AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067276


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067276.t1 MTR_8g027435 83.432 169 19 3 1 168 1 161 1.14e-96 277
MS.gene067276.t1 MTR_7g117695 34.956 226 94 7 4 181 5 225 8.65e-28 104
MS.gene067276.t1 MTR_1g007905 33.533 167 83 8 35 178 44 205 1.11e-15 72.4
MS.gene067276.t1 MTR_3g091680 34.783 161 89 7 36 186 9 163 7.99e-14 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067276.t1 AT4G27810 35.079 191 99 5 5 180 7 187 1.82e-22 89.7
MS.gene067276.t1 AT5G53030 31.818 220 96 8 14 180 18 236 2.82e-17 77.4
MS.gene067276.t1 AT5G53030 45.455 88 42 2 14 95 18 105 6.14e-15 70.5

Find 47 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATGAATAATGGAAGTTT+TGG 0.308636 8.2:-70474750 None:intergenic
TTCATGCCAAGTCTCTTGTT+TGG 0.319122 8.2:+70475262 MS.gene067276:CDS
ACAATATCAGTACATGGTTT+TGG 0.319500 8.2:-70474873 None:intergenic
GAGTGTAGTGATCATTCTTT+TGG 0.350568 8.2:+70475005 MS.gene067276:CDS
TCCATCACCTACAACAGTTT+TGG 0.360357 8.2:+70474965 MS.gene067276:CDS
TCATGCCAAGTCTCTTGTTT+GGG 0.361967 8.2:+70475263 MS.gene067276:CDS
ACTTGGGAGTTTGATTCTTA+AGG 0.363896 8.2:+70475043 MS.gene067276:CDS
ACAAGAGACTTGGCATGAAA+TGG 0.388152 8.2:-70475258 None:intergenic
AGGAAGAAGATAAAACATTA+TGG 0.389689 8.2:+70475222 MS.gene067276:CDS
GAAGCTTGTGAGGAAGAAAA+TGG 0.395638 8.2:+70474717 MS.gene067276:CDS
GGTGGAGGGCTCATGAATAA+TGG 0.418821 8.2:-70474759 None:intergenic
TCCAACACTAGTCAAGTGTT+TGG 0.431206 8.2:+70474908 MS.gene067276:CDS
ATCACAGCATCAATACCATT+TGG 0.441782 8.2:+70474828 MS.gene067276:CDS
TCCAAACACTTGACTAGTGT+TGG 0.454319 8.2:-70474909 None:intergenic
CTCTCTGGTGAATGCATTGG+TGG 0.455474 8.2:-70474777 None:intergenic
AGCATCAATACCATTTGGTT+GGG 0.456795 8.2:+70474833 MS.gene067276:CDS
GATGGAAGCGTGTGGTTCCA+TGG 0.463300 8.2:+70476142 MS.gene067276:CDS
GGTCCATCCAAAACTGTTGT+AGG 0.469058 8.2:-70474972 None:intergenic
TTTGTATCAATGAACAACCT+TGG 0.487076 8.2:-70474939 None:intergenic
GTGGTTGGTGGTGGCATCAT+AGG 0.487189 8.2:+70475177 MS.gene067276:CDS
TCCAAAACTGTTGTAGGTGA+TGG 0.491958 8.2:-70474966 None:intergenic
CAGCATCAATACCATTTGGT+TGG 0.495412 8.2:+70474832 MS.gene067276:CDS
TTTGGTTGGGAAGAAGAGCC+AGG 0.497915 8.2:+70474846 MS.gene067276:CDS
GGCTCTTCTTCCCAACCAAA+TGG 0.498578 8.2:-70474843 None:intergenic
