AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069773

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069773.t1 MTR_6g066190 80.645 217 39 1 1 214 1 217 1.97e-125 353
MS.gene069773.t1 MTR_6g066210 79.167 216 43 1 1 214 1 216 5.21e-125 352
MS.gene069773.t1 MTR_6g009650 78.505 214 42 1 1 214 1 210 5.36e-122 344
MS.gene069773.t1 MTR_6g009563 77.833 203 44 1 1 202 1 203 1.68e-115 328
MS.gene069773.t1 MTR_6g059730 56.872 211 85 3 1 207 1 209 4.55e-68 208
MS.gene069773.t1 MTR_6g059680 57.009 214 86 3 1 208 1 214 1.16e-60 189
MS.gene069773.t1 MTR_6g017225 51.835 218 91 8 1 208 1 214 2.69e-59 191
MS.gene069773.t1 MTR_1g035770 44.444 216 108 7 1 206 1 214 4.90e-49 160
MS.gene069773.t1 MTR_6g059810 45.833 216 102 7 1 204 1 213 1.16e-46 153
MS.gene069773.t1 MTR_6g065460 46.667 210 98 7 1 202 1 204 2.46e-39 134
MS.gene069773.t1 MTR_6g059650 41.304 184 95 6 27 203 26 203 3.25e-32 116
MS.gene069773.t1 MTR_6g059530 43.750 208 98 9 1 202 1 195 3.35e-32 116
MS.gene069773.t1 MTR_6g059410 43.137 204 100 7 5 202 1 194 1.37e-30 112
MS.gene069773.t1 MTR_6g065460 41.546 207 89 6 1 202 1 180 5.49e-29 107
MS.gene069773.t1 MTR_6g059760 40.271 221 114 10 1 212 1 212 7.28e-29 107
MS.gene069773.t1 MTR_3g463590 38.421 190 100 7 29 209 29 210 1.67e-22 91.3
MS.gene069773.t1 MTR_6g044780 36.444 225 118 12 1 209 1 216 4.51e-22 90.5
MS.gene069773.t1 MTR_6g045097 36.889 225 117 12 1 209 1 216 8.73e-22 89.7
MS.gene069773.t1 MTR_6g044810 37.391 230 109 13 1 209 1 216 1.05e-21 89.4
MS.gene069773.t1 MTR_6g045403 36.239 218 115 9 1 205 1 207 1.11e-21 89.4
MS.gene069773.t1 MTR_6g045433 36.752 234 110 11 1 209 1 221 1.12e-21 89.4
MS.gene069773.t1 MTR_1g057110 35.238 210 108 13 1 204 1 188 2.80e-16 73.9
MS.gene069773.t1 MTR_2g072980 33.175 211 109 12 1 200 5 194 6.10e-13 65.5
MS.gene069773.t1 MTR_6g078070 31.863 204 125 9 7 202 6 203 1.11e-12 64.7
MS.gene069773.t1 MTR_6g065570 38.750 80 40 1 19 89 17 96 3.39e-12 60.8
MS.gene069773.t1 MTR_2g073010 32.536 209 113 11 4 202 8 198 2.29e-11 60.8
MS.gene069773.t1 MTR_6g059755 38.462 130 70 6 88 212 5 129 7.51e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069773.t1 AT1G17860 32.020 203 122 8 6 202 3 195 9.61e-14 67.4

Find 55 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATACTAGGGTTATCACTTTC+TGG 0.161357 6.2:-71592003 None:intergenic
