AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene92886


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene92886.t1 MTR_7g068500 90.598 117 11 0 1 117 1 117 5.70e-74 221
MS.gene92886.t1 MTR_7g068460 85.714 105 15 0 13 117 14 118 7.23e-62 190
MS.gene92886.t1 MTR_7g068470 88.372 86 10 0 32 117 2 87 1.22e-50 160
MS.gene92886.t1 MTR_7g068470 88.372 86 10 0 32 117 2 87 1.44e-50 160
MS.gene92886.t1 MTR_4g016510 79.310 87 17 1 32 117 6 92 1.70e-44 145
MS.gene92886.t1 MTR_7g068530 76.136 88 20 1 31 117 5 92 2.67e-42 139
MS.gene92886.t1 MTR_7g068550 73.563 87 22 1 32 117 6 92 5.75e-41 136
MS.gene92886.t1 MTR_7g068450 73.333 90 20 2 32 117 2 91 4.05e-39 131
MS.gene92886.t1 MTR_3g070460 67.778 90 28 1 29 117 3 92 6.80e-37 125
MS.gene92886.t1 MTR_7g068520 81.667 60 11 0 30 89 1 60 2.09e-30 106
MS.gene92886.t1 MTR_2g015510 43.023 86 44 2 29 109 2 87 1.84e-17 75.5
MS.gene92886.t1 MTR_2g015500 42.353 85 42 2 32 109 4 88 6.79e-16 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene92886.t1 AT2G38180 71.264 87 24 1 32 117 6 92 4.04e-38 130
MS.gene92886.t1 AT3G11210 70.115 87 25 1 32 117 6 92 1.52e-37 127
MS.gene92886.t1 AT5G45920 45.238 84 42 2 30 109 1 84 3.64e-18 76.3
MS.gene92886.t1 AT5G45920 45.238 84 42 2 30 109 1 84 3.64e-18 76.3
MS.gene92886.t1 AT5G45920 45.238 84 42 2 30 109 1 84 5.33e-18 76.6
MS.gene92886.t1 AT5G45920 45.238 84 42 2 30 109 1 84 5.33e-18 76.6
MS.gene92886.t1 AT5G62930 43.902 82 45 1 26 106 22 103 1.71e-16 73.2
MS.gene92886.t1 AT5G62930 46.053 76 40 1 32 106 2 77 4.63e-16 71.6

