AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene22440

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22440.t1 MTR_7g101080 99.609 256 1 0 1 256 1 256 0.0 511
MS.gene22440.t1 MTR_4g059720 59.394 165 63 2 27 188 26 189 2.17e-59 189
MS.gene22440.t1 MTR_2g093990 49.457 184 89 2 8 188 6 188 1.59e-51 168
MS.gene22440.t1 MTR_2g090765 44.493 227 120 4 9 232 8 231 5.87e-50 164
MS.gene22440.t1 MTR_2g017970 40.991 222 110 5 40 253 68 276 1.11e-46 157
MS.gene22440.t1 MTR_4g059840 42.211 199 110 4 32 229 65 259 1.08e-45 155
MS.gene22440.t1 MTR_4g059790 42.211 199 110 4 32 229 65 259 6.57e-45 152
MS.gene22440.t1 MTR_2g017950 39.754 244 129 6 26 256 56 294 8.64e-45 152
MS.gene22440.t1 MTR_2g093980 40.090 222 128 4 36 255 65 283 6.31e-44 150
MS.gene22440.t1 MTR_8g087460 47.929 169 76 5 29 187 76 242 6.40e-44 151
MS.gene22440.t1 MTR_8g087470 49.367 158 73 4 35 187 87 242 1.05e-43 150
MS.gene22440.t1 MTR_2g017960 40.639 219 109 5 40 250 68 273 1.05e-43 149
MS.gene22440.t1 MTR_4g053380 40.969 227 125 5 32 250 69 294 1.34e-43 149
MS.gene22440.t1 MTR_8g087450 38.991 218 128 4 29 245 66 279 1.59e-42 146
MS.gene22440.t1 MTR_4g059780 49.032 155 77 2 36 189 86 239 3.03e-39 138
MS.gene22440.t1 MTR_2g093970 45.205 146 78 2 40 184 69 213 7.41e-37 132
MS.gene22440.t1 MTR_5g098060 40.331 181 94 6 39 215 47 217 7.60e-33 120
MS.gene22440.t1 MTR_7g075453 35.632 174 105 4 32 203 176 344 1.93e-23 98.6
MS.gene22440.t1 MTR_2g437700 31.902 163 102 4 35 192 190 348 1.36e-18 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22440.t1 AT5G03170 63.776 196 65 3 10 204 7 197 3.84e-82 246
MS.gene22440.t1 AT5G60490 62.416 149 56 0 40 188 39 187 3.07e-64 201
MS.gene22440.t1 AT2G20520 49.246 199 91 5 11 202 5 200 1.86e-52 171
MS.gene22440.t1 AT1G03870 45.789 190 101 2 39 228 38 225 4.05e-52 170
MS.gene22440.t1 AT5G44130 43.590 195 109 1 39 232 35 229 1.17e-51 169
MS.gene22440.t1 AT2G04780 38.562 153 88 2 39 189 45 193 4.26e-27 105
MS.gene22440.t1 AT2G04780 38.562 153 88 2 39 189 45 193 4.26e-27 105
MS.gene22440.t1 AT3G60900 31.452 248 141 8 32 255 180 422 6.73e-22 94.4
MS.gene22440.t1 AT2G45470 32.661 248 133 8 32 253 180 419 2.63e-19 86.7
MS.gene22440.t1 AT3G46550 31.818 176 110 6 30 198 198 370 3.19e-19 86.7
MS.gene22440.t1 AT4G12730 26.639 244 166 8 18 256 167 402 5.38e-12 65.5

Find 44 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTTAATGTTACTACTTC+TGG 0.193003 7.1:-8510483 MS.gene22440:CDS
AGGACTTTGGTTATGTTTAA+TGG 0.233137 7.1:+8510795 None:intergenic
CTGTTGGTGCAAAGATTGTT+AGG 0.345141 7.1:+8510676 None:intergenic
CAATCAGCTTGCAGTGTATC+AGG 0.355039 7.1:-8510397 MS.gene22440:CDS