CTGAATCACCAACTTTGTTT+AGG 0.216525 6.2:-71592038 None:intergenic
ATGGATCTGGTAATGTTTAT+AGG 0.227385 6.2:+71592319 MS.gene069773:CDS
ATACAAGATATTGCTGTAAT+AGG 0.268557 6.2:+71592078 MS.gene069773:CDS
CCTCTGATTGTCTCTATTCC+AGG 0.274561 6.2:-71592276 None:intergenic
ACTGGAGATTGTGCTTATAT+TGG 0.278706 6.2:+71592363 MS.gene069773:CDS
TCTAGTATGGTGAATTTAAC+TGG 0.302951 6.2:-71592105 None:intergenic
TGAATCACCAACTTTGTTTA+GGG 0.308935 6.2:-71592037 None:intergenic
AGCATTGTTTGGTGAAATAT+TGG 0.343828 6.2:-71591917 None:intergenic
GAGGGATAAAATAGGTTTCA+TGG 0.353544 6.2:-71591863 None:intergenic
TACTAGAACTCGTACTAAAT+AGG 0.359653 6.2:-71592501 None:intergenic
GAGCAAGTATTGGACATAAA+TGG 0.360089 6.2:+71591943 MS.gene069773:CDS
GGACTGCAACTGTTTAGTTC+TGG 0.363850 6.2:+71592384 MS.gene069773:CDS
TGGATCTGGTAATGTTTATA+GGG 0.365536 6.2:+71592320 MS.gene069773:CDS
GATGCTGCATCTATTAAATC+TGG 0.371349 6.2:+71592465 MS.gene069773:CDS
TCTATTCCAGGATAGTTTGC+AGG 0.388966 6.2:-71592264 None:intergenic
TATTGGTGATAAAAGCAAAT+AGG 0.390605 6.2:-71591900 None:intergenic
TTTGATGATTCAGCACAATC+TGG 0.398835 6.2:-71592186 None:intergenic
ACTTGCTCAACAGCATTGTT+TGG 0.401563 6.2:-71591928 None:intergenic
TCTGGTAATGTTTATAGGGT+TGG 0.416063 6.2:+71592324 MS.gene069773:CDS
GAAAGGGTGAGGGATAAAAT+AGG 0.419184 6.2:-71591871 None:intergenic
CAACTAGCTTGTGTTGGTAT+TGG 0.427835 6.2:+71592237 MS.gene069773:CDS
CTAGCTTGTGTTGGTATTGG+TGG 0.441922 6.2:+71592240 MS.gene069773:CDS
TATTGGCCACCAGGGGTAAG+GGG 0.451454 6.2:-71591970 None:intergenic
GGTGGTCCTGCAAACTATCC+TGG 0.456364 6.2:+71592258 MS.gene069773:CDS
TTAATAGTGAAGCATGGATC+TGG 0.460803 6.2:+71592306 MS.gene069773:CDS
AGTATTGGCCACCAGGGGTA+AGG 0.463701 6.2:-71591972 None:intergenic
AGGGTTAGTCCTCCAATACT+AGG 0.474991 6.2:-71592018 None:intergenic
ATTGGCCACCAGGGGTAAGG+GGG 0.476496 6.2:-71591969 None:intergenic
AGCAAATAGGAAGAAGGAAA+GGG 0.481208 6.2:-71591887 None:intergenic
CAATGCTGTTGAGCAAGTAT+TGG 0.481709 6.2:+71591933 MS.gene069773:CDS
TTTCTGGTAAAATGTAGTAT+TGG 0.484403 6.2:-71591987 None:intergenic
AAGCAAATAGGAAGAAGGAA+AGG 0.491844 6.2:-71591888 None:intergenic
GAAAGTGATAACCCTAGTAT+TGG 0.495230 6.2:+71592006 MS.gene069773:CDS
AAAATGTAGTATTGGCCACC+AGG 0.496116 6.2:-71591979 None:intergenic
ATTGTGCTGAATCATCAAAA+TGG 0.497723 6.2:+71592190 MS.gene069773:CDS
GTATTGGCCACCAGGGGTAA+GGG 0.502071 6.2:-71591971 None:intergenic
