AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041943

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041943 MtrunA17_Chr7g0275821 67.179 195 45 8 333 519 189 372 2.65e-61 207
MsaG041943 MtrunA17_Chr7g0275821 58.929 168 54 4 1 154 16 182 8.63e-55 190
MsaG041943 MtrunA17_Chr7g0260841 51.282 156 58 4 373 526 327 466 1.74e-39 150
MsaG041943 MtrunA17_Chr7g0260841 34.649 228 127 8 1 222 15 226 2.30e-28 118
MsaG041943 MtrunA17_Chr8g0366751 42.564 195 83 6 365 530 424 618 1.06e-32 132
MsaG041943 MtrunA17_Chr8g0366751 35.714 196 108 9 32 222 52 234 3.04e-21 97.8
MsaG041943 MtrunA17_Chr5g0411341 40.000 200 89 5 361 530 451 649 7.13e-30 124
MsaG041943 MtrunA17_Chr5g0411341 34.043 188 116 4 32 219 43 222 1.75e-21 98.6
MsaG041943 MtrunA17_Chr8g0346161 37.647 170 90 3 380 533 271 440 2.33e-24 106
MsaG041943 MtrunA17_Chr8g0346151 42.763 152 72 4 380 517 259 409 1.10e-23 103
MsaG041943 MtrunA17_Chr5g0411331 31.472 197 127 4 32 228 26 214 6.54e-22 95.5
MsaG041943 MtrunA17_Chr8g0386921 33.149 181 107 5 47 220 14 187 3.35e-20 94.4
MsaG041943 MtrunA17_Chr1g0185621 28.788 198 123 6 31 222 8 193 7.50e-19 90.1
MsaG041943 MtrunA17_Chr4g0049331 33.846 130 70 4 398 511 133 262 2.33e-12 68.2
MsaG041943 MtrunA17_Chr2g0280161 33.036 112 65 3 400 501 177 288 1.29e-11 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041943 AT1G01260.1 49.367 553 218 16 1 519 15 539 8.65e-155 455
MsaG041943 AT1G01260.2 49.367 553 218 16 1 519 15 539 8.65e-155 455
MsaG041943 AT1G01260.3 49.367 553 218 16 1 519 15 539 8.65e-155 455
MsaG041943 AT2G46510.1 42.606 568 234 16 1 533 15 525 7.71e-134 400
MsaG041943 AT4G17880.1 33.208 533 290 18 32 530 61 561 8.65e-62 213
MsaG041943 AT4G16430.1 38.866 247 129 8 1 241 14 244 1.23e-37 145
MsaG041943 AT4G16430.1 41.885 191 85 6 339 519 251 425 2.70e-36 141
MsaG041943 AT5G46760.1 47.191 178 78 5 355 517 369 545 3.28e-35 139
MsaG041943 AT5G46760.1 36.224 196 102 8 32 218 50 231 5.51e-21 97.1
MsaG041943 AT5G46830.1 27.944 501 276 16 52 530 49 486 2.06e-34 136
MsaG041943 AT1G32640.1 44.149 188 86 4 359 530 414 598 4.27e-33 134
MsaG041943 AT1G32640.1 32.735 223 143 5 32 252 66 283 1.94e-24 107
MsaG041943 AT4G09820.1 31.351 185 113 4 44 222 25 201 9.20e-21 95.9
MsaG041943 AT5G41315.1 30.583 206 117 5 32 222 12 206 1.24e-19 93.2
MsaG041943 AT5G41315.3 30.583 206 117 5 32 222 17 211 1.29e-19 92.8
MsaG041943 AT5G41315.2 30.583 206 117 5 32 222 20 214 1.51e-19 92.8
