AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene026864

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026864.t1 MTR_2g076060 91.026 234 10 5 1 232 1 225 1.78e-139 390
MS.gene026864.t1 MTR_5g014400 85.366 41 6 0 52 92 77 117 3.72e-21 89.0
MS.gene026864.t1 MTR_4g021270 69.091 55 10 2 46 100 51 98 4.38e-20 87.4
MS.gene026864.t1 MTR_3g068095 46.591 88 39 3 2 89 10 89 8.10e-20 85.5
MS.gene026864.t1 MTR_5g080660 66.667 48 15 1 45 92 38 84 5.99e-18 80.1
MS.gene026864.t1 MTR_1g070265 81.579 38 7 0 52 89 32 69 8.20e-18 78.6
MS.gene026864.t1 MTR_4g064873 31.126 151 87 4 31 178 2 138 1.21e-16 75.1
MS.gene026864.t1 MTR_7g063220 46.269 67 36 0 33 99 2 68 2.18e-14 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026864.t1 AT2G42410 33.036 224 109 6 24 226 9 212 6.38e-26 100
MS.gene026864.t1 AT2G42410 33.036 224 109 6 24 226 9 212 6.38e-26 100
MS.gene026864.t1 AT2G42410 33.036 224 109 6 24 226 35 238 9.00e-26 100
MS.gene026864.t1 AT5G06070 57.500 80 21 2 39 105 37 116 1.29e-21 89.7
MS.gene026864.t1 AT3G23130 67.241 58 16 2 30 87 23 77 1.16e-20 86.7
MS.gene026864.t1 AT2G37740 92.105 38 3 0 52 89 34 71 2.41e-20 87.8
MS.gene026864.t1 AT4G17810 57.576 66 28 0 52 117 41 106 7.66e-19 81.3
MS.gene026864.t1 AT4G17810 57.576 66 28 0 52 117 41 106 2.10e-18 80.5
MS.gene026864.t1 AT3G09290 76.471 34 8 0 55 88 33 66 1.95e-13 66.6
MS.gene026864.t1 AT3G53820 53.061 49 20 1 44 89 5 53 1.45e-12 63.5

Find 43 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAATGTGAGAATAAATT+AGG 0.181994 2.4:-21205051 None:intergenic
TAGTGATAGTAGGGTTATTA+AGG 0.242664 2.4:-21205020 None:intergenic
GGGTTAGTAGTAGTGATAGT+AGG 0.261762 2.4:-21205030 None:intergenic
CAAAGTGATTATAATAATAA+TGG 0.313354 2.4:+21204787 MS.gene026864:CDS
TTAAGGATGGATTTGGAGAT+AGG 0.323598 2.4:+21205306 MS.gene026864:CDS
AAGGGTAATGTGCAAGTAAT+AGG 0.332503 2.4:-21205123 None:intergenic
CTTGGATCTTGAGCTTCGTT+TGG 0.338483 2.4:+21205350 MS.gene026864:CDS
GTCACATGAATGTTCATAGA+AGG 0.359608 2.4:+21204917 MS.gene026864:CDS
TACTACTACTTACTCTAATT+AGG 0.371898 2.4:+21205374 MS.gene026864:CDS
GAGGTCTTTGTGCTCAAAGT+AGG 0.390132 2.4:-21205207 None:intergenic
TTGGATCTTGAGCTTCGTTT+GGG 0.406516 2.4:+21205351 MS.gene026864:CDS
GGTTAGTAGTAGTGATAGTA+GGG 0.412853 2.4:-21205029 None:intergenic
ATGAATGTGAGAATAAATTA+GGG 0.439290 2.4:-21205050 None:intergenic