AGTGATAACCCTAGTATTGG+AGG 0.519798 6.2:+71592009 MS.gene069773:CDS
GATAAAAGCAAATAGGAAGA+AGG 0.526672 6.2:-71591893 None:intergenic
ATATCTTGTATGACAGTGAC+TGG 0.527567 6.2:-71592066 None:intergenic
CTGTTTAGTTCTGGTGAAGG+AGG 0.540270 6.2:+71592393 MS.gene069773:CDS
ATAGGAAGAAGGAAAGGGTG+AGG 0.540395 6.2:-71591882 None:intergenic
GGACTAACCCTAAACAAAGT+TGG 0.540688 6.2:+71592030 MS.gene069773:CDS
GGGTTAGTCCTCCAATACTA+GGG 0.545234 6.2:-71592017 None:intergenic
ATCACTAGTAACATCGTGAC+AGG 0.548264 6.2:+71592132 MS.gene069773:CDS
ATACAACAGAATAAGCATCA+AGG 0.559870 6.2:-71592437 None:intergenic
TAGGAAGAAGGAAAGGGTGA+GGG 0.562566 6.2:-71591881 None:intergenic
TACAACAGAATAAGCATCAA+GGG 0.562914 6.2:-71592436 None:intergenic
TTGGCCACCAGGGGTAAGGG+GGG 0.568615 6.2:-71591968 None:intergenic
AGTGAACTCGATCTCAAGAT+CGG 0.599342 6.2:-71592157 None:intergenic
AATACTCAACTAGCTTGTGT+TGG 0.603192 6.2:+71592231 MS.gene069773:CDS
CAACTGTTTAGTTCTGGTGA+AGG 0.626732 6.2:+71592390 MS.gene069773:CDS
AAATGTAGTATTGGCCACCA+GGG 0.645099 6.2:-71591978 None:intergenic
CCTGGAATAGAGACAATCAG+AGG 0.673236 6.2:+71592276 MS.gene069773:CDS
AATGTAGTATTGGCCACCAG+GGG 0.700291 6.2:-71591977 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATACAAGATATTGCTGTAAT+AGG + chr6.2:71592078-71592097 MS.gene069773:CDS 25.0%
!! AAGTTTTTAATAGTGAAGCA+TGG + chr6.2:71592300-71592319 MS.gene069773:CDS 25.0%
!! TATTGGTGATAAAAGCAAAT+AGG - chr6.2:71591903-71591922 None:intergenic 25.0%
!! TTTCTGGTAAAATGTAGTAT+TGG - chr6.2:71591990-71592009 None:intergenic 25.0%
ATACAACAGAATAAGCATCA+AGG - chr6.2:71592440-71592459 None:intergenic 30.0%
ATTGTGCTGAATCATCAAAA+TGG + chr6.2:71592190-71592209 MS.gene069773:CDS 30.0%
GATAAAAGCAAATAGGAAGA+AGG - chr6.2:71591896-71591915 None:intergenic 30.0%
TACAACAGAATAAGCATCAA+GGG - chr6.2:71592439-71592458 None:intergenic 30.0%
TCTAGTATGGTGAATTTAAC+TGG - chr6.2:71592108-71592127 None:intergenic 30.0%
! AGCATTGTTTGGTGAAATAT+TGG - chr6.2:71591920-71591939 None:intergenic 30.0%
! ATGGATCTGGTAATGTTTAT+AGG + chr6.2:71592319-71592338 MS.gene069773:CDS 30.0%
! TGAATCACCAACTTTGTTTA+GGG - chr6.2:71592040-71592059 None:intergenic 30.0%
! TGGATCTGGTAATGTTTATA+GGG + chr6.2:71592320-71592339 MS.gene069773:CDS 30.0%
! TTATAGGGTTGGATTTTGTT+TGG + chr6.2:71592335-71592354 MS.gene069773:CDS 30.0%
!! ACTAGTGATGTTTTCTAGTA+TGG - chr6.2:71592121-71592140 None:intergenic 30.0%
