AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280008177.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008177.01.T01 MTR_0062s0020 93.645 299 19 0 1 299 1 299 0.0 582
MsG0280008177.01.T01 MTR_0062s0090 62.333 300 107 4 1 298 1 296 3.19e-133 380
MsG0280008177.01.T01 MTR_0062s0040 62.333 300 107 4 1 298 1 296 3.19e-133 380
MsG0280008177.01.T01 MTR_0062s0060 62.333 300 107 4 1 298 1 296 3.19e-133 380
MsG0280008177.01.T01 MTR_0443s0040 46.078 306 143 7 2 297 14 307 3.28e-84 256
MsG0280008177.01.T01 MTR_0002s1060 47.475 297 142 7 2 297 14 297 2.89e-80 245
MsG0280008177.01.T01 MTR_0062s0170 47.883 307 136 6 2 297 13 306 4.62e-75 232
MsG0280008177.01.T01 MTR_0062s0110 47.883 307 136 6 2 297 13 306 4.62e-75 232
MsG0280008177.01.T01 MTR_0062s0130 47.883 307 136 6 2 297 13 306 4.62e-75 232
MsG0280008177.01.T01 MTR_2g036240 47.883 307 136 6 2 297 13 306 4.62e-75 232
MsG0280008177.01.T01 MTR_2g036260 47.883 307 136 6 2 297 13 306 4.62e-75 232
MsG0280008177.01.T01 MTR_2g036290 47.883 307 136 6 2 297 13 306 4.62e-75 232
MsG0280008177.01.T01 MTR_8g046730 47.883 307 136 6 2 297 13 306 4.62e-75 232
MsG0280008177.01.T01 MTR_0002s0040 45.215 303 140 9 2 300 13 293 2.99e-71 222
MsG0280008177.01.T01 MTR_0263s0020 44.631 298 139 9 2 295 13 288 7.89e-67 211
MsG0280008177.01.T01 MTR_1457s0010 43.578 218 105 5 58 275 1 200 8.08e-49 162
MsG0280008177.01.T01 MTR_2g096030 35.336 283 147 15 3 276 30 285 1.36e-33 125
MsG0280008177.01.T01 MTR_6g079630 33.115 305 162 13 4 299 34 305 6.61e-33 123
MsG0280008177.01.T01 MTR_2g096040 28.782 271 171 7 1 268 1 252 3.90e-22 93.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 57 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCAGAATTCCACTTCATTT+TGG 0.093829 2:+26767486 MsG0280008177.01.T01:CDS
AAACATCGACAACATTAATT+TGG 0.190403 2:+26767954 MsG0280008177.01.T01:CDS
TTCAATCGTTTCACATCTTC+TGG 0.194009 2:-26767589 None:intergenic
GAGAATGCCTAAAATCTTTC+GGG 0.255783 2:+26767393 None:intergenic
CCCGGGTCGGTGCTAATTCC+TGG 0.297804 2:-26768081 None:intergenic
CGCATTACCGCAAATTGTAT+TGG 0.306653 2:+26767929 MsG0280008177.01.T01:CDS
TGAGAATGCCTAAAATCTTT+CGG 0.315896 2:+26767392 None:intergenic
GAAGTGGAATTCTGAGATAT+TGG 0.347332 2:-26767479 None:intergenic
GCATTACCGCAAATTGTATT+GGG 0.349569 2:+26767930 MsG0280008177.01.T01:CDS
GACTCTGTGGTTCCTCCCTC+TGG 0.357071 2:+26768219 MsG0280008177.01.T01:CDS
ATCCTGCTGAGGATAATATA+TGG 0.369380 2:+26767677 MsG0280008177.01.T01:CDS
TGTCGTTTCGCCGAGTGCTT+AGG 0.372839 2:+26767826 MsG0280008177.01.T01:CDS
ACTTGGAATGTTGAATTCTT+CGG 0.404965 2:+26767565 MsG0280008177.01.T01:CDS