Find 27 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGCGTGCTGTGCAAGTTT+TGG 0.302736 7.3:-36780969 MS.gene92886:CDS
AGGCCTAAAATTGTGTTGTT+TGG 0.380075 7.3:-36781231 MS.gene92886:CDS
GTTCAATACAGTTGCTATGA+AGG 0.383262 7.3:-36781198 MS.gene92886:CDS
ATACAGTTGCTATGAAGGTT+GGG 0.406406 7.3:-36781193 MS.gene92886:CDS
GGACCAAGGCCACTTGGATA+TGG 0.410264 7.3:+36780655 None:intergenic
CGTCCATATCCAAGTGGCCT+TGG 0.417610 7.3:-36780658 MS.gene92886:CDS
TGCCATTGAGCAACCATCAT+TGG 0.437939 7.3:-36780713 MS.gene92886:CDS
AATACAGTTGCTATGAAGGT+TGG 0.465220 7.3:-36781194 MS.gene92886:CDS
ACCTTTCAATCCTCTCTCTC+TGG 0.465769 7.3:-36781377 MS.gene92886:intron
GATATGCTGCTTGGAATTCA+AGG 0.495898 7.3:-36780988 MS.gene92886:CDS
TTCTCACTTGTACGCTCGTA+AGG 0.496236 7.3:-36781160 MS.gene92886:intron
CACCAATGATGGTTGCTCAA+TGG 0.505270 7.3:+36780711 None:intergenic
GGGTTCTTCCATTGCACAGT+GGG 0.510655 7.3:-36781266 MS.gene92886:CDS
TTGGTGATTGTGTACTTTGG+TGG 0.528440 7.3:-36780694 MS.gene92886:CDS
AAGTACACAATCACCAATGA+TGG 0.528971 7.3:+36780700 None:intergenic
AAGGTTGGGGAGCAATAAAG+AGG 0.532708 7.3:-36781287 MS.gene92886:CDS
ACATGAGGACCAAGGCCACT+TGG 0.533170 7.3:+36780649 None:intergenic
GTTCTTCCATTGCACAGTGG+GGG 0.534821 7.3:-36781264 MS.gene92886:CDS
ACCAGAGAGAGAGGATTGAA+AGG 0.536372 7.3:+36781376 None:intergenic
TCATTGGTGATTGTGTACTT+TGG 0.556007 7.3:-36780697 MS.gene92886:CDS
TACAGTTGCTATGAAGGTTG+GGG 0.558888 7.3:-36781192 MS.gene92886:CDS
GAGAAAGTTACCAGAGAGAG+AGG 0.562172 7.3:+36781367 None:intergenic
GGTTCTTCCATTGCACAGTG+GGG 0.662401 7.3:-36781265 MS.gene92886:CDS
AGGGTTCTTCCATTGCACAG+TGG 0.698129 7.3:-36781267 MS.gene92886:CDS
TGTATTCGTCCATATCCAAG+TGG 0.698167 7.3:-36780664 MS.gene92886:CDS
AGGTTGGGGAGCAATAAAGA+GGG 0.711573 7.3:-36781286 MS.gene92886:CDS
GCAATGGTACATGAGGACCA+AGG 0.776215 7.3:+36780641 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATGATTGTATTGAAAAA+TGG + chr7.3:36780733-36780752 None:intergenic 15.0%
!!! TTTTCAATACAATCATATTA+TGG - chr7.3:36780734-36780753 MS.gene92886:intron 15.0%
!! AAATCAAAATAATCACATCA+TGG + chr7.3:36781259-36781278 None:intergenic 20.0%
!! ATTACGGTATTAATAATTAG+AGG + chr7.3:36780926-36780945 None:intergenic 20.0%
!!! TTAATACCGTAATGTTTTAT+TGG - chr7.3:36780933-36780952 MS.gene92886:intron 20.0%
!!! TTTGGATAAAATTTTTCCTA+AGG - chr7.3:36781095-36781114 MS.gene92886:intron 20.0%
! ACAGAACCAATAAAACATTA+CGG + chr7.3:36780942-36780961 None:intergenic 25.0%
! ATACAATCATATTATGGTGA+AGG - chr7.3:36780740-36780759 MS.gene92886:intron 25.0%
! GTCATTATATTCAATACCTT+AGG + chr7.3:36781114-36781133 None:intergenic 25.0%
! TTGAATATAATGACTGATGA+AGG - chr7.3:36781120-36781139 MS.gene92886:intron 25.0%
! TTGATCCAAAAAATTTCCTA+AGG - chr7.3:36781149-36781168 MS.gene92886:intron 25.0%
!!! ATATGCCTTAGGAAATTTTT+TGG + chr7.3:36781157-36781176 None:intergenic 25.0%
AAATGGTGGTATTACTTAAG+TGG + chr7.3:36781188-36781207 None:intergenic 30.0%
AATCATATTATGGTGAAGGT+TGG - chr7.3:36780744-36780763 MS.gene92886:intron 30.0%
ACTTATGTATATGCTGCAAA+TGG + chr7.3:36781205-36781224 None:intergenic 30.0%
ATCATATTATGGTGAAGGTT+GGG - chr7.3:36780745-36780764 MS.gene92886:intron 30.0%
! GAACCAAACAACACAATTTT+AGG + chr7.3:36780821-36780840 None:intergenic 30.0%
!! ACCTAACATTGATTTGATGT+AGG - chr7.3:36781017-36781036 MS.gene92886:intron 30.0%
!!! TGTTTTATTGGTTCTGTACA+TGG - chr7.3:36780945-36780964 MS.gene92886:intron 30.0%
AAGTACACAATCACCAATGA+TGG + chr7.3:36781349-36781368 None:intergenic 35.0%
AATACAGTTGCTATGAAGGT+TGG - chr7.3:36780852-36780871 MS.gene92886:intron 35.0%
ATACAGTTGCTATGAAGGTT+GGG - chr7.3:36780853-36780872 MS.gene92886:intron 35.0%
CACCTCTGATACTCTTATAT+TGG - chr7.3:36781293-36781312 MS.gene92886:intron 35.0%
GCCTACATCAAATCAATGTT+AGG + chr7.3:36781021-36781040 None:intergenic 35.0%
