AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63730

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63730.t1 MTR_2g076060 91.845 233 9 5 1 231 1 225 5.53e-141 394
MS.gene63730.t1 MTR_5g014400 85.366 41 6 0 51 91 77 117 3.90e-21 89.0
MS.gene63730.t1 MTR_4g021270 69.091 55 10 2 45 99 51 98 4.82e-20 87.4
MS.gene63730.t1 MTR_3g068095 73.333 45 11 1 44 88 46 89 4.04e-19 83.6
MS.gene63730.t1 MTR_5g080660 66.667 48 15 1 44 91 38 84 6.30e-18 80.1
MS.gene63730.t1 MTR_1g070265 81.579 38 7 0 51 88 32 69 8.81e-18 78.6
MS.gene63730.t1 MTR_4g064873 32.812 128 74 3 53 177 20 138 8.17e-16 72.8
MS.gene63730.t1 MTR_7g063220 57.143 49 21 0 50 98 20 68 6.23e-14 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63730.t1 AT3G23130 36.667 210 89 10 30 225 23 202 6.04e-25 97.8
MS.gene63730.t1 AT2G42410 32.719 217 105 6 30 225 16 212 9.72e-24 95.1
MS.gene63730.t1 AT2G42410 32.719 217 105 6 30 225 16 212 9.72e-24 95.1
MS.gene63730.t1 AT2G42410 35.233 193 91 5 47 225 66 238 1.29e-23 95.1
MS.gene63730.t1 AT5G06070 57.500 80 21 2 38 104 37 116 1.28e-21 89.7
MS.gene63730.t1 AT2G37740 63.077 65 22 1 24 88 9 71 1.90e-20 88.2
MS.gene63730.t1 AT4G17810 63.158 57 19 1 51 105 41 97 1.35e-18 80.5
MS.gene63730.t1 AT4G17810 63.158 57 19 1 51 105 41 97 3.98e-18 79.7
MS.gene63730.t1 AT3G09290 76.471 34 8 0 54 87 33 66 1.89e-13 66.6
MS.gene63730.t1 AT3G53820 53.061 49 20 1 43 88 5 53 1.30e-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 2.1:-23614619 None:intergenic
TAGTGATAGTAGGGTTATTA+AGG 0.242664 2.1:-23614588 None:intergenic
GGGTTAGTAGTAGTGATAGT+AGG 0.261762 2.1:-23614598 None:intergenic
AAAGGTAATGTGCAAGTAAT+AGG 0.287699 2.1:-23614691 None:intergenic
CTTGGATCTTGAACTTCGTT+TGG 0.301588 2.1:+23614918 MS.gene63730:CDS
TCTCAAAGTGATAATAATAA+TGG 0.324416 2.1:+23614355 MS.gene63730:CDS
TTAAGGATGGATTTGGAGAT+AGG 0.337700 2.1:+23614874 MS.gene63730:CDS
GTCACATGAATGTTCATAGA+AGG 0.359608 2.1:+23614485 MS.gene63730:CDS
TACTACTACTTACTCTAATT+AGG 0.371898 2.1:+23614942 MS.gene63730:CDS
GAGGTCTTTGTGCTCAAAGT+AGG 0.390132 2.1:-23614775 None:intergenic
TTGGATCTTGAACTTCGTTT+GGG 0.400638 2.1:+23614919 MS.gene63730:CDS
GGTTAGTAGTAGTGATAGTA+GGG 0.412853 2.1:-23614597 None:intergenic
GCCAGGAGATTATGATAACT+TGG 0.436899 2.1:+23614900 MS.gene63730:CDS