TCTGGTGAATGCATTGGTGG+AGG 0.503654 8.2:-70474774 None:intergenic
TGAACAAGTATCAGCGTTGG+TGG 0.511295 8.2:+70476178 MS.gene067276:CDS
GATTCTTAAGGAAGAAATGA+GGG 0.514201 8.2:+70475055 MS.gene067276:CDS
GATCTCTCTGGTGAATGCAT+TGG 0.516177 8.2:-70474780 None:intergenic
CTGGTGAATGCATTGGTGGA+GGG 0.527666 8.2:-70474773 None:intergenic
TGATTCTTAAGGAAGAAATG+AGG 0.535606 8.2:+70475054 MS.gene067276:CDS
GTGACAAGAATGTGAAGATG+AGG 0.544963 8.2:+70475202 MS.gene067276:CDS
ATGCATTCACCAGAGAGATC+AGG 0.552291 8.2:+70474783 MS.gene067276:CDS
AGTGAAAATGGAAGCTTGTG+AGG 0.556127 8.2:+70474707 None:intergenic
AATGATAATGTGGTTGGTGG+TGG 0.559273 8.2:+70475168 MS.gene067276:CDS
ATTTACCCAAACAAGAGACT+TGG 0.560482 8.2:-70475268 None:intergenic
GATAATGATAATGTGGTTGG+TGG 0.575718 8.2:+70475165 MS.gene067276:CDS
GTATCAATGAACAACCTTGG+AGG 0.583736 8.2:-70474936 None:intergenic
AGTGTTTGGAACTTCCTCCA+AGG 0.603766 8.2:+70474922 MS.gene067276:CDS
AAGGATAATGATAATGTGGT+TGG 0.603829 8.2:+70475162 MS.gene067276:intron
TTGCAGACAAAGATGTGTGA+AGG 0.630882 8.2:+70476120 MS.gene067276:intron
TGATAAGGATAATGATAATG+TGG 0.637344 8.2:+70475158 MS.gene067276:intron
AAGTGAACAAGTATCAGCGT+TGG 0.638401 8.2:+70476175 MS.gene067276:CDS
AATGTGACAATATCAGTACA+TGG 0.654176 8.2:-70474879 None:intergenic
ATTGATGCTGTGATATGAAG+TGG 0.663709 8.2:-70474819 None:intergenic
AGACAAAGATGTGTGAAGGA+TGG 0.677511 8.2:+70476124 MS.gene067276:intron
GATGCTGTGATATGAAGTGG+TGG 0.702825 8.2:-70474816 None:intergenic
GTGTGAAGGATGGAAGCGTG+TGG 0.756661 8.2:+70476134 MS.gene067276:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGAAGAATAATAATAATGT+TGG + chr8.2:70475975-70475994 MS.gene067276:intron 15.0%
!! AGAAGAATAATAATAATGTT+GGG + chr8.2:70475976-70475995 MS.gene067276:intron 15.0%
!! TATTGTAAATATAATTCTTG+TGG + chr8.2:70475577-70475596 MS.gene067276:intron 15.0%
!! TTGTTATAGAAATTTCTATT+TGG + chr8.2:70475423-70475442 MS.gene067276:intron 15.0%
!!! ATAATTGATTTTGGTATTTT+TGG + chr8.2:70475642-70475661 MS.gene067276:intron 15.0%
!!! TTTTATTTTGTGTAAAGATA+TGG + chr8.2:70476069-70476088 MS.gene067276:intron 15.0%
!! ACTAATCATTTATAAACTTG+TGG + chr8.2:70475713-70475732 MS.gene067276:intron 20.0%
!! ATACCAAAATCAATTATACT+TGG - chr8.2:70475639-70475658 None:intergenic 20.0%
!! ATTTCACTTAACTAGTATAT+TGG + chr8.2:70475540-70475559 MS.gene067276:intron 20.0%