GCCAGGAGATTATGATAACT+TGG 0.465506 2.4:+21205332 MS.gene026864:CDS
AATATGAACACAAGCTTGAA+AGG 0.476718 2.4:+21204712 MS.gene026864:CDS
AGGTCTTTGTGCTCAAAGTA+GGG 0.478191 2.4:-21205206 None:intergenic
TTCAAATCAGCTCAAGCACT+TGG 0.481508 2.4:+21204892 MS.gene026864:CDS
GTGTATGATCTTGGTGGCCA+TGG 0.499774 2.4:-21204847 None:intergenic
AATAGATATGTTGTTGTGGA+TGG 0.501785 2.4:+21205171 MS.gene026864:CDS
TCAAAGATGGATGGATATGA+TGG 0.502567 2.4:+21205237 MS.gene026864:CDS
GACCTCAGAGAAATCAAAGA+TGG 0.508422 2.4:+21205224 MS.gene026864:CDS
AAGCTACATGTGTATGATCT+TGG 0.515500 2.4:-21204856 None:intergenic
CATGAACCTCAACTTGATCA+AGG 0.521250 2.4:+21204976 MS.gene026864:CDS
CTTGAGAGTTGTTGCTGAAG+AGG 0.522978 2.4:-21205100 None:intergenic
TCAGAAGATTACATGATGAA+TGG 0.523539 2.4:+21204817 MS.gene026864:CDS
GATTTGGAGATAGGATTGCC+AGG 0.525003 2.4:+21205315 MS.gene026864:CDS
AAATCAGCTCAAGCACTTGG+AGG 0.547633 2.4:+21204895 MS.gene026864:CDS
TCCAAGTTATCATAATCTCC+TGG 0.553984 2.4:-21205333 None:intergenic
TCAGAGAAATCAAAGATGGA+TGG 0.562580 2.4:+21205228 MS.gene026864:CDS
ATCCATCTTTGATTTCTCTG+AGG 0.563787 2.4:-21205226 None:intergenic
TCAAGTTGAGGTTCATGAGT+TGG 0.566951 2.4:-21204970 None:intergenic
TGATGAATGGTTGTTATCCA+TGG 0.592785 2.4:+21204830 MS.gene026864:CDS
TTCATAGAAGGGATAGAGCA+AGG 0.597565 2.4:+21204929 MS.gene026864:CDS
TCACATGAATGTTCATAGAA+GGG 0.603355 2.4:+21204918 MS.gene026864:CDS
GAAGAACCTTGATCAAGTTG+AGG 0.604626 2.4:-21204982 None:intergenic
ACATATCTATTAAACTCAGA+AGG 0.608200 2.4:-21205159 None:intergenic
AGAAGGAGGTGAAACAAACA+AGG 0.612191 2.4:-21205142 None:intergenic
GTTTAATAGATATGTTGTTG+TGG 0.616672 2.4:+21205167 MS.gene026864:CDS
CTACATGTGTATGATCTTGG+TGG 0.625534 2.4:-21204853 None:intergenic
AGTTGAGGTTCATGAGTTGG+TGG 0.650653 2.4:-21204967 None:intergenic
TATCTATTAAACTCAGAAGG+AGG 0.651729 2.4:-21205156 None:intergenic
ATGTGAAGATGATTGTAACA+TGG 0.679232 2.4:+21205266 MS.gene026864:CDS
GAAGGAGGTGAAACAAACAA+GGG 0.747063 2.4:-21205141 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAGTGATTATAATAATAA+TGG + chr2.4:21204787-21204806 MS.gene026864:CDS 15.0%
!! ATGAATGTGAGAATAAATTA+GGG - chr2.4:21205053-21205072 None:intergenic 20.0%
! ACATATCTATTAAACTCAGA+AGG - chr2.4:21205162-21205181 None:intergenic 25.0%
! GATGAATGTGAGAATAAATT+AGG - chr2.4:21205054-21205073 None:intergenic 25.0%