ATGAATGTGAGAATAAATTA+GGG 0.439290 2.1:-23614618 None:intergenic
AATATGAACACAAGCTTGAA+AGG 0.476718 2.1:+23614283 MS.gene63730:CDS
AGGTCTTTGTGCTCAAAGTA+GGG 0.478191 2.1:-23614774 None:intergenic
TTCAAATCAGCTCAAGCACT+TGG 0.481508 2.1:+23614460 MS.gene63730:CDS
GATTTGGAGATAGGTTTGCC+AGG 0.496396 2.1:+23614883 MS.gene63730:CDS
GTGTATGATCTTGGTGGCCA+TGG 0.499774 2.1:-23614415 None:intergenic
GACCTCAGAGAAATCAAAGA+TGG 0.508422 2.1:+23614792 MS.gene63730:CDS
TCAAAGATGGAAGGATATGA+TGG 0.513793 2.1:+23614805 MS.gene63730:CDS
AAGCTACATGTGTATGATCT+TGG 0.515500 2.1:-23614424 None:intergenic
CATGAACCTCAACTTGATCA+AGG 0.521250 2.1:+23614544 MS.gene63730:CDS
CTTGAGAGTTGTTGCTGAAG+AGG 0.522978 2.1:-23614668 None:intergenic
AATAGATATGTTGTTGTGGA+TGG 0.530802 2.1:+23614739 MS.gene63730:CDS
AAATCAGCTCAAGCACTTGG+AGG 0.547633 2.1:+23614463 MS.gene63730:CDS
TCAGAGGATTACATGATGAA+TGG 0.551588 2.1:+23614385 MS.gene63730:CDS
TCCAAGTTATCATAATCTCC+TGG 0.553984 2.1:-23614901 None:intergenic
TTCCATCTTTGATTTCTCTG+AGG 0.563787 2.1:-23614794 None:intergenic
TCAAGTTGAGGTTCATGAGT+TGG 0.566951 2.1:-23614538 None:intergenic
TGATGAATGGTTGTTATCCA+TGG 0.592785 2.1:+23614398 MS.gene63730:CDS
TCAGAGAAATCAAAGATGGA+AGG 0.593831 2.1:+23614796 MS.gene63730:CDS
TTCATAGAAGGGATAGAGCA+AGG 0.597565 2.1:+23614497 MS.gene63730:CDS
ACATATCTATTGAACTCAGA+AGG 0.602618 2.1:-23614727 None:intergenic
TCACATGAATGTTCATAGAA+GGG 0.603355 2.1:+23614486 MS.gene63730:CDS
GAAGAACCTTGATCAAGTTG+AGG 0.604626 2.1:-23614550 None:intergenic
CTACATGTGTATGATCTTGG+TGG 0.625534 2.1:-23614421 None:intergenic
GTTCAATAGATATGTTGTTG+TGG 0.636992 2.1:+23614735 MS.gene63730:CDS
AGTTGAGGTTCATGAGTTGG+TGG 0.650653 2.1:-23614535 None:intergenic
TAATAATGGATCATCATCAG+AGG 0.674019 2.1:+23614369 MS.gene63730:CDS
ATGTGAAGATGATTGTAACA+TGG 0.679232 2.1:+23614834 MS.gene63730:CDS
TATCTATTGAACTCAGAAGG+AGG 0.687706 2.1:-23614724 None:intergenic
GAAGGAGGTGAAACAAACAA+AGG 0.695249 2.1:-23614709 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGAATGTGAGAATAAATTA+GGG - chr2.1:23614621-23614640 None:intergenic 20.0%
!! TCTCAAAGTGATAATAATAA+TGG + chr2.1:23614355-23614374 MS.gene63730:CDS 20.0%
! GATGAATGTGAGAATAAATT+AGG - chr2.1:23614622-23614641 None:intergenic 25.0%
!! TGAAGAAAAGTGAGATTTTA+AGG + chr2.1:23614857-23614876 MS.gene63730:CDS 25.0%