AAGCAAATAGGAAGAAGGAA+AGG - chr6.2:71591891-71591910 None:intergenic 35.0%
ACTGGAGATTGTGCTTATAT+TGG + chr6.2:71592363-71592382 MS.gene069773:CDS 35.0%
AGCAAATAGGAAGAAGGAAA+GGG - chr6.2:71591890-71591909 None:intergenic 35.0%
ATACTAGGGTTATCACTTTC+TGG - chr6.2:71592006-71592025 None:intergenic 35.0%
ATATCTTGTATGACAGTGAC+TGG - chr6.2:71592069-71592088 None:intergenic 35.0%
GAAAGTGATAACCCTAGTAT+TGG + chr6.2:71592006-71592025 MS.gene069773:CDS 35.0%
GATGCTGCATCTATTAAATC+TGG + chr6.2:71592465-71592484 MS.gene069773:CDS 35.0%
TTAATAGTGAAGCATGGATC+TGG + chr6.2:71592306-71592325 MS.gene069773:CDS 35.0%
! AATACTCAACTAGCTTGTGT+TGG + chr6.2:71592231-71592250 MS.gene069773:CDS 35.0%
! CTGAATCACCAACTTTGTTT+AGG - chr6.2:71592041-71592060 None:intergenic 35.0%
! TCTGGTAATGTTTATAGGGT+TGG + chr6.2:71592324-71592343 MS.gene069773:CDS 35.0%
! TTTGATGATTCAGCACAATC+TGG - chr6.2:71592189-71592208 None:intergenic 35.0%
!! GAGCAAGTATTGGACATAAA+TGG + chr6.2:71591943-71591962 MS.gene069773:CDS 35.0%
!! GGATTTTGTTTGGATACAAC+TGG + chr6.2:71592345-71592364 MS.gene069773:CDS 35.0%
ACTTGCTCAACAGCATTGTT+TGG - chr6.2:71591931-71591950 None:intergenic 40.0%
AGTGAACTCGATCTCAAGAT+CGG - chr6.2:71592160-71592179 None:intergenic 40.0%
ATCACTAGTAACATCGTGAC+AGG + chr6.2:71592132-71592151 MS.gene069773:CDS 40.0%
CAATGCTGTTGAGCAAGTAT+TGG + chr6.2:71591933-71591952 MS.gene069773:CDS 40.0%
GAAAGGGTGAGGGATAAAAT+AGG - chr6.2:71591874-71591893 None:intergenic 40.0%
GGACTAACCCTAAACAAAGT+TGG + chr6.2:71592030-71592049 MS.gene069773:CDS 40.0%
! AGTGATAACCCTAGTATTGG+AGG + chr6.2:71592009-71592028 MS.gene069773:CDS 40.0%
! CAACTAGCTTGTGTTGGTAT+TGG + chr6.2:71592237-71592256 MS.gene069773:CDS 40.0%
! TCTATTCCAGGATAGTTTGC+AGG - chr6.2:71592267-71592286 None:intergenic 40.0%
!! AAAATGTAGTATTGGCCACC+AGG - chr6.2:71591982-71592001 None:intergenic 40.0%
!! AAATGTAGTATTGGCCACCA+GGG - chr6.2:71591981-71592000 None:intergenic 40.0%
!! CAACTGTTTAGTTCTGGTGA+AGG + chr6.2:71592390-71592409 MS.gene069773:CDS 40.0%
ATAGGAAGAAGGAAAGGGTG+AGG - chr6.2:71591885-71591904 None:intergenic 45.0%
CCTCTGATTGTCTCTATTCC+AGG - chr6.2:71592279-71592298 None:intergenic 45.0%
CCTGGAATAGAGACAATCAG+AGG + chr6.2:71592276-71592295 MS.gene069773:CDS 45.0%
TAGGAAGAAGGAAAGGGTGA+GGG - chr6.2:71591884-71591903 None:intergenic 45.0%
