AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014191.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014191.01.T01 MTR_1g064570 65.169 267 63 6 2 261 156 399 4.43e-117 341
MsG0380014191.01.T01 MTR_5g038260 48.699 269 101 5 2 262 144 383 4.77e-83 254
MsG0380014191.01.T01 MTR_5g038230 43.726 263 97 5 2 262 142 355 5.45e-66 209
MsG0380014191.01.T01 MTR_5g082780 40.517 232 96 4 2 230 38 230 1.73e-46 155
MsG0380014191.01.T01 MTR_1g108740 36.981 265 105 7 2 260 136 344 1.33e-38 138
MsG0380014191.01.T01 MTR_7g076100 39.114 271 111 10 2 261 72 299 4.43e-36 130
MsG0380014191.01.T01 MTR_7g076110 36.232 276 114 10 2 261 83 312 1.36e-33 124
MsG0380014191.01.T01 MTR_7g077620 36.296 270 116 9 2 259 144 369 5.11e-32 121
MsG0380014191.01.T01 MTR_7g077660 36.861 274 109 11 2 261 144 367 7.71e-32 120
MsG0380014191.01.T01 MTR_7g077650 35.252 278 113 10 2 261 143 371 6.04e-31 118
MsG0380014191.01.T01 MTR_5g082770 40.741 189 75 4 2 187 136 290 4.79e-30 114
MsG0380014191.01.T01 MTR_6g023955 68.421 76 24 0 2 77 77 152 3.94e-29 109
MsG0380014191.01.T01 MTR_6g023955 72.131 61 16 1 202 261 149 209 2.08e-25 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 53 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCTAATGGACCGTTTGATA+TGG 0.203192 3:+51170483 MsG0380014191.01.T01:CDS
AATGTTAAAACTTGATAGTT+TGG 0.233392 3:+51170333 MsG0380014191.01.T01:CDS
TAAGGTCTGGACAAAACTTT+TGG 0.271360 3:+51169912 MsG0380014191.01.T01:CDS
CACGGACGCCACCTGCACTA+TGG 0.279715 3:+51170563 MsG0380014191.01.T01:CDS
CCCATATCAAACGGTCCATT+AGG 0.357341 3:-51170484 None:intergenic
ACCGATGTTATATTCTATAA+AGG 0.369663 3:+51169965 MsG0380014191.01.T01:CDS
ATGTTAAAACTTGATAGTTT+GGG 0.387582 3:+51170334 MsG0380014191.01.T01:CDS
CATTCCCAATGTTGTTTCTC+CGG 0.397980 3:+51170060 MsG0380014191.01.T01:CDS
CCTAATGGACCGTTTGATAT+GGG 0.398021 3:+51170484 MsG0380014191.01.T01:CDS
GTCAACATTGCCGTTATCAT+TGG 0.401687 3:+51170536 MsG0380014191.01.T01:CDS
GGCTTATCTTGTGAAATCAT+TGG 0.406267 3:+51170105 MsG0380014191.01.T01:CDS
CCATATCAAACGGTCCATTA+GGG 0.406401 3:-51170483 None:intergenic
TAATCATGTGGCCTAGTTGT+AGG 0.431478 3:-51169845 None:intergenic
CAATGTTGTTTCTCCGGAGG+GGG 0.446283 3:+51170066 MsG0380014191.01.T01:CDS
AGTTGTCAATTCCACTGAAA+AGG 0.452440 3:-51170595 None:intergenic