CCAGAAGTAGTAACATTAAG+AGG 0.370257 7.1:+8510483 None:intergenic
TTGAATGGCTACATAGTTAA+TGG 0.376862 7.1:-8510216 MS.gene22440:CDS
ATGTTGTTGTGTCTTGTTTG+TGG 0.393317 7.1:-8510164 MS.gene22440:CDS
TTCTCTGGCTTAGTCGGTGC+AGG 0.396164 7.1:+8510309 None:intergenic
TGATCAAGTGCTTCTTCCTA+TGG 0.415143 7.1:-8510373 MS.gene22440:CDS
TCGAGTGCTGTTGGTTTGAA+TGG 0.429163 7.1:-8510231 MS.gene22440:CDS
AATCAAGTTAATGTAACAAC+TGG 0.448742 7.1:-8510459 MS.gene22440:CDS
GAAACTGTAGAAGTTGAAGT+TGG 0.451256 7.1:+8510598 None:intergenic
TGATGCTCCGAAAGGGTCTT+CGG 0.456324 7.1:-8510271 MS.gene22440:CDS
GGACTATCCGAAGACCCTTT+CGG 0.481438 7.1:+8510264 None:intergenic
AACCCTCTACACACACAAGC+TGG 0.488371 7.1:-8510528 MS.gene22440:CDS
GCATTCTCAAGTCTAAAATC+AGG 0.494359 7.1:-8510648 MS.gene22440:CDS
TCCGACCGCTGCGCCTGCGG+AGG 0.501128 7.1:-8510334 MS.gene22440:CDS
CAACTCAACAACTCAAATCA+AGG 0.503271 7.1:-8510699 MS.gene22440:CDS
AGGTCCGACCGCTGCGCCTG+CGG 0.504633 7.1:-8510337 MS.gene22440:CDS
CGGGCTTCTGATGCTCCGAA+AGG 0.506709 7.1:-8510279 MS.gene22440:CDS
GATGGTGCTGGTGATATAGC+TGG 0.507084 7.1:+8510822 None:intergenic
GCTATATCACCAGCACCATC+AGG 0.510604 7.1:-8510819 MS.gene22440:CDS
GTCGGTGCAGGAGCCTCCGC+AGG 0.511376 7.1:+8510321 None:intergenic
GTTATGTTTAATGGTCCTGA+TGG 0.521667 7.1:+8510804 None:intergenic
CAAGCTGGAAACAGTGATGA+TGG 0.526045 7.1:-8510513 MS.gene22440:CDS
TTCCAGCTTGTGTGTGTAGA+GGG 0.528322 7.1:+8510526 None:intergenic
CTAAGCCAGAGAAAAGTGTC+CGG 0.530199 7.1:-8510299 MS.gene22440:CDS
CATAACCAAAGTCCTAGAAA+AGG 0.532648 7.1:-8510787 MS.gene22440:CDS
GGGCTTCTGATGCTCCGAAA+GGG 0.534306 7.1:-8510278 MS.gene22440:CDS
GCCTCCGCAGGCGCAGCGGT+CGG 0.537525 7.1:+8510333 None:intergenic
CTTTCGGAGCATCAGAAGCC+CGG 0.539752 7.1:+8510280 None:intergenic
GAAAGGGTCTTCGGATAGTC+CGG 0.540038 7.1:-8510262 MS.gene22440:CDS
GCTGATGATTCGAGTGCTGT+TGG 0.549087 7.1:-8510240 MS.gene22440:CDS
TAAGCCAGAGAAAAGTGTCC+GGG 0.555324 7.1:-8510298 MS.gene22440:CDS
TTTCCAGCTTGTGTGTGTAG+AGG 0.556847 7.1:+8510525 None:intergenic
AGGAGCCTCCGCAGGCGCAG+CGG 0.574666 7.1:+8510329 None:intergenic
CTTGAGAATGCATTATCTGT+TGG 0.575714 7.1:+8510660 None:intergenic
TTTAATGGTCCTGATGGTGC+TGG 0.578425 7.1:+8510810 None:intergenic
CAAACAAGACACAACAACAT+TGG 0.585876 7.1:+8510167 None:intergenic
ACCAAAGTCCTAGAAAAGGC+AGG 0.591566 7.1:-8510783 MS.gene22440:CDS
AAATTGAATAGCTTAGCCAT+TGG 0.595840 7.1:+8510909 None:intergenic
TGTGACATTGTGTAAAGTGT+TGG 0.619737 7.1:+8510567 None:intergenic
ACAGCACTCGAATCATCAGC+CGG 0.625967 7.1:+8510243 None:intergenic
GAGTTGTGAATTGATTCGAT+CGG 0.662773 7.1:+8510716 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATCAAGTTAATGTAACAAC+TGG - chr7.1:8510605-8510624 MS.gene22440:CDS 25.0%