AAAGGTAATGTGCAAGTAAT+AGG - chr2.1:23614694-23614713 None:intergenic 30.0%
AATAGATATGTTGTTGTGGA+TGG + chr2.1:23614739-23614758 MS.gene63730:CDS 30.0%
AATATGAACACAAGCTTGAA+AGG + chr2.1:23614283-23614302 MS.gene63730:CDS 30.0%
ACATATCTATTGAACTCAGA+AGG - chr2.1:23614730-23614749 None:intergenic 30.0%
ATGTGAAGATGATTGTAACA+TGG + chr2.1:23614834-23614853 MS.gene63730:CDS 30.0%
GTTCAATAGATATGTTGTTG+TGG + chr2.1:23614735-23614754 MS.gene63730:CDS 30.0%
TAGTGATAGTAGGGTTATTA+AGG - chr2.1:23614591-23614610 None:intergenic 30.0%
TCACATGAATGTTCATAGAA+GGG + chr2.1:23614486-23614505 MS.gene63730:CDS 30.0%
!! ACTTTGAGAATGACTTTTGT+TGG - chr2.1:23614344-23614363 None:intergenic 30.0%
!! GAAAAGTGAGATTTTAAGGA+TGG + chr2.1:23614861-23614880 MS.gene63730:CDS 30.0%
!! TAATAATGGATCATCATCAG+AGG + chr2.1:23614369-23614388 MS.gene63730:CDS 30.0%
!! TGAGATTTTAAGGATGGATT+TGG + chr2.1:23614867-23614886 MS.gene63730:CDS 30.0%
AAGCTACATGTGTATGATCT+TGG - chr2.1:23614427-23614446 None:intergenic 35.0%
GGTTAGTAGTAGTGATAGTA+GGG - chr2.1:23614600-23614619 None:intergenic 35.0%
GTCACATGAATGTTCATAGA+AGG + chr2.1:23614485-23614504 MS.gene63730:CDS 35.0%
TATCTATTGAACTCAGAAGG+AGG - chr2.1:23614727-23614746 None:intergenic 35.0%
TCAAAGATGGAAGGATATGA+TGG + chr2.1:23614805-23614824 MS.gene63730:CDS 35.0%
TCAGAGAAATCAAAGATGGA+AGG + chr2.1:23614796-23614815 MS.gene63730:CDS 35.0%
TCAGAGGATTACATGATGAA+TGG + chr2.1:23614385-23614404 MS.gene63730:CDS 35.0%
TCCAAGTTATCATAATCTCC+TGG - chr2.1:23614904-23614923 None:intergenic 35.0%
TGATGAATGGTTGTTATCCA+TGG + chr2.1:23614398-23614417 MS.gene63730:CDS 35.0%
TTGGATCTTGAACTTCGTTT+GGG + chr2.1:23614919-23614938 MS.gene63730:CDS 35.0%
! TTAAGGATGGATTTGGAGAT+AGG + chr2.1:23614874-23614893 MS.gene63730:CDS 35.0%
! TTCCATCTTTGATTTCTCTG+AGG - chr2.1:23614797-23614816 None:intergenic 35.0%
!!! TGACTTTTGTTGGTGATGAT+TGG - chr2.1:23614334-23614353 None:intergenic 35.0%
AGGTCTTTGTGCTCAAAGTA+GGG - chr2.1:23614777-23614796 None:intergenic 40.0%
CATGAACCTCAACTTGATCA+AGG + chr2.1:23614544-23614563 MS.gene63730:CDS 40.0%
CTACATGTGTATGATCTTGG+TGG - chr2.1:23614424-23614443 None:intergenic 40.0%
CTTGGATCTTGAACTTCGTT+TGG + chr2.1:23614918-23614937 MS.gene63730:CDS 40.0%
GAAGGAGGTGAAACAAACAA+AGG - chr2.1:23614712-23614731 None:intergenic 40.0%