GTGAAGGTGGTAATAAGCTT+TGG 0.441299 2:+26767628 MsG0280008177.01.T01:CDS
AGTGGCAAAAGTATAATTGA+TGG 0.449209 2:+26767754 MsG0280008177.01.T01:CDS
GTCGTTTCGCCGAGTGCTTA+GGG 0.451371 2:+26767827 MsG0280008177.01.T01:CDS
TCTGCAGGCTCGGTGTGACC+CGG 0.475347 2:-26768099 None:intergenic
TTATCCTCAGCAGGATTGAA+TGG 0.479447 2:-26767670 None:intergenic
GTCCTCGAGGAGGAAAGCTT+TGG 0.480009 2:-26768247 None:intergenic
ATCTTAATAATCTTATCTGC+AGG 0.499766 2:-26768114 None:intergenic
AGAAGATGTGAAACGATTGA+AGG 0.499843 2:+26767591 MsG0280008177.01.T01:CDS
CCAAGGGAGATCTTCACTGC+TGG 0.512526 2:+26768138 MsG0280008177.01.T01:CDS
TCCAGGAATTAGCACCGACC+CGG 0.517069 2:+26768080 MsG0280008177.01.T01:CDS
TGCGAATCATTGTGCTCGGA+TGG 0.532171 2:-26767910 None:intergenic
ATAGTTATTTGACGAGGAGG+AGG 0.533574 2:-26768281 None:intergenic
CTGCAGGCTCGGTGTGACCC+GGG 0.534288 2:-26768098 None:intergenic
ATCCATATATTATCCTCAGC+AGG 0.534747 2:-26767679 None:intergenic
AAAATCTTTCGGGAATACAT+TGG 0.548757 2:+26767403 MsG0280008177.01.T01:CDS
CCAGCAGTGAAGATCTCCCT+TGG 0.551111 2:-26768138 None:intergenic
ATGCAATACTCCACACTCCC+TGG 0.557222 2:+26768174 MsG0280008177.01.T01:CDS
ATAAGATTATTAAGATGCCA+AGG 0.558202 2:+26768121 MsG0280008177.01.T01:CDS
TTCATAGTTATTTGACGAGG+AGG 0.561684 2:-26768284 None:intergenic
TTGCGAAGCCCAAAATGAAG+TGG 0.564681 2:-26767495 None:intergenic
AGCGATCATCCTAAAATACA+AGG 0.571710 2:+26767726 MsG0280008177.01.T01:CDS
TATAACTTGCCCTAAGCACT+CGG 0.577118 2:-26767836 None:intergenic
AATAATCTTATCTGCAGGCT+CGG 0.580364 2:-26768109 None:intergenic
AGGCTCGGTGTGACCCGGGT+CGG 0.585734 2:-26768094 None:intergenic
GATCTTTATCAATACTTGTG+AGG 0.590386 2:-26767801 None:intergenic
ATTGTGCTCGGATGGAGCAA+TGG 0.590662 2:-26767902 None:intergenic
CAATTCATAGTTATTTGACG+AGG 0.593526 2:-26768287 None:intergenic
GATCGCTTTGAGTGAAGCCA+CGG 0.594183 2:-26767710 None:intergenic
ATCTCCATTCAATCCTGCTG+AGG 0.599803 2:+26767666 MsG0280008177.01.T01:CDS
TTGGAACGCTCATGACTCTG+TGG 0.609097 2:+26768206 MsG0280008177.01.T01:CDS
AAGGTGGTAATAAGCTTTGG+AGG 0.610140 2:+26767631 MsG0280008177.01.T01:CDS
GAAAGCTTTGGTCTCACCAG+AGG 0.620928 2:-26768235 None:intergenic
CCAGGAATTAGCACCGACCC+GGG 0.628850 2:+26768081 MsG0280008177.01.T01:CDS
AAAGCTTTGGTCTCACCAGA+GGG 0.633717 2:-26768234 None:intergenic
CTAAAATACAAGGATCAAAG+TGG 0.636538 2:+26767736 MsG0280008177.01.T01:CDS
GACCAAAGCTTTCCTCCTCG+AGG 0.640614 2:+26768245 MsG0280008177.01.T01:CDS
GGTCGGTGCTAATTCCTGGA+AGG 0.642942 2:-26768077 None:intergenic
TAAGATTATTAAGATGCCAA+GGG 0.644007 2:+26768122 MsG0280008177.01.T01:CDS