MsaG041943 AT1G63650.3 30.097 206 115 7 32 222 11 202 6.03e-19 90.9
MsaG041943 AT1G63650.1 30.097 206 115 7 32 222 11 202 6.03e-19 90.9
MsaG041943 AT1G63650.2 30.097 206 115 7 32 222 11 202 6.03e-19 90.9
MsaG041943 AT4G00480.3 29.082 196 110 5 47 222 31 217 3.04e-17 85.1
MsaG041943 AT4G00480.1 29.082 196 110 5 47 222 31 217 4.15e-17 84.7
MsaG041943 AT4G00480.2 29.082 196 110 5 47 222 31 217 5.07e-17 84.7
MsaG041943 AT4G00870.1 42.857 91 41 2 385 464 224 314 1.81e-12 69.7
MsaG041943 AT4G37850.2 30.464 151 84 4 367 501 119 264 8.04e-12 67.0
MsaG041943 AT4G37850.1 30.464 151 84 4 367 501 119 264 8.04e-12 67.0

Find 98 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGAAAAGGAACAGAATT+TGG 0.212083 8:+14334107 MsaT041943.1:CDS
GATGATGACAATTATGCTTT+TGG 0.241708 8:+14334216 MsaT041943.1:CDS
GTAGCTCTGATTATTGTGTT+AGG 0.270853 8:+14334373 MsaT041943.1:CDS
CTGATGTTGAAGCTTCTTGC+AGG 0.272050 8:+14335071 MsaT041943.1:CDS
GGTTCTACCCTTCCATTTGC+TGG 0.277893 8:-14335148 None:intergenic
GAAACTTGCTATTAGGAAAA+TGG 0.287769 8:+14334760 MsaT041943.1:CDS
TTCGGGAGAAACTTGCTATT+AGG 0.295924 8:+14334753 MsaT041943.1:CDS
CGAATTTCTCAGTCAAAGTT+TGG 0.303426 8:+14334036 MsaT041943.1:CDS
TGATTTAGGTGTTGTTGAAT+TGG 0.318577 8:+14334446 MsaT041943.1:CDS
GAGGAAAAGGAACAGAATTT+GGG 0.321673 8:+14334108 MsaT041943.1:CDS
CCAACTTTCAAACAAGAAAA+AGG 0.322553 8:-14334597 None:intergenic
ATTTCGTGTCTTTGAATGAT+TGG 0.333500 8:-14335513 None:intergenic
CAAAGATGCTTTGTCCATCT+TGG 0.334458 8:-14335254 None:intergenic
CTTGAACCCTGAACACCATT+TGG 0.342953 8:-14334833 None:intergenic
CAGAAGCTTCATGCGACATT+TGG 0.343871 8:+14334186 MsaT041943.1:CDS
TCAGTCAAAGTTTGGTGATT+GGG 0.345613 8:+14334044 MsaT041943.1:CDS
GTTGGGGAGATGGGTGTTGT+AGG 0.351229 8:+14334073 MsaT041943.1:CDS
TAGCTCTGATTATTGTGTTA+GGG 0.371392 8:+14334374 MsaT041943.1:CDS
CTCAGTCAAAGTTTGGTGAT+TGG 0.372558 8:+14334043 MsaT041943.1:CDS
CCTGGTCCACCATGTCCATT+AGG 0.373360 8:-14334297 None:intergenic
GGCTTTCTGCCACGTTTCCT+TGG 0.373396 8:-14335127 None:intergenic
ATGGACAAAGCATCTTTGTT+AGG 0.382051 8:+14335259 MsaT041943.1:CDS
GATTTAGGTGTTGTTGAATT+GGG 0.403406 8:+14334447 MsaT041943.1:CDS
CTCTGCCTCCACATGATTGA+GGG 0.404175 8:-14335170 None:intergenic
CCTCACACCGTTTGCTAGCT+CGG 0.409915 8:-14334933 None:intergenic
GAATCCGAGAGAGAGCAATT+AGG 0.414650 8:+14335331 MsaT041943.1:CDS
TCTCTGCCTCCACATGATTG+AGG 0.421326 8:-14335171 None:intergenic