!! GGTAAATAGAAATAAGAAAA+TGG + chr8.2:70476042-70476061 MS.gene067276:intron 20.0%
!!! ATTCCAAGTATAATTGATTT+TGG + chr8.2:70475633-70475652 MS.gene067276:intron 20.0%
!!! ATTTTGTTTGTAAATCCAAA+TGG - chr8.2:70475860-70475879 None:intergenic 20.0%
!!! ATTTTTTCTAAAATACGAGT+AGG + chr8.2:70476020-70476039 MS.gene067276:intron 20.0%
!!! TTTTTTCTAAAATACGAGTA+GGG + chr8.2:70476021-70476040 MS.gene067276:intron 20.0%
! AAATGAGGGTAAAGAAAAAA+GGG + chr8.2:70475069-70475088 MS.gene067276:intron 25.0%
! AGGAAGAAGATAAAACATTA+TGG + chr8.2:70475222-70475241 MS.gene067276:CDS 25.0%
! CTTGAAACTATAGTTATAGA+AGG + chr8.2:70475388-70475407 MS.gene067276:intron 25.0%
! GTTATTTAGATTAAAACGTG+TGG + chr8.2:70475514-70475533 MS.gene067276:intron 25.0%
! TTTAGAAAAAATCACTAGCA+TGG - chr8.2:70476012-70476031 None:intergenic 25.0%
! TTTATCATCTTCTGTTGATA+AGG + chr8.2:70475143-70475162 MS.gene067276:intron 25.0%
!! ATTGTTTGTGTAGTGTATTT+TGG + chr8.2:70475329-70475348 MS.gene067276:intron 25.0%
!! TGATAAGGATAATGATAATG+TGG + chr8.2:70475158-70475177 MS.gene067276:intron 25.0%
!!! AGTGTATTTTGGTTTGATTT+GGG + chr8.2:70475340-70475359 MS.gene067276:intron 25.0%
!!! ATTCTTTTGGTTTTGAAAGT+GGG + chr8.2:70475018-70475037 MS.gene067276:CDS 25.0%
!!! TAGTGTATTTTGGTTTGATT+TGG + chr8.2:70475339-70475358 MS.gene067276:intron 25.0%
!!! TGAATGTTAAGTTGAATAGT+TGG + chr8.2:70475492-70475511 MS.gene067276:intron 25.0%
AAAAGTAGTTCCAACATTTG+GGG - chr8.2:70476096-70476115 None:intergenic 30.0%
AATGTGACAATATCAGTACA+TGG - chr8.2:70474882-70474901 None:intergenic 30.0%
CAAAAGTAGTTCCAACATTT+GGG - chr8.2:70476097-70476116 None:intergenic 30.0%
GAAATGAGGGTAAAGAAAAA+AGG + chr8.2:70475068-70475087 MS.gene067276:intron 30.0%
GATTCTTAAGGAAGAAATGA+GGG + chr8.2:70475055-70475074 MS.gene067276:CDS 30.0%
TCAAAAGTAGTTCCAACATT+TGG - chr8.2:70476098-70476117 None:intergenic 30.0%
TGATTCTTAAGGAAGAAATG+AGG + chr8.2:70475054-70475073 MS.gene067276:CDS 30.0%
TTCATGAAATATGCACCATT+TGG + chr8.2:70475842-70475861 MS.gene067276:intron 30.0%
TTCTATTTGGTTGTTCATGT+GGG + chr8.2:70475436-70475455 MS.gene067276:intron 30.0%
TTGGAGGAAAATGGATATTA+AGG + chr8.2:70475103-70475122 MS.gene067276:intron 30.0%
TTTCTATTTGGTTGTTCATG+TGG + chr8.2:70475435-70475454 MS.gene067276:intron 30.0%
TTTGTATCAATGAACAACCT+TGG - chr8.2:70474942-70474961 None:intergenic 30.0%