GTAATGCGAATCATTGTGCT+CGG 0.674031 2:-26767914 None:intergenic
GCTTTGGTCTCACCAGAGGG+AGG 0.684013 2:-26768231 None:intergenic
GGCTTTGCAAGATGTCCTCG+AGG 0.691251 2:-26768260 None:intergenic
TTTGCAAGATGTCCTCGAGG+AGG 0.714299 2:-26768257 None:intergenic
TAGAGATCTGAATATCAATG+TGG 0.735369 2:+26767876 MsG0280008177.01.T01:CDS
TATATGGATGCAGAAAGCCG+TGG 0.757874 2:+26767693 MsG0280008177.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATAATAAAAATGTGAAGG+TGG + Chr2:26767615-26767634 MsG0280008177.01.T01:CDS 20.0%
!! GGAAAATAATAAAAATGTGA+AGG + Chr2:26767612-26767631 MsG0280008177.01.T01:CDS 20.0%
!!! ATGTTTGTACAATTTTAGTT+TGG - Chr2:26767999-26768018 None:intergenic 20.0%
! AAACATCGACAACATTAATT+TGG + Chr2:26767954-26767973 MsG0280008177.01.T01:CDS 25.0%
! ATAAGATTATTAAGATGCCA+AGG + Chr2:26768121-26768140 MsG0280008177.01.T01:CDS 25.0%
! ATCTTAATAATCTTATCTGC+AGG - Chr2:26768117-26768136 None:intergenic 25.0%
! GAGTATGATGATAAAAAAAG+AGG + Chr2:26767523-26767542 MsG0280008177.01.T01:CDS 25.0%
! TAAGATTATTAAGATGCCAA+GGG + Chr2:26768122-26768141 MsG0280008177.01.T01:CDS 25.0%
!!! TTGGAGTTGATGATTTTAAT+TGG - Chr2:26767463-26767482 None:intergenic 25.0%
AAAATCTTTCGGGAATACAT+TGG + Chr2:26767403-26767422 MsG0280008177.01.T01:CDS 30.0%
ACTTGGAATGTTGAATTCTT+CGG + Chr2:26767565-26767584 MsG0280008177.01.T01:CDS 30.0%
CTAAAATACAAGGATCAAAG+TGG + Chr2:26767736-26767755 MsG0280008177.01.T01:CDS 30.0%
GATCTTTATCAATACTTGTG+AGG - Chr2:26767804-26767823 None:intergenic 30.0%
TAGAGATCTGAATATCAATG+TGG + Chr2:26767876-26767895 MsG0280008177.01.T01:CDS 30.0%
! AGTGGCAAAAGTATAATTGA+TGG + Chr2:26767754-26767773 MsG0280008177.01.T01:CDS 30.0%
! ATGTATTCCCGAAAGATTTT+AGG - Chr2:26767403-26767422 None:intergenic 30.0%
! CACTTTGATCCTTGTATTTT+AGG - Chr2:26767738-26767757 None:intergenic 30.0%
! TCAGAATTCCACTTCATTTT+GGG + Chr2:26767487-26767506 MsG0280008177.01.T01:CDS 30.0%
! TGTTTTCCCAATACAATTTG+CGG - Chr2:26767939-26767958 None:intergenic 30.0%
!! TCACGTAAACTTTTTGAGAA+TGG - Chr2:26767436-26767455 None:intergenic 30.0%
AATAATCTTATCTGCAGGCT+CGG - Chr2:26768112-26768131 None:intergenic 35.0%
AGAAGATGTGAAACGATTGA+AGG + Chr2:26767591-26767610 MsG0280008177.01.T01:CDS 35.0%
AGCGATCATCCTAAAATACA+AGG + Chr2:26767726-26767745 MsG0280008177.01.T01:CDS 35.0%
ATCCATATATTATCCTCAGC+AGG - Chr2:26767682-26767701 None:intergenic 35.0%
ATCCTGCTGAGGATAATATA+TGG + Chr2:26767677-26767696 MsG0280008177.01.T01:CDS 35.0%
CGTTCCAAAGAAAAATACCA+GGG - Chr2:26768194-26768213 None:intergenic 35.0%
GCATTACCGCAAATTGTATT+GGG + Chr2:26767930-26767949 MsG0280008177.01.T01:CDS 35.0%