AATACGTTGAGAAAAAAGAG+AGG + chr7.1:8510185-8510204 None:intergenic 30.0%
AGGACTTTGGTTATGTTTAA+TGG + chr7.1:8510272-8510291 None:intergenic 30.0%
TTGAATGGCTACATAGTTAA+TGG - chr7.1:8510848-8510867 MS.gene22440:CDS 30.0%
CAAACAAGACACAACAACAT+TGG + chr7.1:8510900-8510919 None:intergenic 35.0%
CAACTCAACAACTCAAATCA+AGG - chr7.1:8510365-8510384 MS.gene22440:CDS 35.0%
CATAACCAAAGTCCTAGAAA+AGG - chr7.1:8510277-8510296 MS.gene22440:CDS 35.0%
CCAGAAGTAGTAACATTAAG+AGG + chr7.1:8510584-8510603 None:intergenic 35.0%
CCTCTTAATGTTACTACTTC+TGG - chr7.1:8510581-8510600 MS.gene22440:CDS 35.0%
CTTGAGAATGCATTATCTGT+TGG + chr7.1:8510407-8510426 None:intergenic 35.0%
GAAACTGTAGAAGTTGAAGT+TGG + chr7.1:8510469-8510488 None:intergenic 35.0%
GTTATGTTTAATGGTCCTGA+TGG + chr7.1:8510263-8510282 None:intergenic 35.0%
TGTGACATTGTGTAAAGTGT+TGG + chr7.1:8510500-8510519 None:intergenic 35.0%
! GCATTCTCAAGTCTAAAATC+AGG - chr7.1:8510416-8510435 MS.gene22440:CDS 35.0%
!! ATGTTGTTGTGTCTTGTTTG+TGG - chr7.1:8510900-8510919 MS.gene22440:CDS 35.0%
!! GAGTTGTGAATTGATTCGAT+CGG + chr7.1:8510351-8510370 None:intergenic 35.0%
CTGTTGGTGCAAAGATTGTT+AGG + chr7.1:8510391-8510410 None:intergenic 40.0%
TGATCAAGTGCTTCTTCCTA+TGG - chr7.1:8510691-8510710 MS.gene22440:CDS 40.0%
! CTTCTTCCTATGGCACTTTT+TGG - chr7.1:8510701-8510720 MS.gene22440:CDS 40.0%
! TGAATTGTCCTGCCTTTTCT+AGG + chr7.1:8510292-8510311 None:intergenic 40.0%
!! ACACTTTTCTCTGGCTTAGT+CGG + chr7.1:8510764-8510783 None:intergenic 40.0%
ACCAAAGTCCTAGAAAAGGC+AGG - chr7.1:8510281-8510300 MS.gene22440:CDS 45.0%
CAAGCTGGAAACAGTGATGA+TGG - chr7.1:8510551-8510570 MS.gene22440:CDS 45.0%
CAATCAGCTTGCAGTGTATC+AGG - chr7.1:8510667-8510686 MS.gene22440:CDS 45.0%
TTCCAGCTTGTGTGTGTAGA+GGG + chr7.1:8510541-8510560 None:intergenic 45.0%
TTTCCAGCTTGTGTGTGTAG+AGG + chr7.1:8510542-8510561 None:intergenic 45.0%
! TTTAATGGTCCTGATGGTGC+TGG + chr7.1:8510257-8510276 None:intergenic 45.0%
!! CCTATGGCACTTTTTGGACA+AGG - chr7.1:8510707-8510726 MS.gene22440:CDS 45.0%
!! CCTTGTCCAAAAAGTGCCAT+AGG + chr7.1:8510710-8510729 None:intergenic 45.0%
!! CTAAGCCAGAGAAAAGTGTC+CGG - chr7.1:8510765-8510784 MS.gene22440:CDS 45.0%
!! TAAGCCAGAGAAAAGTGTCC+GGG - chr7.1:8510766-8510785 MS.gene22440:CDS 45.0%
!! TCGAGTGCTGTTGGTTTGAA+TGG - chr7.1:8510833-8510852 MS.gene22440:CDS 45.0%
!!! TCCTGCCTTTTCTAGGACTT+TGG + chr7.1:8510285-8510304 None:intergenic 45.0%
AACCCTCTACACACACAAGC+TGG - chr7.1:8510536-8510555 MS.gene22440:CDS 50.0%
ACAGCACTCGAATCATCAGC+CGG + chr7.1:8510824-8510843 None:intergenic 50.0%