! AAGGATAATGATAATGTGGT+TGG + chr8.2:70475162-70475181 MS.gene067276:intron 30.0%
! ACAATATCAGTACATGGTTT+TGG - chr8.2:70474876-70474895 None:intergenic 30.0%
!! CTCATGAATAATGGAAGTTT+TGG - chr8.2:70474753-70474772 None:intergenic 30.0%
!! TTTTGGTAATTGGAGGAAAA+TGG + chr8.2:70475094-70475113 MS.gene067276:intron 30.0%
!!! AAAAAGGGTGTTTTGGTAAT+TGG + chr8.2:70475084-70475103 MS.gene067276:intron 30.0%
!!! ATCACTACACTCTTTTTTGT+AGG - chr8.2:70474997-70475016 None:intergenic 30.0%
!!! CATTCTTTTGGTTTTGAAAG+TGG + chr8.2:70475017-70475036 MS.gene067276:CDS 30.0%
!!! GTAAAGAAAAAAGGGTGTTT+TGG + chr8.2:70475077-70475096 MS.gene067276:intron 30.0%
!!! TCACTACACTCTTTTTTGTA+GGG - chr8.2:70474996-70475015 None:intergenic 30.0%
AATATGCACTATAGCCAAGA+TGG + chr8.2:70475929-70475948 MS.gene067276:intron 35.0%
ACTTGGGAGTTTGATTCTTA+AGG + chr8.2:70475043-70475062 MS.gene067276:CDS 35.0%
AGCATCAATACCATTTGGTT+GGG + chr8.2:70474833-70474852 MS.gene067276:CDS 35.0%
ATCACAGCATCAATACCATT+TGG + chr8.2:70474828-70474847 MS.gene067276:CDS 35.0%
ATTGATGCTGTGATATGAAG+TGG - chr8.2:70474822-70474841 None:intergenic 35.0%
ATTTACCCAAACAAGAGACT+TGG - chr8.2:70475271-70475290 None:intergenic 35.0%
TCTTGGCTATAGTGCATATT+TGG - chr8.2:70475929-70475948 None:intergenic 35.0%
! GAGTGTAGTGATCATTCTTT+TGG + chr8.2:70475005-70475024 MS.gene067276:CDS 35.0%
! GATAATGATAATGTGGTTGG+TGG + chr8.2:70475165-70475184 MS.gene067276:CDS 35.0%
!! ACTAGTATATTGGCTTAGAG+TGG + chr8.2:70475550-70475569 MS.gene067276:intron 35.0%
!!! GTTTTGAAAGTGGGAAACTT+GGG + chr8.2:70475027-70475046 MS.gene067276:CDS 35.0%
!!! TTCACTTTTTCACTCTTCCA+TGG - chr8.2:70476162-70476181 None:intergenic 35.0%
AAGACTAGATGTGACCATCT+TGG - chr8.2:70475946-70475965 None:intergenic 40.0%
AAGATATGGTCCCCAAATGT+TGG + chr8.2:70476083-70476102 MS.gene067276:intron 40.0%
AAGTGAACAAGTATCAGCGT+TGG + chr8.2:70476175-70476194 MS.gene067276:CDS 40.0%
ACAAGAGACTTGGCATGAAA+TGG - chr8.2:70475261-70475280 None:intergenic 40.0%
AGACAAAGATGTGTGAAGGA+TGG + chr8.2:70476124-70476143 MS.gene067276:intron 40.0%
CAGCATCAATACCATTTGGT+TGG + chr8.2:70474832-70474851 MS.gene067276:CDS 40.0%
GAAGCTTGTGAGGAAGAAAA+TGG + chr8.2:70474717-70474736 MS.gene067276:CDS 40.0%
GTATCAATGAACAACCTTGG+AGG - chr8.2:70474939-70474958 None:intergenic 40.0%
GTGACAAGAATGTGAAGATG+AGG + chr8.2:70475202-70475221 MS.gene067276:CDS 40.0%