GTTCAATACAGTTGCTATGA+AGG - chr7.3:36780848-36780867 MS.gene92886:intron 35.0%
TATGTATATGCTGCAAATGG+TGG + chr7.3:36781202-36781221 None:intergenic 35.0%
TCATATTATGGTGAAGGTTG+GGG - chr7.3:36780746-36780765 MS.gene92886:intron 35.0%
! AGGCCTAAAATTGTGTTGTT+TGG - chr7.3:36780815-36780834 MS.gene92886:intron 35.0%
! TCATTGGTGATTGTGTACTT+TGG - chr7.3:36781349-36781368 MS.gene92886:intron 35.0%
!! GACCAATATAAGAGTATCAG+AGG + chr7.3:36781298-36781317 None:intergenic 35.0%
!! TGTAGGCTGATATAGTTTTG+CGG - chr7.3:36781034-36781053 MS.gene92886:intron 35.0%
GGTGGTATTACTTAAGTGGA+GGG + chr7.3:36781184-36781203 None:intergenic 40.0%
TACAGTTGCTATGAAGGTTG+GGG - chr7.3:36780854-36780873 MS.gene92886:intron 40.0%
TGGAGGGTAAAATATGCCTT+AGG + chr7.3:36781168-36781187 None:intergenic 40.0%
TGGTGGTATTACTTAAGTGG+AGG + chr7.3:36781185-36781204 None:intergenic 40.0%
TGTATTCGTCCATATCCAAG+TGG - chr7.3:36781382-36781401 MS.gene92886:CDS 40.0%
! GATATGCTGCTTGGAATTCA+AGG - chr7.3:36781058-36781077 MS.gene92886:intron 40.0%
! TTGGTGATTGTGTACTTTGG+TGG - chr7.3:36781352-36781371 MS.gene92886:intron 40.0%
!! GTAGGCTGATATAGTTTTGC+GGG - chr7.3:36781035-36781054 MS.gene92886:intron 40.0%
!! TAGGCTGATATAGTTTTGCG+GGG - chr7.3:36781036-36781055 MS.gene92886:intron 40.0%
AAGGTTGGGGAGCAATAAAG+AGG - chr7.3:36780759-36780778 MS.gene92886:intron 45.0%
ACCAGAGAGAGAGGATTGAA+AGG + chr7.3:36780673-36780692 None:intergenic 45.0%
ACCTTTCAATCCTCTCTCTC+TGG - chr7.3:36780669-36780688 MS.gene92886:CDS 45.0%
AGGTTGGGGAGCAATAAAGA+GGG - chr7.3:36780760-36780779 MS.gene92886:intron 45.0%
CACCAATGATGGTTGCTCAA+TGG + chr7.3:36781338-36781357 None:intergenic 45.0%
GAGAAAGTTACCAGAGAGAG+AGG + chr7.3:36780682-36780701 None:intergenic 45.0%
TGCCATTGAGCAACCATCAT+TGG - chr7.3:36781333-36781352 MS.gene92886:intron 45.0%
TTCTCACTTGTACGCTCGTA+AGG - chr7.3:36780886-36780905 MS.gene92886:intron 45.0%
! TGAGCTTAGCTCAGTTGGTA+TGG + chr7.3:36780988-36781007 None:intergenic 45.0%
AGGGTTCTTCCATTGCACAG+TGG - chr7.3:36780779-36780798 MS.gene92886:intron 50.0%
GGGTTCTTCCATTGCACAGT+GGG - chr7.3:36780780-36780799 MS.gene92886:intron 50.0%
GGTTCTTCCATTGCACAGTG+GGG - chr7.3:36780781-36780800 MS.gene92886:intron 50.0%
GTTCTTCCATTGCACAGTGG+GGG - chr7.3:36780782-36780801 MS.gene92886:intron 50.0%
! AAGGCGTGCTGTGCAAGTTT+TGG - chr7.3:36781077-36781096 MS.gene92886:intron 50.0%
! TTTTGCGGGGATATGCTGCT+TGG - chr7.3:36781049-36781068 MS.gene92886:intron 50.0%
ACAGTGGGGGAGCAATAACG+AGG - chr7.3:36780795-36780814 MS.gene92886:intron 55.0%
ATTGCTCCCCCACTGTGCAA+TGG + chr7.3:36780791-36780810 None:intergenic 55.0%
CCAACTGAGCTAAGCTCACG+AGG - chr7.3:36780990-36781009 MS.gene92886:CDS 55.0%
CCTCGTGAGCTTAGCTCAGT+TGG + chr7.3:36780993-36781012 None:intergenic 55.0%
CGTCCATATCCAAGTGGCCT+TGG - chr7.3:36781388-36781407 MS.gene92886:CDS 55.0%
GGACCAAGGCCACTTGGATA+TGG + chr7.3:36781394-36781413 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 36780651 36781417 36780651 ID=MS.gene92886
chr7.3 mRNA 36780651 36781417 36780651 ID=MS.gene92886.t1;Parent=MS.gene92886
chr7.3 exon 36781378 36781417 36781378 ID=MS.gene92886.t1.exon1;Parent=MS.gene92886.t1
chr7.3 CDS 36781378 36781417 36781378 ID=cds.MS.gene92886.t1;Parent=MS.gene92886.t1
chr7.3 exon 36781161 36781306 36781161 ID=MS.gene92886.t1.exon2;Parent=MS.gene92886.t1
chr7.3 CDS 36781161 36781306 36781161 ID=cds.MS.gene92886.t1;Parent=MS.gene92886.t1
chr7.3 exon 36780952 36781029 36780952 ID=MS.gene92886.t1.exon3;Parent=MS.gene92886.t1
chr7.3 CDS 36780952 36781029 36780952 ID=cds.MS.gene92886.t1;Parent=MS.gene92886.t1
chr7.3 exon 36780651 36780737 36780651 ID=MS.gene92886.t1.exon4;Parent=MS.gene92886.t1
chr7.3 CDS 36780651 36780737 36780651 ID=cds.MS.gene92886.t1;Parent=MS.gene92886.t1
Gene Sequence