GCAGCTTGAATATCGATATC+AGG 0.436804 8:-14335427 None:intergenic
TTGCATCTGGGAAGCATTTG+TGG 0.438927 8:+14334328 MsaT041943.1:CDS
CAACACAATCATCGTTTGCT+AGG 0.442496 8:+14334529 MsaT041943.1:CDS
GAGATCAATTGTTGGTGAAT+CGG 0.451925 8:+14335042 MsaT041943.1:CDS
TTGGGTTCTGTTAGAACGGT+TGG 0.453833 8:+14334465 MsaT041943.1:CDS
ATCCTAGTCCCTCCGATGAT+AGG 0.458410 8:+14335101 MsaT041943.1:CDS
CCTAATGGACATGGTGGACC+AGG 0.463512 8:+14334297 MsaT041943.1:CDS
GGTTAAGTCGATTTCATCGT+TGG 0.463827 8:+14334551 MsaT041943.1:CDS
AAGCTTCATGCGACATTTGG+TGG 0.467090 8:+14334189 MsaT041943.1:CDS
CGTGGCAGAAAGCCAGCAAA+TGG 0.467789 8:+14335136 MsaT041943.1:CDS
CTATTAGGAAAATGGATGAT+AGG 0.467799 8:+14334768 MsaT041943.1:CDS
CATGGGGAGGCCGTCCGAAT+GGG 0.483663 8:+14334795 MsaT041943.1:CDS
CTAACGTTTCGAATTTCAGT+TGG 0.492616 8:+14333995 MsaT041943.1:CDS
AAATGGATGATAGGCAATCA+TGG 0.495557 8:+14334777 MsaT041943.1:CDS
CTCCTATCATCGGAGGGACT+AGG 0.496928 8:-14335103 None:intergenic
CCTTCAGTGAGATCAATTGT+TGG 0.497365 8:+14335034 MsaT041943.1:CDS
GGAGGCCGTCCGAATGGGAA+TGG 0.498948 8:+14334800 MsaT041943.1:CDS
TTTCCTTGGCCTCCTATCAT+CGG 0.501052 8:-14335113 None:intergenic
AAACTAATTCCATTCCCATT+CGG 0.503424 8:-14334809 None:intergenic
TGATGTTGAAGCTTCTTGCA+GGG 0.510338 8:+14335072 MsaT041943.1:CDS
GGAACCTAAAGAGGAGGAAA+AGG 0.510397 8:+14334095 MsaT041943.1:CDS
TCATGGGGAGGCCGTCCGAA+TGG 0.512768 8:+14334794 MsaT041943.1:CDS
AACACAATCATCGTTTGCTA+GGG 0.513978 8:+14334530 MsaT041943.1:CDS
TTGGGGAGATGGGTGTTGTA+GGG 0.522649 8:+14334074 MsaT041943.1:CDS
GCATTGCTCGATGAAGGCCT+AGG 0.524340 8:-14334908 None:intergenic
GATTCCTAATTGCTCTCTCT+CGG 0.526835 8:-14335335 None:intergenic
TTAGGAATCGCTTCTAGAGA+TGG 0.528320 8:+14335349 MsaT041943.1:CDS
GATATTCAAGCTGCACAAGA+TGG 0.542476 8:+14335436 MsaT041943.1:CDS
CCAGATGCAAAACACTTACC+TGG 0.548160 8:-14334315 None:intergenic
TCGGCTGCATTGCTCGATGA+AGG 0.551061 8:-14334914 None:intergenic
AATGGATGATAGGCAATCAT+GGG 0.552039 8:+14334778 MsaT041943.1:CDS
AAGTCGATTTCATCGTTGGA+TGG 0.552935 8:+14334555 MsaT041943.1:CDS
AATGCAGCCGAGCTAGCAAA+CGG 0.553113 8:+14334926 MsaT041943.1:CDS
CCGAGCTAGCAAACGGTGTG+AGG 0.554145 8:+14334933 MsaT041943.1:CDS
TCAAGCAAAACTCAAGGCGA+TGG 0.554718 8:+14335309 MsaT041943.1:CDS
TTGTGCGAATATTTCCAAGA+TGG 0.559692 8:+14335240 MsaT041943.1:CDS
ATTGGACCGTGTGACCGATA+CGG 0.561637 8:+14334239 MsaT041943.1:CDS
CTTGGCCTCCTATCATCGGA+GGG 0.566577 8:-14335109 None:intergenic
