AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480020026.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020026.01.T01 MTR_8g465910 96.356 247 6 1 1 247 1 244 2.31e-180 494
MsG0480020026.01.T01 MTR_2g090295 55.691 246 87 7 1 235 1 235 6.88e-93 273
MsG0480020026.01.T01 MTR_2g090330 60.000 110 40 1 36 145 25 130 4.86e-45 149
MsG0480020026.01.T01 MTR_2g090330 60.000 110 40 1 36 145 22 127 6.41e-45 148
MsG0480020026.01.T01 MTR_2g013550 42.056 214 98 7 36 233 19 222 2.24e-41 142
MsG0480020026.01.T01 MTR_2g090325 51.370 146 44 5 36 168 10 141 2.36e-40 138
MsG0480020026.01.T01 MTR_4g088875 38.914 221 110 8 24 233 11 217 2.00e-38 134
MsG0480020026.01.T01 MTR_4g088870 34.783 230 103 7 24 247 11 199 3.03e-37 130
MsG0480020026.01.T01 MTR_1g021895 48.421 95 40 2 41 135 27 112 2.49e-27 105
MsG0480020026.01.T01 MTR_5g019300 48.913 92 38 2 44 135 35 117 8.07e-27 104
MsG0480020026.01.T01 MTR_1g054260 38.525 122 71 3 22 139 62 183 3.77e-23 93.6
MsG0480020026.01.T01 MTR_1g054465 38.835 103 61 2 33 133 43 145 4.64e-23 93.2
MsG0480020026.01.T01 MTR_4g029440 47.423 97 41 3 41 135 127 215 8.97e-23 96.3
MsG0480020026.01.T01 MTR_4g029440 46.739 92 41 2 44 135 126 209 9.13e-23 96.3
MsG0480020026.01.T01 MTR_1g054280 40.909 110 51 3 42 151 74 169 3.21e-22 92.4
MsG0480020026.01.T01 MTR_7g093390 34.722 144 70 5 5 135 118 250 4.34e-22 94.7
MsG0480020026.01.T01 MTR_1g054210 44.565 92 43 3 44 135 122 205 5.31e-22 91.3
MsG0480020026.01.T01 MTR_2g061230 38.889 108 55 3 28 135 94 190 2.51e-19 84.3
MsG0480020026.01.T01 MTR_1g015390 38.667 75 34 2 34 107 353 416 3.33e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020026.01.T01 AT4G03510 43.922 255 129 6 1 247 1 249 2.25e-64 201
MsG0480020026.01.T01 AT4G03510 43.922 255 129 6 1 247 1 249 2.25e-64 201
MsG0480020026.01.T01 AT4G03510 43.922 255 129 6 1 247 1 249 2.25e-64 201
MsG0480020026.01.T01 AT4G03510 43.922 255 129 6 1 247 1 249 2.25e-64 201
MsG0480020026.01.T01 AT4G28270 37.850 214 94 6 39 247 14 193 7.78e-43 144
MsG0480020026.01.T01 AT4G27470 37.991 229 108 8 18 233 22 229 6.28e-39 135
MsG0480020026.01.T01 AT1G74990 37.903 124 64 3 29 152 2 112 2.86e-27 102
MsG0480020026.01.T01 AT1G19310 51.087 92 36 2 44 135 21 103 3.22e-27 105
MsG0480020026.01.T01 AT2G23780 45.098 102 46 3 35 135 16 108 2.39e-25 100
MsG0480020026.01.T01 AT2G23780 45.098 102 46 3 35 135 16 108 2.39e-25 100
MsG0480020026.01.T01 AT2G23780 45.098 102 46 3 35 135 16 108 2.39e-25 100
MsG0480020026.01.T01 AT3G58030 42.593 108 47 3 31 135 121 216 1.39e-22 95.9
MsG0480020026.01.T01 AT3G58030 42.593 108 47 3 31 135 121 216 1.39e-22 95.9
MsG0480020026.01.T01 AT3G58030 42.593 108 47 3 31 135 121 216 1.39e-22 95.9
MsG0480020026.01.T01 AT3G58030 42.593 108 47 3 31 135 121 216 1.39e-22 95.9
MsG0480020026.01.T01 AT2G42030 40.404 99 45 3 44 141 139 224 7.54e-21 90.9
MsG0480020026.01.T01 AT2G44410 32.609 138 79 3 4 135 77 206 9.53e-19 85.1