! GTTTAATAGATATGTTGTTG+TGG + chr2.4:21205167-21205186 MS.gene026864:CDS 25.0%
!! TGAAGAAAAGTGAGATTTTA+AGG + chr2.4:21205289-21205308 MS.gene026864:CDS 25.0%
AATAGATATGTTGTTGTGGA+TGG + chr2.4:21205171-21205190 MS.gene026864:CDS 30.0%
AATATGAACACAAGCTTGAA+AGG + chr2.4:21204712-21204731 MS.gene026864:CDS 30.0%
ATGTGAAGATGATTGTAACA+TGG + chr2.4:21205266-21205285 MS.gene026864:CDS 30.0%
TAGTGATAGTAGGGTTATTA+AGG - chr2.4:21205023-21205042 None:intergenic 30.0%
TATCTATTAAACTCAGAAGG+AGG - chr2.4:21205159-21205178 None:intergenic 30.0%
TCACATGAATGTTCATAGAA+GGG + chr2.4:21204918-21204937 MS.gene026864:CDS 30.0%
TCAGAAGATTACATGATGAA+TGG + chr2.4:21204817-21204836 MS.gene026864:CDS 30.0%
!! ACTTTGAGAATGACTTTTGT+TGG - chr2.4:21204773-21204792 None:intergenic 30.0%
!! GAAAAGTGAGATTTTAAGGA+TGG + chr2.4:21205293-21205312 MS.gene026864:CDS 30.0%
!! TGAGATTTTAAGGATGGATT+TGG + chr2.4:21205299-21205318 MS.gene026864:CDS 30.0%
AAGCTACATGTGTATGATCT+TGG - chr2.4:21204859-21204878 None:intergenic 35.0%
AAGGGTAATGTGCAAGTAAT+AGG - chr2.4:21205126-21205145 None:intergenic 35.0%
GGTTAGTAGTAGTGATAGTA+GGG - chr2.4:21205032-21205051 None:intergenic 35.0%
GTCACATGAATGTTCATAGA+AGG + chr2.4:21204917-21204936 MS.gene026864:CDS 35.0%
TCAAAGATGGATGGATATGA+TGG + chr2.4:21205237-21205256 MS.gene026864:CDS 35.0%
TCAGAGAAATCAAAGATGGA+TGG + chr2.4:21205228-21205247 MS.gene026864:CDS 35.0%
TCCAAGTTATCATAATCTCC+TGG - chr2.4:21205336-21205355 None:intergenic 35.0%
TGATGAATGGTTGTTATCCA+TGG + chr2.4:21204830-21204849 MS.gene026864:CDS 35.0%
! ATCCATCTTTGATTTCTCTG+AGG - chr2.4:21205229-21205248 None:intergenic 35.0%
! TTAAGGATGGATTTGGAGAT+AGG + chr2.4:21205306-21205325 MS.gene026864:CDS 35.0%
!!! TGACTTTTGTTGGTGATGAT+TGG - chr2.4:21204763-21204782 None:intergenic 35.0%
AGAAGGAGGTGAAACAAACA+AGG - chr2.4:21205145-21205164 None:intergenic 40.0%
AGGTCTTTGTGCTCAAAGTA+GGG - chr2.4:21205209-21205228 None:intergenic 40.0%
CATGAACCTCAACTTGATCA+AGG + chr2.4:21204976-21204995 MS.gene026864:CDS 40.0%
CTACATGTGTATGATCTTGG+TGG - chr2.4:21204856-21204875 None:intergenic 40.0%
GAAGGAGGTGAAACAAACAA+GGG - chr2.4:21205144-21205163 None:intergenic 40.0%
GACCTCAGAGAAATCAAAGA+TGG + chr2.4:21205224-21205243 MS.gene026864:CDS 40.0%
GCCAGGAGATTATGATAACT+TGG + chr2.4:21205332-21205351 MS.gene026864:CDS 40.0%