TTCAATCGTTTCACATCTTC+TGG - Chr2:26767592-26767611 None:intergenic 35.0%
! ATTCCTGGAAGGAATTTTTC+AGG - Chr2:26768069-26768088 None:intergenic 35.0%
! CAGGAGTTTTCAAAACAACT+TGG + Chr2:26767548-26767567 MsG0280008177.01.T01:CDS 35.0%
! CTCAGAATTCCACTTCATTT+TGG + Chr2:26767486-26767505 MsG0280008177.01.T01:CDS 35.0%
! GATGATAAAAAAAGAGGCAC+AGG + Chr2:26767529-26767548 MsG0280008177.01.T01:CDS 35.0%
!! GAAGTGGAATTCTGAGATAT+TGG - Chr2:26767482-26767501 None:intergenic 35.0%
AAGAAAAATACCAGGGAGTG+TGG - Chr2:26768187-26768206 None:intergenic 40.0%
ACTCCTGAAAAATTCCTTCC+AGG + Chr2:26768063-26768082 MsG0280008177.01.T01:CDS 40.0%
CGCATTACCGCAAATTGTAT+TGG + Chr2:26767929-26767948 MsG0280008177.01.T01:CDS 40.0%
GCGTTCCAAAGAAAAATACC+AGG - Chr2:26768195-26768214 None:intergenic 40.0%
GTAATGCGAATCATTGTGCT+CGG - Chr2:26767917-26767936 None:intergenic 40.0%
GTGAAGGTGGTAATAAGCTT+TGG + Chr2:26767628-26767647 MsG0280008177.01.T01:CDS 40.0%
TTATCCTCAGCAGGATTGAA+TGG - Chr2:26767673-26767692 None:intergenic 40.0%
! AAGGTGGTAATAAGCTTTGG+AGG + Chr2:26767631-26767650 MsG0280008177.01.T01:CDS 40.0%
! CACTCCCTGGTATTTTTCTT+TGG + Chr2:26768187-26768206 MsG0280008177.01.T01:CDS 40.0%
! TATAACTTGCCCTAAGCACT+CGG - Chr2:26767839-26767858 None:intergenic 40.0%
ATCTCCATTCAATCCTGCTG+AGG + Chr2:26767666-26767685 MsG0280008177.01.T01:CDS 45.0%
TATATGGATGCAGAAAGCCG+TGG + Chr2:26767693-26767712 MsG0280008177.01.T01:CDS 45.0%
TTGCGAAGCCCAAAATGAAG+TGG - Chr2:26767498-26767517 None:intergenic 45.0%
! AAAGCTTTGGTCTCACCAGA+GGG - Chr2:26768237-26768256 None:intergenic 45.0%
ATGCAATACTCCACACTCCC+TGG + Chr2:26768174-26768193 MsG0280008177.01.T01:CDS 50.0%
ATTGTGCTCGGATGGAGCAA+TGG - Chr2:26767905-26767924 None:intergenic 50.0%
TGCGAATCATTGTGCTCGGA+TGG - Chr2:26767913-26767932 None:intergenic 50.0%
TTGGAACGCTCATGACTCTG+TGG + Chr2:26768206-26768225 MsG0280008177.01.T01:CDS 50.0%
TTTGCAAGATGTCCTCGAGG+AGG - Chr2:26768260-26768279 None:intergenic 50.0%
! CATTTTGGGCTTCGCAAACG+AGG + Chr2:26767501-26767520 MsG0280008177.01.T01:CDS 50.0%
! GAAAGCTTTGGTCTCACCAG+AGG - Chr2:26768238-26768257 None:intergenic 50.0%
! GATCGCTTTGAGTGAAGCCA+CGG - Chr2:26767713-26767732 None:intergenic 50.0%
CCAAGGGAGATCTTCACTGC+TGG + Chr2:26768138-26768157 MsG0280008177.01.T01:CDS 55.0%
CCAGCAGTGAAGATCTCCCT+TGG - Chr2:26768141-26768160 None:intergenic 55.0%
GACCAAAGCTTTCCTCCTCG+AGG + Chr2:26768245-26768264 MsG0280008177.01.T01:CDS 55.0%
GGCTTTGCAAGATGTCCTCG+AGG - Chr2:26768263-26768282 None:intergenic 55.0%
GTCCTCGAGGAGGAAAGCTT+TGG - Chr2:26768250-26768269 None:intergenic 55.0%
GTCGTTTCGCCGAGTGCTTA+GGG + Chr2:26767827-26767846 MsG0280008177.01.T01:CDS 55.0%