GACCTCAGAGAAATCAAAGA+TGG + chr2.1:23614792-23614811 MS.gene63730:CDS 40.0%
GCCAGGAGATTATGATAACT+TGG + chr2.1:23614900-23614919 MS.gene63730:CDS 40.0%
TTCAAATCAGCTCAAGCACT+TGG + chr2.1:23614460-23614479 MS.gene63730:CDS 40.0%
TTCATAGAAGGGATAGAGCA+AGG + chr2.1:23614497-23614516 MS.gene63730:CDS 40.0%
! GAAGAACCTTGATCAAGTTG+AGG - chr2.1:23614553-23614572 None:intergenic 40.0%
! GGGTTAGTAGTAGTGATAGT+AGG - chr2.1:23614601-23614620 None:intergenic 40.0%
!! TCAAGTTGAGGTTCATGAGT+TGG - chr2.1:23614541-23614560 None:intergenic 40.0%
AAATCAGCTCAAGCACTTGG+AGG + chr2.1:23614463-23614482 MS.gene63730:CDS 45.0%
CTTGAGAGTTGTTGCTGAAG+AGG - chr2.1:23614671-23614690 None:intergenic 45.0%
GAGGTCTTTGTGCTCAAAGT+AGG - chr2.1:23614778-23614797 None:intergenic 45.0%
GATTTGGAGATAGGTTTGCC+AGG + chr2.1:23614883-23614902 MS.gene63730:CDS 45.0%
! AGTTGAGGTTCATGAGTTGG+TGG - chr2.1:23614538-23614557 None:intergenic 45.0%
! GTGTATGATCTTGGTGGCCA+TGG - chr2.1:23614418-23614437 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 23614268 23614963 23614268 ID=MS.gene63730
chr2.1 mRNA 23614268 23614963 23614268 ID=MS.gene63730.t1;Parent=MS.gene63730
chr2.1 exon 23614268 23614963 23614268 ID=MS.gene63730.t1.exon1;Parent=MS.gene63730.t1
chr2.1 CDS 23614268 23614963 23614268 ID=cds.MS.gene63730.t1;Parent=MS.gene63730.t1
Gene Sequence

>MS.gene63730

ATGATGAAGAGGAACAATATGAACACAAGCTTGAAAGGCTATAATCACACTTATTACAATAATCCAATCATCACCAACAAAAGTCATTCTCAAAGTGATAATAATAATGGATCATCATCAGAGGATTACATGATGAATGGTTGTTATCCATGGCCACCAAGATCATACACATGTAGCTTTTGCAGAAAAGAATTCAAATCAGCTCAAGCACTTGGAGGTCACATGAATGTTCATAGAAGGGATAGAGCAAGGCTTAGACAATCATCACCACCAACTCATGAACCTCAACTTGATCAAGGTTCTTCTATGCTTAATTTTAACCTTAATAACCCTACTATCACTACTACTAACCCTAATTTATTCTCACATTCATCTTCATCTTCTTCATCATTATCATCAACCTCTTCAGCAACAACTCTCAAGCCTATTACTTGCACATTACCTTTGTTTGTTTCACCTCCTTCTGAGTTCAATAGATATGTTGTTGTGGATGGTATTTTGTTGAACCCTACTTTGAGCACAAAGACCTCAGAGAAATCAAAGATGGAAGGATATGATGGTTTTGAATGTGAAGATGATTGTAACATGGTGAAGAAAAGTGAGATTTTAAGGATGGATTTGGAGATAGGTTTGCCAGGAGATTATGATAACTTGGATCTTGAACTTCGTTTGGGTACTACTACTTACTCTAATTAG
Protein sequence

>MS.gene63730.t1

MMKRNNMNTSLKGYNHTYYNNPIITNKSHSQSDNNNGSSSEDYMMNGCYPWPPRSYTCSFCRKEFKSAQALGGHMNVHRRDRARLRQSSPPTHEPQLDQGSSMLNFNLNNPTITTTNPNLFSHSSSSSSSLSSTSSATTLKPITCTLPLFVSPPSEFNRYVVVDGILLNPTLSTKTSEKSKMEGYDGFECEDDCNMVKKSEILRMDLEIGLPGDYDNLDLELRLGTTTYSN