CCCAATGTTGTTTCTCCGGA+GGG 0.469146 3:+51170064 MsG0380014191.01.T01:CDS
GCACCGATTCCTTACCCTAA+TGG 0.477190 3:+51170469 MsG0380014191.01.T01:CDS
GGAATTTATAATGTAAAAGA+TGG 0.477521 3:+51170505 MsG0380014191.01.T01:CDS
ACGGACGCCACCTGCACTAT+GGG 0.479927 3:+51170564 MsG0380014191.01.T01:CDS
TAGTCTATGTTGTGAGTTGG+TGG 0.481178 3:+51169990 MsG0380014191.01.T01:CDS
CCCTCCGGAGAAACAACATT+GGG 0.492297 3:-51170064 None:intergenic
CATATTTGAAGTCTACAAGT+TGG 0.496858 3:+51170279 MsG0380014191.01.T01:CDS
CAATGAATCTGTATCTATGT+TGG 0.499683 3:+51170381 MsG0380014191.01.T01:CDS
ATCATTGGAGGGAGACTTGT+GGG 0.512293 3:+51170120 MsG0380014191.01.T01:CDS
AGACCTTATGAAAGCGAGAC+AGG 0.525581 3:-51169897 None:intergenic
TGTCTCGCTTTCATAAGGTC+TGG 0.527248 3:+51169899 MsG0380014191.01.T01:CDS
GTACCTGTCTCGCTTTCATA+AGG 0.527875 3:+51169894 MsG0380014191.01.T01:CDS
AATATGCTAGTACCACTACT+AGG 0.541825 3:-51170262 None:intergenic
TTATAAATTCCCATATCAAA+CGG 0.543398 3:-51170493 None:intergenic
CCAATGTTGTTTCTCCGGAG+GGG 0.546607 3:+51170065 MsG0380014191.01.T01:CDS
TTATCTTGTGAAATCATTGG+AGG 0.548164 3:+51170108 MsG0380014191.01.T01:CDS
TCAAACGGTCCATTAGGGTA+AGG 0.554276 3:-51170478 None:intergenic
TGTCAATTCCACTGAAAAGG+TGG 0.562132 3:-51170592 None:intergenic
TCCCAATGTTGTTTCTCCGG+AGG 0.562964 3:+51170063 MsG0380014191.01.T01:CDS
TGGGTTGTAAGAAAATATGT+TGG 0.569983 3:+51170139 MsG0380014191.01.T01:CDS
GGTGGAAGAACCCATAGTGC+AGG 0.571130 3:-51170574 None:intergenic
TATCGGCTAATCCTACAACT+AGG 0.572975 3:+51169834 MsG0380014191.01.T01:CDS
GGTCCATTAGGGTAAGGAAT+CGG 0.579935 3:-51170472 None:intergenic
TCCGTGTGAACCAATGATAA+CGG 0.587613 3:-51170546 None:intergenic
GATGATGATGGTGATGATGA+TGG 0.588649 3:+51170172 MsG0380014191.01.T01:CDS
GTGTTACTCGAAGGATGAGA+AGG 0.591492 3:+51170036 MsG0380014191.01.T01:CDS
CCCCTCCGGAGAAACAACAT+TGG 0.593352 3:-51170065 None:intergenic
GCCGTTATCATTGGTTCACA+CGG 0.599520 3:+51170545 MsG0380014191.01.T01:CDS
TATCTTGTGAAATCATTGGA+GGG 0.603454 3:+51170109 MsG0380014191.01.T01:CDS
AATCATTGGAGGGAGACTTG+TGG 0.605624 3:+51170119 MsG0380014191.01.T01:CDS
TTGGAATTAGATCTTCAAAG+TGG 0.618947 3:+51170298 MsG0380014191.01.T01:CDS
GCCTAGTCTATGTTGTGAGT+TGG 0.619212 3:+51169987 MsG0380014191.01.T01:CDS
GGAAGAACCCATAGTGCAGG+TGG 0.639369 3:-51170571 None:intergenic
GGTGTTAACTTGCCTAGTAG+TGG 0.642513 3:+51170250 MsG0380014191.01.T01:CDS