GCAGAAAGCCAGCAAATGGA+AGG 0.566807 8:+14335140 MsaT041943.1:CDS
CCTTGGCCTCCTATCATCGG+AGG 0.567260 8:-14335110 None:intergenic
TTCTAGAGATGGATCATCAT+CGG 0.575066 8:+14335360 MsaT041943.1:CDS
CTAGTCCCTCCGATGATAGG+AGG 0.585538 8:+14335104 MsaT041943.1:CDS
ATGGTGTTCAGGGTTCAAGT+TGG 0.593722 8:+14334837 MsaT041943.1:CDS
TCTGCCTCCACATGATTGAG+GGG 0.599597 8:-14335169 None:intergenic
GTGTTGTAGGGAACCTAAAG+AGG 0.602831 8:+14334086 MsaT041943.1:CDS
TAATTCCATTCCCATTCGGA+CGG 0.603735 8:-14334805 None:intergenic
AAGAAAGAACATCTCCGTAT+CGG 0.609322 8:-14334253 None:intergenic
TGAATTGGGTTCTGTTAGAA+CGG 0.609474 8:+14334461 MsaT041943.1:CDS
TCAACAACACCTAAATCAGT+AGG 0.611590 8:-14334441 None:intergenic
CCTCCGATGATAGGAGGCCA+AGG 0.615234 8:+14335110 MsaT041943.1:CDS
CGAGCTTCAAGCAAAACTCA+AGG 0.620047 8:+14335303 MsaT041943.1:CDS
GTTCAGGGTTCAAGTTGGAG+AGG 0.625845 8:+14334842 MsaT041943.1:CDS
ACAAGATGGAGTTATCGTAA+AGG 0.628284 8:+14335450 MsaT041943.1:CDS
CCAACAATTGATCTCACTGA+AGG 0.629626 8:-14335034 None:intergenic
AAGCTCGTTGATGTAAGCAA+TGG 0.643072 8:-14335287 None:intergenic
AAGTTTCTCCCGAAAATGTG+TGG 0.644313 8:-14334744 None:intergenic
GGTAGAACCCCTCAATCATG+TGG 0.644553 8:+14335162 MsaT041943.1:CDS
GTGACTTAATTATGAATGTG+TGG 0.646250 8:-14335581 None:intergenic
AGGAAAAGGAACAGAATTTG+GGG 0.646477 8:+14334109 MsaT041943.1:CDS
ACATCTCCGTATCGGTCACA+CGG 0.649933 8:-14334245 None:intergenic
GATAGGAGGCCAAGGAAACG+TGG 0.651587 8:+14335118 MsaT041943.1:CDS
TCAACAACTATCAACAGCAA+CGG 0.665554 8:+14334969 MsaT041943.1:CDS
GGAGAGGTAGTCAAGTTGTG+AGG 0.666503 8:+14334858 MsaT041943.1:CDS
TTGTAGGGAACCTAAAGAGG+AGG 0.672145 8:+14334089 MsaT041943.1:CDS
TGTTGAAGCTTCTTGCAGGG+AGG 0.673213 8:+14335075 MsaT041943.1:CDS
TCAATCATGTGGAGGCAGAG+AGG 0.677489 8:+14335173 MsaT041943.1:CDS
AGAACCCCTCAATCATGTGG+AGG 0.677611 8:+14335165 MsaT041943.1:CDS
GATGATAGGCAATCATGGGG+AGG 0.677666 8:+14334782 MsaT041943.1:CDS
CAGAAAGCCAGCAAATGGAA+GGG 0.688128 8:+14335141 MsaT041943.1:CDS
TCTCACTGAAGGTCTCGATG+TGG 0.695158 8:-14335023 None:intergenic
ATGGATGATAGGCAATCATG+GGG 0.703008 8:+14334779 MsaT041943.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 14333862 14335594 14333862 ID=MsaG041943
Chr8 mRNA 14333862 14335594 14333862 ID=MsaT041943.1;Parent=MsaG041943
Chr8 exon 14333862 14334614 14333862 ID=MsaT041943.1.exon1;Parent=MsaT041943.1
Chr8 CDS 14333862 14334614 14333862 ID=cds.MsaT041943.1;Parent=MsaT041943.1