GAAAGGGTCTTCGGATAGTC+CGG - chr7.1:8510802-8510821 MS.gene22440:CDS 50.0%
GCTATATCACCAGCACCATC+AGG - chr7.1:8510245-8510264 MS.gene22440:CDS 50.0%
GGACTATCCGAAGACCCTTT+CGG + chr7.1:8510803-8510822 None:intergenic 50.0%
TGATGCTCCGAAAGGGTCTT+CGG - chr7.1:8510793-8510812 MS.gene22440:CDS 50.0%
! GCTGATGATTCGAGTGCTGT+TGG - chr7.1:8510824-8510843 MS.gene22440:CDS 50.0%
!! GATGGTGCTGGTGATATAGC+TGG + chr7.1:8510245-8510264 None:intergenic 50.0%
GGGCTTCTGATGCTCCGAAA+GGG - chr7.1:8510786-8510805 MS.gene22440:CDS 55.0%
! CTTTCGGAGCATCAGAAGCC+CGG + chr7.1:8510787-8510806 None:intergenic 55.0%
! GAAGCCCGGACACTTTTCTC+TGG + chr7.1:8510773-8510792 None:intergenic 55.0%
! TTCTCTGGCTTAGTCGGTGC+AGG + chr7.1:8510758-8510777 None:intergenic 55.0%
CGGGCTTCTGATGCTCCGAA+AGG - chr7.1:8510785-8510804 MS.gene22440:CDS 60.0%
AGGAGCCTCCGCAGGCGCAG+CGG + chr7.1:8510738-8510757 None:intergenic 75.0%
AGGTCCGACCGCTGCGCCTG+CGG - chr7.1:8510727-8510746 MS.gene22440:CDS 75.0%
GTCGGTGCAGGAGCCTCCGC+AGG + chr7.1:8510746-8510765 None:intergenic 75.0%
! GCCTCCGCAGGCGCAGCGGT+CGG + chr7.1:8510734-8510753 None:intergenic 80.0%
! TCCGACCGCTGCGCCTGCGG+AGG - chr7.1:8510730-8510749 MS.gene22440:CDS 80.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 8510158 8510928 8510158 ID=MS.gene22440
chr7.1 mRNA 8510158 8510928 8510158 ID=MS.gene22440.t1;Parent=MS.gene22440
chr7.1 exon 8510158 8510928 8510158 ID=MS.gene22440.t1.exon1;Parent=MS.gene22440.t1
chr7.1 CDS 8510158 8510928 8510158 ID=cds.MS.gene22440.t1;Parent=MS.gene22440.t1
Gene Sequence

>MS.gene22440

ATGGCTAAGCTATTCAATTTCTTTCCTCTCTTTTTTCTCAACGTATTCATCATTGTGACATTGTTTCAAAGAATTTCAGCTCAACCAGCTATATCACCAGCACCATCAGGACCATTAAACATAACCAAAGTCCTAGAAAAGGCAGGACAATTCACAACATTCATCAAGCTACTAAAAGCAACACAAGTATCCGATCGAATCAATTCACAACTCAACAACTCAAATCAAGGCCTAACAATCTTTGCACCAACAGATAATGCATTCTCAAGTCTAAAATCAGGAACACTTAACTCAATCAGCACACAAAACCAACTTCAACTTCTACAGTTTCATATTCTACCAACACTTTACACAATGTCACAGTTTCAAACTGCAAGTAACCCTCTACACACACAAGCTGGAAACAGTGATGATGGAGAGTATCCTCTTAATGTTACTACTTCTGGAAATCAAGTTAATGTAACAACTGGTGTGATTGATACAACAGTTTCTAATACTATTTATAGTGACAATCAGCTTGCAGTGTATCAGGTTGATCAAGTGCTTCTTCCTATGGCACTTTTTGGACAAGGTCCGACCGCTGCGCCTGCGGAGGCTCCTGCACCGACTAAGCCAGAGAAAAGTGTCCGGGCTTCTGATGCTCCGAAAGGGTCTTCGGATAGTCCGGCTGATGATTCGAGTGCTGTTGGTTTGAATGGCTACATAGTTAATGGTGCTACATTGTTTGTTGCTGTTTTTGCCAATGTTGTTGTGTCTTGTTTGTGGATGTAA
Protein sequence

>MS.gene22440.t1

MAKLFNFFPLFFLNVFIIVTLFQRISAQPAISPAPSGPLNITKVLEKAGQFTTFIKLLKATQVSDRINSQLNNSNQGLTIFAPTDNAFSSLKSGTLNSISTQNQLQLLQFHILPTLYTMSQFQTASNPLHTQAGNSDDGEYPLNVTTSGNQVNVTTGVIDTTVSNTIYSDNQLAVYQVDQVLLPMALFGQGPTAAPAEAPAPTKPEKSVRASDAPKGSSDSPADDSSAVGLNGYIVNGATLFVAVFANVVVSCLWM