ACCAACTCACAACATAGACT+AGG 0.651240 3:-51169988 None:intergenic
GCCTTTATAGAATATAACAT+CGG 0.679693 3:-51169966 None:intergenic
GCTACAGCAACATAATCATG+TGG 0.697559 3:-51169857 None:intergenic
GATGATGGTGATGATGATGG+TGG 0.714594 3:+51170175 MsG0380014191.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GGAATTTATAATGTAAAAGA+TGG + Chr3:51170505-51170524 MsG0380014191.01.T01:CDS 20.0%
!! TTATAAATTCCCATATCAAA+CGG - Chr3:51170496-51170515 None:intergenic 20.0%
!!! AATGTTAAAACTTGATAGTT+TGG + Chr3:51170333-51170352 MsG0380014191.01.T01:CDS 20.0%
!!! ATGTTAAAACTTGATAGTTT+GGG + Chr3:51170334-51170353 MsG0380014191.01.T01:CDS 20.0%
! ACCGATGTTATATTCTATAA+AGG + Chr3:51169965-51169984 MsG0380014191.01.T01:CDS 25.0%
! GCCTTTATAGAATATAACAT+CGG - Chr3:51169969-51169988 None:intergenic 25.0%
CAATGAATCTGTATCTATGT+TGG + Chr3:51170381-51170400 MsG0380014191.01.T01:CDS 30.0%
TATCTTGTGAAATCATTGGA+GGG + Chr3:51170109-51170128 MsG0380014191.01.T01:CDS 30.0%
TGGGTTGTAAGAAAATATGT+TGG + Chr3:51170139-51170158 MsG0380014191.01.T01:CDS 30.0%
TTATCTTGTGAAATCATTGG+AGG + Chr3:51170108-51170127 MsG0380014191.01.T01:CDS 30.0%
TTGGAATTAGATCTTCAAAG+TGG + Chr3:51170298-51170317 MsG0380014191.01.T01:CDS 30.0%
! CATATTTGAAGTCTACAAGT+TGG + Chr3:51170279-51170298 MsG0380014191.01.T01:CDS 30.0%
!! TTTTGGACTTTTGTTGATGA+TGG + Chr3:51169929-51169948 MsG0380014191.01.T01:CDS 30.0%
!!! TTTTGATTTGTGTTACTCGA+AGG + Chr3:51170027-51170046 MsG0380014191.01.T01:CDS 30.0%
AATATGCTAGTACCACTACT+AGG - Chr3:51170265-51170284 None:intergenic 35.0%
GGCTTATCTTGTGAAATCAT+TGG + Chr3:51170105-51170124 MsG0380014191.01.T01:CDS 35.0%
! GATGATGATGATGATGATGA+TGG + Chr3:51170217-51170236 MsG0380014191.01.T01:CDS 35.0%
! TAAGGTCTGGACAAAACTTT+TGG + Chr3:51169912-51169931 MsG0380014191.01.T01:CDS 35.0%
!!! GGAGACAACGTTTTATTTGT+GGG + Chr3:51170355-51170374 MsG0380014191.01.T01:CDS 35.0%
ACCAACTCACAACATAGACT+AGG - Chr3:51169991-51170010 None:intergenic 40.0%
CCATATCAAACGGTCCATTA+GGG - Chr3:51170486-51170505 None:intergenic 40.0%
GCTACAGCAACATAATCATG+TGG - Chr3:51169860-51169879 None:intergenic 40.0%
GTCAACATTGCCGTTATCAT+TGG + Chr3:51170536-51170555 MsG0380014191.01.T01:CDS 40.0%
TAATCATGTGGCCTAGTTGT+AGG - Chr3:51169848-51169867 None:intergenic 40.0%
TCCGTGTGAACCAATGATAA+CGG - Chr3:51170549-51170568 None:intergenic 40.0%