Chr8 exon 14334731 14335594 14334731 ID=MsaT041943.1.exon2;Parent=MsaT041943.1
Chr8 CDS 14334731 14335594 14334731 ID=cds.MsaT041943.1;Parent=MsaT041943.1
Gene Sequence

>MsaT041943.1

ATGGTGGTTGAAGTTTTAGGTGTTAATGCTTTTGATTATTTGGTTACAAATTCAGTTTCAAATGAGAATCTTTTGACAGCAATTGGGAGTGGTGAGAATCTTGAAAACAAGCTTTCTGATCTAGTTGAAAGATCTAACGTTTCGAATTTCAGTTGGAATTATGCGATTTTTTGGCGAATTTCTCAGTCAAAGTTTGGTGATTGGGTTTTAGGTTGGGGAGATGGGTGTTGTAGGGAACCTAAAGAGGAGGAAAAGGAACAGAATTTGGGGATGAAAAGTGTTGTTGAAGATGAAAAACAACAAAGAATGAGGAAAAGTGTGTTGCAGAAGCTTCATGCGACATTTGGTGGTTTAGATGATGACAATTATGCTTTTGGATTGGACCGTGTGACCGATACGGAGATGTTCTTTCTTGCATCAATGTATTTCTCTTTTCCTAATGGACATGGTGGACCAGGTAAGTGTTTTGCATCTGGGAAGCATTTGTGGTTATGTGATGCATTGAAATCTAGTAGCTCTGATTATTGTGTTAGGGCTTTTTTGGCTAAATCTGTTGGATTTAAGACTATTGTTTTAGTTCCTACTGATTTAGGTGTTGTTGAATTGGGTTCTGTTAGAACGGTTGGCGAGAGCGTTGAATTGTTGCAAACTATTAAATCTGTGTTTTCAACACAATCATCGTTTGCTAGGGTTAAGTCGATTTCATCGTTGGATGGAAAGAGAGACGAGAATGCTCCTTTTTCTTGTTTGAAAGATTTGAACTCGGCCACACATTTTCGGGAGAAACTTGCTATTAGGAAAATGGATGATAGGCAATCATGGGGAGGCCGTCCGAATGGGAATGGAATTAGTTTTCCAAATGGTGTTCAGGGTTCAAGTTGGAGAGGTAGTCAAGTTGTGAGGCAGCATGCGCCTGTCGATGTTTTTGCTCCTAGGCCTTCATCGAGCAATGCAGCCGAGCTAGCAAACGGTGTGAGGCAAGATTTCGTGCTCAACAACTATCAACAGCAACGGAAGCCACAAATGCAAATTGATTTTTCAGGAGCCACATCGAGACCTTCAGTGAGATCAATTGTTGGTGAATCGGAGCTTTCTGATGTTGAAGCTTCTTGCAGGGAGGAGAATCCTAGTCCCTCCGATGATAGGAGGCCAAGGAAACGTGGCAGAAAGCCAGCAAATGGAAGGGTAGAACCCCTCAATCATGTGGAGGCAGAGAGGCAAAGACGCGAGAAGCTAAACCAGCGTTTTTCGCATTCGAGCTGTTGTGCGAATATTTCCAAGATGGACAAAGCATCTTTGTTAGGAGATGCCATTGCTTACATCAACGAGCTTCAAGCAAAACTCAAGGCGATGGAATCCGAGAGAGAGCAATTAGGAATCGCTTCTAGAGATGGATCATCATCGGTATTGCCAGCAAACTCTAGAGCAGAAAATCATCAAAGCAGTGCTCCTGATATCGATATTCAAGCTGCACAAGATGGAGTTATCGTAAAGGTGAGTTGTTCTATTGATGTTCATCCTATTTCAAAACTCGTCCAATCATTCAAAGACACGAAATCGATATCGTTGAGTCGAAACTCAATGCTGCAAATGATACTGTCTTCCACACATTCATAA
Protein sequence

>MsaT041943.1

MVVEVLGVNAFDYLVTNSVSNENLLTAIGSGENLENKLSDLVERSNVSNFSWNYAIFWRISQSKFGDWVLGWGDGCCREPKEEEKEQNLGMKSVVEDEKQQRMRKSVLQKLHATFGGLDDDNYAFGLDRVTDTEMFFLASMYFSFPNGHGGPGKCFASGKHLWLCDALKSSSSDYCVRAFLAKSVGFKTIVLVPTDLGVVELGSVRTVGESVELLQTIKSVFSTQSSFARVKSISSLDGKRDENAPFSCLKDLNSATHFREKLAIRKMDDRQSWGGRPNGNGISFPNGVQGSSWRGSQVVRQHAPVDVFAPRPSSSNAAELANGVRQDFVLNNYQQQRKPQMQIDFSGATSRPSVRSIVGESELSDVEASCREENPSPSDDRRPRKRGRKPANGRVEPLNHVEAERQRREKLNQRFSHSSCCANISKMDKASLLGDAIAYINELQAKLKAMESEREQLGIASRDGSSSVLPANSRAENHQSSAPDIDIQAAQDGVIVKVSCSIDVHPISKLVQSFKDTKSISLSRNSMLQMILSSTHS*