TCCAAAACTGTTGTAGGTGA+TGG - chr8.2:70474969-70474988 None:intergenic 40.0%
TCCAAACACTTGACTAGTGT+TGG - chr8.2:70474912-70474931 None:intergenic 40.0%
TCCAACACTAGTCAAGTGTT+TGG + chr8.2:70474908-70474927 MS.gene067276:CDS 40.0%
TTCATGCCAAGTCTCTTGTT+TGG + chr8.2:70475262-70475281 MS.gene067276:CDS 40.0%
TTGCAGACAAAGATGTGTGA+AGG + chr8.2:70476120-70476139 MS.gene067276:intron 40.0%
! GTTTTTGTTCCTGATCTCTC+TGG - chr8.2:70474795-70474814 None:intergenic 40.0%
! TCATGCCAAGTCTCTTGTTT+GGG + chr8.2:70475263-70475282 MS.gene067276:CDS 40.0%
! TCCATCACCTACAACAGTTT+TGG + chr8.2:70474965-70474984 MS.gene067276:CDS 40.0%
!! AATGATAATGTGGTTGGTGG+TGG + chr8.2:70475168-70475187 MS.gene067276:CDS 40.0%
!!! AAGGGTGTTTTGGTAATTGG+AGG + chr8.2:70475087-70475106 MS.gene067276:intron 40.0%
!!! GGTTTTGAAAGTGGGAAACT+TGG + chr8.2:70475026-70475045 MS.gene067276:CDS 40.0%
!!! GTACATGGTTTTGGTTTTCC+TGG - chr8.2:70474867-70474886 None:intergenic 40.0%
!!! TCACCTACAACAGTTTTGGA+TGG + chr8.2:70474969-70474988 MS.gene067276:CDS 40.0%
ATGCATTCACCAGAGAGATC+AGG + chr8.2:70474783-70474802 MS.gene067276:CDS 45.0%
GATCTCTCTGGTGAATGCAT+TGG - chr8.2:70474783-70474802 None:intergenic 45.0%
GATGCTGTGATATGAAGTGG+TGG - chr8.2:70474819-70474838 None:intergenic 45.0%
GGTCCATCCAAAACTGTTGT+AGG - chr8.2:70474975-70474994 None:intergenic 45.0%
! AGTGTTTGGAACTTCCTCCA+AGG + chr8.2:70474922-70474941 MS.gene067276:CDS 45.0%
! TGAACAAGTATCAGCGTTGG+TGG + chr8.2:70476178-70476197 MS.gene067276:CDS 45.0%
CTCTCTGGTGAATGCATTGG+TGG - chr8.2:70474780-70474799 None:intergenic 50.0%
GGCTCTTCTTCCCAACCAAA+TGG - chr8.2:70474846-70474865 None:intergenic 50.0%
GGTGGAGGGCTCATGAATAA+TGG - chr8.2:70474762-70474781 None:intergenic 50.0%
TTTGGTTGGGAAGAAGAGCC+AGG + chr8.2:70474846-70474865 MS.gene067276:CDS 50.0%
! CTGGTGAATGCATTGGTGGA+GGG - chr8.2:70474776-70474795 None:intergenic 50.0%
! TCTGGTGAATGCATTGGTGG+AGG - chr8.2:70474777-70474796 None:intergenic 50.0%
! GATGGAAGCGTGTGGTTCCA+TGG + chr8.2:70476142-70476161 MS.gene067276:CDS 55.0%
! GTGTGAAGGATGGAAGCGTG+TGG + chr8.2:70476134-70476153 MS.gene067276:CDS 55.0%
!! GTGGTTGGTGGTGGCATCAT+AGG + chr8.2:70475177-70475196 MS.gene067276:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 70474714 70476206 70474714 ID=MS.gene067276
chr8.2 mRNA 70474714 70476206 70474714 ID=MS.gene067276.t1;Parent=MS.gene067276