! CCTAATGGACCGTTTGATAT+GGG + Chr3:51170484-51170503 MsG0380014191.01.T01:CDS 40.0%
! TAGTCTATGTTGTGAGTTGG+TGG + Chr3:51169990-51170009 MsG0380014191.01.T01:CDS 40.0%
! TATCGGCTAATCCTACAACT+AGG + Chr3:51169834-51169853 MsG0380014191.01.T01:CDS 40.0%
!! CATTCCCAATGTTGTTTCTC+CGG + Chr3:51170060-51170079 MsG0380014191.01.T01:CDS 40.0%
!! GATGATGATGGTGATGATGA+TGG + Chr3:51170172-51170191 MsG0380014191.01.T01:CDS 40.0%
!! GGTTTTCTCGATGATGATGA+TGG + Chr3:51170160-51170179 MsG0380014191.01.T01:CDS 40.0%
!!! GGGAGACAACGTTTTATTTG+TGG + Chr3:51170354-51170373 MsG0380014191.01.T01:CDS 40.0%
AATCATTGGAGGGAGACTTG+TGG + Chr3:51170119-51170138 MsG0380014191.01.T01:CDS 45.0%
AGACCTTATGAAAGCGAGAC+AGG - Chr3:51169900-51169919 None:intergenic 45.0%
AGGGGGATGATTATGCTCAT+CGG + Chr3:51170083-51170102 MsG0380014191.01.T01:CDS 45.0%
ATCATTGGAGGGAGACTTGT+GGG + Chr3:51170120-51170139 MsG0380014191.01.T01:CDS 45.0%
CCCATATCAAACGGTCCATT+AGG - Chr3:51170487-51170506 None:intergenic 45.0%
GCCTAGTCTATGTTGTGAGT+TGG + Chr3:51169987-51170006 MsG0380014191.01.T01:CDS 45.0%
GGTCCATTAGGGTAAGGAAT+CGG - Chr3:51170475-51170494 None:intergenic 45.0%
GTACCTGTCTCGCTTTCATA+AGG + Chr3:51169894-51169913 MsG0380014191.01.T01:CDS 45.0%
TCAAACGGTCCATTAGGGTA+AGG - Chr3:51170481-51170500 None:intergenic 45.0%
TGTCTCGCTTTCATAAGGTC+TGG + Chr3:51169899-51169918 MsG0380014191.01.T01:CDS 45.0%
! CCCTAATGGACCGTTTGATA+TGG + Chr3:51170483-51170502 MsG0380014191.01.T01:CDS 45.0%
! GGTGGTGATGATGATGATGA+TGG + Chr3:51170193-51170212 MsG0380014191.01.T01:CDS 45.0%
! GTGTTACTCGAAGGATGAGA+AGG + Chr3:51170036-51170055 MsG0380014191.01.T01:CDS 45.0%
!! GATGATGGTGATGATGATGG+TGG + Chr3:51170175-51170194 MsG0380014191.01.T01:CDS 45.0%
!! GCCGTTATCATTGGTTCACA+CGG + Chr3:51170545-51170564 MsG0380014191.01.T01:CDS 45.0%
!! GGTGTTAACTTGCCTAGTAG+TGG + Chr3:51170250-51170269 MsG0380014191.01.T01:CDS 45.0%
CCCTCCGGAGAAACAACATT+GGG - Chr3:51170067-51170086 None:intergenic 50.0%
GGGGGATGATTATGCTCATC+GGG + Chr3:51170084-51170103 MsG0380014191.01.T01:CDS 50.0%
TGAGCATAATCATCCCCCTC+CGG - Chr3:51170082-51170101 None:intergenic 50.0%
! GGGTTCTTCCACCTTTTCAG+TGG + Chr3:51170584-51170603 MsG0380014191.01.T01:CDS 50.0%
!! CAATGTTGTTTCTCCGGAGG+GGG + Chr3:51170066-51170085 MsG0380014191.01.T01:CDS 50.0%