! TGTCGTTTCGCCGAGTGCTT+AGG + Chr2:26767826-26767845 MsG0280008177.01.T01:CDS 55.0%
!! GGTCGGTGCTAATTCCTGGA+AGG - Chr2:26768080-26768099 None:intergenic 55.0%
!! TCCAGGAATTAGCACCGACC+CGG + Chr2:26768080-26768099 MsG0280008177.01.T01:CDS 55.0%
GACTCTGTGGTTCCTCCCTC+TGG + Chr2:26768219-26768238 MsG0280008177.01.T01:CDS 60.0%
GCTTTGGTCTCACCAGAGGG+AGG - Chr2:26768234-26768253 None:intergenic 60.0%
!! CCAGGAATTAGCACCGACCC+GGG + Chr2:26768081-26768100 MsG0280008177.01.T01:CDS 60.0%
!! CCCGGGTCGGTGCTAATTCC+TGG - Chr2:26768084-26768103 None:intergenic 65.0%
!! TCTGCAGGCTCGGTGTGACC+CGG - Chr2:26768102-26768121 None:intergenic 65.0%
!! AGGCTCGGTGTGACCCGGGT+CGG - Chr2:26768097-26768116 None:intergenic 70.0%
!! CTGCAGGCTCGGTGTGACCC+GGG - Chr2:26768101-26768120 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 26767397 26768299 26767397 ID=MsG0280008177.01;Name=MsG0280008177.01
Chr2 mRNA 26767397 26768299 26767397 ID=MsG0280008177.01.T01;Parent=MsG0280008177.01;Name=MsG0280008177.01.T01;_AED=0.40;_eAED=0.40;_QI=0|-1|0|1|-1|1|1|0|300
Chr2 exon 26767397 26768299 26767397 ID=MsG0280008177.01.T01:exon:18739;Parent=MsG0280008177.01.T01
Chr2 CDS 26767397 26768299 26767397 ID=MsG0280008177.01.T01:cds;Parent=MsG0280008177.01.T01
Gene Sequence

>MsG0280008177.01.T01

ATGCCTAAAATCTTTCGGGAATACATTGGTGTGAAGCCATTCTCAAAAAGTTTACGTGATTTTCCAATTAAAATCATCAACTCCAATATCTCAGAATTCCACTTCATTTTGGGCTTCGCAAACGAGGAGTATGATGATAAAAAAAGAGGCACAGGAGTTTTCAAAACAACTTGGAATGTTGAATTCTTCGGTCCAGAAGATGTGAAACGATTGAAGGAAAATAATAAAAATGTGAAGGTGGTAATAAGCTTTGGAGGTTGTGACGAAAAATCTCCATTCAATCCTGCTGAGGATAATATATGGATGCAGAAAGCCGTGGCTTCACTCAAAGCGATCATCCTAAAATACAAGGATCAAAGTGGCAAAAGTATAATTGATGGTATTGACATCAATTATGAGCACATCCTCACAAGTATTGATAAAGATCGATGTCGTTTCGCCGAGTGCTTAGGGCAAGTTATAACAGATCTCAAGAAAGATAGAGATCTGAATATCAATGTGGTGTCCATTGCTCCATCCGAGCACAATGATTCGCATTACCGCAAATTGTATTGGGAAAACATCGACAACATTAATTTGGTTGACTACAAGTTCTACAACCAAACTAAAATTGTACAAACATCTGAAGAATTTGTAAAACTTTATTTAAAGATAGCAAATGACTACACTCCTGAAAAATTCCTTCCAGGAATTAGCACCGACCCGGGTCACACCGAGCCTGCAGATAAGATTATTAAGATGCCAAGGGAGATCTTCACTGCTGGCTGCAAACATCTTATGCAATACTCCACACTCCCTGGTATTTTTCTTTGGAACGCTCATGACTCTGTGGTTCCTCCCTCTGGTGAGACCAAAGCTTTCCTCCTCGAGGACATCTTGCAAAGCCTCCTCCTCGTCAAATAA
Protein sequence

>MsG0280008177.01.T01

MPKIFREYIGVKPFSKSLRDFPIKIINSNISEFHFILGFANEEYDDKKRGTGVFKTTWNVEFFGPEDVKRLKENNKNVKVVISFGGCDEKSPFNPAEDNIWMQKAVASLKAIILKYKDQSGKSIIDGIDINYEHILTSIDKDRCRFAECLGQVITDLKKDRDLNINVVSIAPSEHNDSHYRKLYWENIDNINLVDYKFYNQTKIVQTSEEFVKLYLKIANDYTPEKFLPGISTDPGHTEPADKIIKMPREIFTAGCKHLMQYSTLPGIFLWNAHDSVVPPSGETKAFLLEDILQSLLLVK*