chr8.2 exon 70474714 70475076 70474714 ID=MS.gene067276.t1.exon1;Parent=MS.gene067276.t1
chr8.2 CDS 70474714 70475076 70474714 ID=cds.MS.gene067276.t1;Parent=MS.gene067276.t1
chr8.2 exon 70475165 70475284 70475165 ID=MS.gene067276.t1.exon2;Parent=MS.gene067276.t1
chr8.2 CDS 70475165 70475284 70475165 ID=cds.MS.gene067276.t1;Parent=MS.gene067276.t1
chr8.2 exon 70476126 70476206 70476126 ID=MS.gene067276.t1.exon3;Parent=MS.gene067276.t1
chr8.2 CDS 70476126 70476206 70476126 ID=cds.MS.gene067276.t1;Parent=MS.gene067276.t1
Gene Sequence

>MS.gene067276

ATGGAAGCTTGTGAGGAAGAAAATGGCAAAAAGATACCAAAACTTCCATTATTCATGAGCCCTCCACCAATGCATTCACCAGAGAGATCAGGAACAAAAACTCCACCACTTCATATCACAGCATCAATACCATTTGGTTGGGAAGAAGAGCCAGGAAAACCAAAACCATGTACTGATATTGTCACATTCTCAAATCCAACACTAGTCAAGTGTTTGGAACTTCCTCCAAGGTTGTTCATTGATACAAAAGCTCCATCACCTACAACAGTTTTGGATGGACCCTACAAAAAAGAGTGTAGTGATCATTCTTTTGGTTTTGAAAGTGGGAAACTTGGGAGTTTGATTCTTAAGGAAGAAATGAGGGTAAAGAAAAAAGGGTGTTTTGGTAATTGGAGGAAAATGGATATTAAGGTTAAAAAACATGTTTTTTTTATCATCTTCTGTTGATAAGGATAATGATAATGTGGTTGGTGGTGGCATCATAGGTAGTGACAAGAATGTGAAGATGAGGAAGAAGATAAAACATTATGGTAGCTTTGACAATCCATTTCATGCCAAGTCTCTTGTTTGGGTAAATCTTTTTAACTTTTTTAGTTAATTGCTAATTTTTAACACATTGTTTGTGTAGTGTATTTTGGTTTGATTTGGGTTATGCTTGTAGATTTTTTTTAATGCTTGAAACTATAGTTATAGAAGGTTTTGTTGTATTTTGTTATAGAAATTTCTATTTGGTTGTTCATGTGGGTTTGAATGTCAATTTTTTTTGTTGAACAAAGTTTGAATGTTAAGTTGAATAGTTGGTTATTTAGATTAAAACGTGTGGTAGATTTCACTTAACTAGTATATTGGCTTAGAGTGGAGAATATTGTAAATATAATTCTTGTGGCTTAGTGCATGATTCACTTTGTGATTTCAAAAAATTCCAAGTATAATTGATTTTGGTATTTTTGGATGTTTTCTTTTACTAAGATTGATTTTGTTTAATTAATTTTAGTTTGAACTAATCATTTATAAACTTGTGGCACGAACTATGATTTTAAGTTTAACACTTAAATTTATTGTTCGATTAACTTTCACGTATCTGATAATAAATCATTTTATTTAAACTCACTTTTAAAAAAAATTAATTTCATGAAATATGCACCATTTGGATTTACAAACAAAATTACATTATGTAAAAATAAAAGTATCACTGAATTATTCAGTCAAATTCCAAATATGCACTATAGCCAAGATGGTCACATCTAGTCTTTGTAAAAAAAAGAAGAATAATAATAATGTTGGGAAGTTTTACTCCATGCTAGTGATTTTTTCTAAAATACGAGTAGGGTAAATAGAAATAAGAAAATGGACAGTTTTATTTTGTGTAAAGATATGGTCCCCAAATGTTGGAACTACTTTTGATTTTGCAGACAAAGATGTGTGAAGGATGGAAGCGTGTGGTTCCATGGAAGAGTGAAAAAGTGAACAAGTATCAGCGTTGGTGGTTTTAA

Protein sequence

>MS.gene067276.t1

MEACEEENGKKIPKLPLFMSPPPMHSPERSGTKTPPLHITASIPFGWEEEPGKPKPCTDIVTFSNPTLVKCLELPPRLFIDTKAPSPTTVLDGPYKKECSDHSFGFESGKLGSLILKEEMRDNDNVVGGGIIGSDKNVKMRKKIKHYGSFDNPFHAKSLVWTKMCEGWKRVVPWKSEKVNKYQRWWF