TTCAAATCAGCTCAAGCACT+TGG + chr2.4:21204892-21204911 MS.gene026864:CDS 40.0%
TTCATAGAAGGGATAGAGCA+AGG + chr2.4:21204929-21204948 MS.gene026864:CDS 40.0%
TTGGATCTTGAGCTTCGTTT+GGG + chr2.4:21205351-21205370 MS.gene026864:CDS 40.0%
! GAAGAACCTTGATCAAGTTG+AGG - chr2.4:21204985-21205004 None:intergenic 40.0%
! GGGTTAGTAGTAGTGATAGT+AGG - chr2.4:21205033-21205052 None:intergenic 40.0%
!! TCAAGTTGAGGTTCATGAGT+TGG - chr2.4:21204973-21204992 None:intergenic 40.0%
AAATCAGCTCAAGCACTTGG+AGG + chr2.4:21204895-21204914 MS.gene026864:CDS 45.0%
CTTGAGAGTTGTTGCTGAAG+AGG - chr2.4:21205103-21205122 None:intergenic 45.0%
CTTGGATCTTGAGCTTCGTT+TGG + chr2.4:21205350-21205369 MS.gene026864:CDS 45.0%
GAGGTCTTTGTGCTCAAAGT+AGG - chr2.4:21205210-21205229 None:intergenic 45.0%
GATTTGGAGATAGGATTGCC+AGG + chr2.4:21205315-21205334 MS.gene026864:CDS 45.0%
! AGTTGAGGTTCATGAGTTGG+TGG - chr2.4:21204970-21204989 None:intergenic 45.0%
! GTGTATGATCTTGGTGGCCA+TGG - chr2.4:21204850-21204869 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 21204697 21205395 21204697 ID=MS.gene026864
chr2.4 mRNA 21204697 21205395 21204697 ID=MS.gene026864.t1;Parent=MS.gene026864
chr2.4 exon 21204697 21205395 21204697 ID=MS.gene026864.t1.exon1;Parent=MS.gene026864.t1
chr2.4 CDS 21204697 21205395 21204697 ID=cds.MS.gene026864.t1;Parent=MS.gene026864.t1
Gene Sequence

>MS.gene026864

ATGATGAAGAGGAACAATATGAACACAAGCTTGAAAGGCTATAATCACACTTATTACAACAGTCCAATCATCACCAACAAAAGTCATTCTCAAAGTGATTATAATAATAATGGATCATCATCAGAAGATTACATGATGAATGGTTGTTATCCATGGCCACCAAGATCATACACATGTAGCTTTTGCAGAAAAGAATTCAAATCAGCTCAAGCACTTGGAGGTCACATGAATGTTCATAGAAGGGATAGAGCAAGGCTTAGACAATCATCACCACCAACTCATGAACCTCAACTTGATCAAGGTTCTTCTATGCTTAATCTTAACCTTAATAACCCTACTATCACTACTACTAACCCTAATTTATTCTCACATTCATCTTCATCTTCTTCATCATTATCATCAACCTCTTCAGCAACAACTCTCAAGCCTATTACTTGCACATTACCCTTGTTTGTTTCACCTCCTTCTGAGTTTAATAGATATGTTGTTGTGGATGGTATTTTGTTGAACCCTACTTTGAGCACAAAGACCTCAGAGAAATCAAAGATGGATGGATATGATGGTTTTGAATGTGAAGATGATTGTAACATGGTGAAGAAAAGTGAGATTTTAAGGATGGATTTGGAGATAGGATTGCCAGGAGATTATGATAACTTGGATCTTGAGCTTCGTTTGGGTACTACTACTTACTCTAATTAG
Protein sequence

>MS.gene026864.t1

MMKRNNMNTSLKGYNHTYYNSPIITNKSHSQSDYNNNGSSSEDYMMNGCYPWPPRSYTCSFCRKEFKSAQALGGHMNVHRRDRARLRQSSPPTHEPQLDQGSSMLNLNLNNPTITTTNPNLFSHSSSSSSSLSSTSSATTLKPITCTLPLFVSPPSEFNRYVVVDGILLNPTLSTKTSEKSKMDGYDGFECEDDCNMVKKSEILRMDLEIGLPGDYDNLDLELRLGTTTYSN