!! CCAATGTTGTTTCTCCGGAG+GGG + Chr3:51170065-51170084 MsG0380014191.01.T01:CDS 50.0%
!! CCCAATGTTGTTTCTCCGGA+GGG + Chr3:51170064-51170083 MsG0380014191.01.T01:CDS 50.0%
!! GCACCGATTCCTTACCCTAA+TGG + Chr3:51170469-51170488 MsG0380014191.01.T01:CDS 50.0%
!! TCCCAATGTTGTTTCTCCGG+AGG + Chr3:51170063-51170082 MsG0380014191.01.T01:CDS 50.0%
CCCCTCCGGAGAAACAACAT+TGG - Chr3:51170068-51170087 None:intergenic 55.0%
GGAAGAACCCATAGTGCAGG+TGG - Chr3:51170574-51170593 None:intergenic 55.0%
GGTGGAAGAACCCATAGTGC+AGG - Chr3:51170577-51170596 None:intergenic 55.0%
ACGGACGCCACCTGCACTAT+GGG + Chr3:51170564-51170583 MsG0380014191.01.T01:CDS 60.0%
CACGGACGCCACCTGCACTA+TGG + Chr3:51170563-51170582 MsG0380014191.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 51169824 51170612 51169824 ID=MsG0380014191.01;Name=MsG0380014191.01
Chr3 mRNA 51169824 51170612 51169824 ID=MsG0380014191.01.T01;Parent=MsG0380014191.01;Name=MsG0380014191.01.T01;_AED=0.33;_eAED=0.33;_QI=0|-1|0|1|-1|1|1|0|262
Chr3 exon 51169824 51170612 51169824 ID=MsG0380014191.01.T01:exon:9879;Parent=MsG0380014191.01.T01
Chr3 CDS 51169824 51170612 51169824 ID=MsG0380014191.01.T01:cds;Parent=MsG0380014191.01.T01
Gene Sequence

>MsG0380014191.01.T01

ATGGTCATTTTATCGGCTAATCCTACAACTAGGCCACATGATTATGTTGCTGTAGCAATCTATAGCATGCGTACCTGTCTCGCTTTCATAAGGTCTGGACAAAACTTTTGGACTTTTGTTGATGATGGCTATTACTACTATACCGATGTTATATTCTATAAAGGCCTAGTCTATGTTGTGAGTTGGTGGAATAACATTGTCTCTTTTGATTTGTGTTACTCGAAGGATGAGAAGGTCATTCCCAATGTTGTTTCTCCGGAGGGGGATGATTATGCTCATCGGGCTTATCTTGTGAAATCATTGGAGGGAGACTTGTGGGTTGTAAGAAAATATGTTGGTTTTCTCGATGATGATGATGGTGATGATGATGGTGGTGATGATGATGATGATGGTGATGATGATGATGATGATGATGATGATGATGATGGTGTTAACTTGCCTAGTAGTGGTACTAGCATATTTGAAGTCTACAAGTTGGAATTAGATCTTCAAAGTGGTAAGCTTATACAAATGTTAAAACTTGATAGTTTGGGAGACAACGTTTTATTTGTGGGCGACAATGAATCTGTATCTATGTTGGCTTCATACTTCTCTAATTATCTACAAAAAGATTCAATCTATTATACTGATGACTTTTATGAAGACGCACCGATTCCTTACCCTAATGGACCGTTTGATATGGGAATTTATAATGTAAAAGATGGAAGCTTTAGTCAACATTGCCGTTATCATTGGTTCACACGGACGCCACCTGCACTATGGGTTCTTCCACCTTTTCAGTGGAATTGA
Protein sequence

>MsG0380014191.01.T01

MVILSANPTTRPHDYVAVAIYSMRTCLAFIRSGQNFWTFVDDGYYYYTDVIFYKGLVYVVSWWNNIVSFDLCYSKDEKVIPNVVSPEGDDYAHRAYLVKSLEGDLWVVRKYVGFLDDDDGDDDGGDDDDDGDDDDDDDDDDDGVNLPSSGTSIFEVYKLELDLQSGKLIQMLKLDSLGDNVLFVGDNESVSMLASYFSNYLQKDSIYYTDDFYEDAPIPYPNGPFDMGIYNVKDGSFSQHCRYHWFTRTPPALWVLPPFQWN*