNA 25747416 25748177 25747416 ID=MS.gene56779.t1;Parent=MS.gene56779
chr8.2 exon 25747416 25748177 25747416 ID=MS.gene56779.t1.exon1;Parent=MS.gene56779.t1
chr8.2 CDS 25747416 25748177 25747416 ID=cds.MS.gene56779.t1;Parent=MS.gene56779.t1
Gene Sequence

>MS.gene56779

ATGGATGTCGACATAGTGAAAACTGACGGAAGCATGGACATGATAGCAATGATGATGCAAATGGAAAAGTTCCCTGAATTCTCTGATCAACCTTTTTATAACACTCCCACCACTTACCAAGAAATCACCAACAACACTGTTCCATTATTTAACCTTAACCAAAATGCACTATCATCTCCACAAACTTTGAATAATATTGATCCACTTCTACACTCCAATGTCAATTTCCAACAACACTTGAATATCACACCACCATCTCTTCAAACCAACTCTTCATCATTTCCTTACTCGCAGTCGAATTCTTTTGAAAAGAAGAATTCGATGGCAGCGATGAGGGAAATGATATTTAGAATAGCAGTGATGCAACCTATACATATCGATCCCGAATCCGTTAGGCCGCCGAAGAGAAGGAATGTGAAGATATCAAAGGATCCACAAAGTGTAGCTGCTAGGCATAGAAGGGAAAGGATAAGTGAGAGGATAAGGATATTACAAAGATTAGTACCTGGTGGAACCAAAATGGACACTGCTTCAATGTTAGATGAAGCTATACATTATGTGAAGTTTTTGAAGAAACAAGTTCACACGTTGGAACAAGTAGGGGCTAATAATAGATCACAATCACACATTGGTGATGGATTCATTGGAGGGAATAATATGATGAACAATTTTAATAATGTGAATTATAATTCTGGTTTGATGATGAAGGGTTGTCAACCTTTTCAAATGGTGGGTTCCACTTCCAAACAATTGCTTAGCTAG
Protein sequence

>MS.gene56779.t1

MDVDIVKTDGSMDMIAMMMQMEKFPEFSDQPFYNTPTTYQEITNNTVPLFNLNQNALSSPQTLNNIDPLLHSNVNFQQHLNITPPSLQTNSSSFPYSQSNSFEKKNSMAAMREMIFRIAVMQPIHIDPESVRPPKRRNVKISKDPQSVAARHRRERISERIRILQRLVPGGTKMDTASMLDEAIHYVKFLKKQVHTLEQVGANNRSQSHIGDGFIGGNNMMNNFNNVNYNSGLMMKGCQPFQMVGSTSKQLLS