! CTAGCTTGTGTTGGTATTGG+TGG + chr6.2:71592240-71592259 MS.gene069773:CDS 45.0%
! GGACTGCAACTGTTTAGTTC+TGG + chr6.2:71592384-71592403 MS.gene069773:CDS 45.0%
!! AATGTAGTATTGGCCACCAG+GGG - chr6.2:71591980-71591999 None:intergenic 45.0%
!! AGGGTTAGTCCTCCAATACT+AGG - chr6.2:71592021-71592040 None:intergenic 45.0%
!! CTGTTTAGTTCTGGTGAAGG+AGG + chr6.2:71592393-71592412 MS.gene069773:CDS 45.0%
!! GGGTTAGTCCTCCAATACTA+GGG - chr6.2:71592020-71592039 None:intergenic 45.0%
GGTGGTCCTGCAAACTATCC+TGG + chr6.2:71592258-71592277 MS.gene069773:CDS 55.0%
TATTGGCCACCAGGGGTAAG+GGG - chr6.2:71591973-71591992 None:intergenic 55.0%
! GTATTGGCCACCAGGGGTAA+GGG - chr6.2:71591974-71591993 None:intergenic 55.0%
!! AGTATTGGCCACCAGGGGTA+AGG - chr6.2:71591975-71591994 None:intergenic 55.0%
AATGGTACCCCCCTTACCCC+TGG + chr6.2:71591961-71591980 MS.gene069773:CDS 60.0%
ATTGGCCACCAGGGGTAAGG+GGG - chr6.2:71591972-71591991 None:intergenic 60.0%
TTGGCCACCAGGGGTAAGGG+GGG - chr6.2:71591971-71591990 None:intergenic 65.0%
GGTACCCCCCTTACCCCTGG+TGG + chr6.2:71591964-71591983 MS.gene069773:CDS 70.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 71591865 71592509 71591865 ID=MS.gene069773
chr6.2 mRNA 71591865 71592509 71591865 ID=MS.gene069773.t1;Parent=MS.gene069773
chr6.2 exon 71591865 71592509 71591865 ID=MS.gene069773.t1.exon1;Parent=MS.gene069773.t1
chr6.2 CDS 71591865 71592509 71591865 ID=cds.MS.gene069773.t1;Parent=MS.gene069773.t1
Gene Sequence

>MS.gene069773

ATGAAACCTATTTTATCCCTCACCCTTTCCTTCTTCCTATTTGCTTTTATCACCAATATTTCACCAAACAATGCTGTTGAGCAAGTATTGGACATAAATGGTACCCCCCTTACCCCTGGTGGCCAATACTACATTTTACCAGAAAGTGATAACCCTAGTATTGGAGGACTAACCCTAAACAAAGTTGGTGATTCAGAGTGTCCAGTCACTGTCATACAAGATATTGCTGTAATAGGTTTACCAGTTAAATTCACCATACTAGAAAACATCACTAGTAACATCGTGACAGGTACCGATCTTGAGATCGAGTTCACTAAGAAGCCAGATTGTGCTGAATCATCAAAATGGTTGATGTTTGTTGATCATAATACTCAACTAGCTTGTGTTGGTATTGGTGGTCCTGCAAACTATCCTGGAATAGAGACAATCAGAGGAAAGTTTTTAATAGTGAAGCATGGATCTGGTAATGTTTATAGGGTTGGATTTTGTTTGGATACAACTGGAGATTGTGCTTATATTGGACTGCAACTGTTTAGTTCTGGTGAAGGAGGATCACGTTTAATTTTGACTGCCCTTGATGCTTATTCTGTTGTATTTGTTGATGCTGCATCTATTAAATCTGGATCACGTGCATTGCCTATTTAG
Protein sequence

>MS.gene069773.t1

MKPILSLTLSFFLFAFITNISPNNAVEQVLDINGTPLTPGGQYYILPESDNPSIGGLTLNKVGDSECPVTVIQDIAVIGLPVKFTILENITSNIVTGTDLEIEFTKKPDCAESSKWLMFVDHNTQLACVGIGGPANYPGIETIRGKFLIVKHGSGNVYRVGFCLDTTGDCAYIGLQLFSSGEGGSRLILTALDAYSVVFVDAASIKSGSRALPI