>MS.gene92886

ATGGGATGCATATTATCTACCTTTCAATCCTCTCTCTCTGGTAACTTTCTCTCTATCTATCTTGAACAATCATTCTCTTCCATTTTTCAATACAATCATATTATGGTGAAGGTTGGGGAGCAATAAAGAGGGTTCTTCCATTGCACAGTGGGGGAGCAATAACGAGGCCTAAAATTGTGTTGTTTGGTTCTTCAATTGTTCAATACAGTTGCTATGAAGGTTGGGGAGCTACTCTTTCTCACTTGTACGCTCGTAAGGTATTATTATTTCTTCCTCTAATTATTAATACCGTAATGTTTTATTGGTTCTGTACATGGCATATATTATGCATTGTCCATACCAACTGAGCTAAGCTCACGAGGACAGACCTAACATTGATTTGATGTAGGCTGATATAGTTTTGCGGGGATATGCTGCTTGGAATTCAAGGCGTGCTGTGCAAGTTTTGGATAAAATTTTTCCTAAGGTATTGAATATAATGACTGATGAAGGCATCTTTTGATCCAAAAAATTTCCTAAGGCATATTTTACCCTCCACTTAAGTAATACCACCATTTGCAGCATATACATAAGTTTTTATGTTTTGAATATTTACATTTAGTTGTCCATGATGTGATTATTTTGATTTTGTTGACAAATACTCACCTCTGATACTCTTATATTGGTCATCTCTAATACAGAATGCCATTGAGCAACCATCATTGGTGATTGTGTACTTTGGTGGTAATGATTGTATTCGTCCATATCCAAGTGGCCTTGGTCCTCAT

Protein sequence

>MS.gene92886.t1

MGCILSTFQSSLSGWGAIKRVLPLHSGGAITRPKIVLFGSSIVQYSCYEGWGATLSHLYARKADIVLRGYAAWNSRRAVQVLDKIFPKNAIEQPSLVIVYFGGNDCIRPYPSGLGPH