MsG0480020026.01.T01 AT2G26350 42.169 83 31 4 25 107 312 377 4.00e-11 62.8
MsG0480020026.01.T01 AT2G26350 42.169 83 31 4 25 107 241 306 4.39e-11 62.4

Find 55 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCTCATCCTTGGATTAT+TGG 0.208421 4:-32204745 None:intergenic
CCTTGAAAACTATAAGAATT+AGG 0.300025 4:-32204720 None:intergenic
TCCTCGCTAGTTCCATTATA+TGG 0.310263 4:+32204408 MsG0480020026.01.T01:CDS
ATCTTTGGTGAAATGATATA+TGG 0.327321 4:+32204657 MsG0480020026.01.T01:CDS
GTTGTAGCATTAAATGATCT+TGG 0.349454 4:-32204507 None:intergenic
GTTTGGCCACGGCCATATAA+TGG 0.354971 4:-32204420 None:intergenic
GATAACACATACGGAATCTT+TGG 0.359665 4:+32204642 MsG0480020026.01.T01:CDS
CTTCAGACACAGTCATGGTT+TGG 0.381200 4:-32204437 None:intergenic
ATGATATATGGAAGGATGTT+TGG 0.416293 4:+32204669 MsG0480020026.01.T01:CDS
TGTTGATAACTTTGATAAGT+AGG 0.417086 4:-32204540 None:intergenic
TTTGTGGTCATCTTTACTGC+TGG 0.419101 4:+32204286 MsG0480020026.01.T01:CDS
ATTAAATGTCTTCTCATCCT+TGG 0.439812 4:-32204753 None:intergenic
GCTGGCCTTGCATTTACAAA+TGG 0.444667 4:+32204304 MsG0480020026.01.T01:CDS
GAAGCAGAAGCCACAATGTC+CGG 0.455529 4:+32204362 MsG0480020026.01.T01:CDS
ATCGTCCATGTACTGATCTA+AGG 0.463858 4:-32204112 None:intergenic
CAAAGATGGCTTATCTTCAA+AGG 0.467141 4:-32204154 None:intergenic
CTTTGACTGTAACATCTGCC+TGG 0.478100 4:+32204236 MsG0480020026.01.T01:CDS
ACAAAACTAAGCTGCAAAAG+AGG 0.488046 4:-32204812 None:intergenic
CTTGGACCCGTAGGTCTTCG+AGG 0.488512 4:-32204489 None:intergenic
GTGAGTTCTGATTTGCATAC+CGG 0.493695 4:-32204381 None:intergenic
AGATGCATTTCTATCAGAAT+CGG 0.494969 4:-32204208 None:intergenic
AAGGCAAGGCTCAGCAAGTA+GGG 0.503764 4:+32204457 MsG0480020026.01.T01:CDS
TGTCGTGCCTCGAAGACCTA+CGG 0.507710 4:+32204482 MsG0480020026.01.T01:CDS
GTCGTGCCTCGAAGACCTAC+GGG 0.518622 4:+32204483 MsG0480020026.01.T01:CDS
CCGGGTCTTGCACACAATCC+AGG 0.522470 4:-32204254 None:intergenic
GATGTTTAGTACAAGTGGTT+CGG 0.525093 4:+32204614 MsG0480020026.01.T01:CDS
GAAGGCAAGGCTCAGCAAGT+AGG 0.536195 4:+32204456 MsG0480020026.01.T01:CDS
TCACCGATGTTTAGTACAAG+TGG 0.543488 4:+32204609 MsG0480020026.01.T01:CDS
ATCGGCAATCACATCGGTGG+AGG 0.550014 4:-32204190 None:intergenic
CATGACTGTGTCTGAAGGCA+AGG 0.550095 4:+32204443 MsG0480020026.01.T01:CDS
ATCAACATCCTCATCATCCT+CGG 0.557432 4:+32204556 MsG0480020026.01.T01:CDS
ATCGGTGAAGGGTAACTGCT+CGG 0.568341 4:-32204594 None:intergenic
TTCAAGGGACCAATAATCCA+AGG 0.572138 4:+32204736 MsG0480020026.01.T01:CDS
CTTGCCTTCAGACACAGTCA+TGG 0.574821 4:-32204442 None:intergenic
AAAGGTATCAATTTGAGAGA+CGG 0.577335 4:-32204136 None:intergenic
CTAGTTCCATTATATGGCCG+TGG 0.589093 4:+32204414 MsG0480020026.01.T01:CDS
CTTGTACTAAACATCGGTGA+AGG 0.589508 4:-32204606 None:intergenic
CCTGGATTGTGTGCAAGACC+CGG 0.596839 4:+32204254 MsG0480020026.01.T01:CDS
TCAAGCCATTTGTAAATGCA+AGG 0.597318 4:-32204309 None:intergenic
GATTTGCATACCGGACATTG+TGG 0.600937 4:-32204372 None:intergenic
GGAATTGAGTTGAATTGCCG+AGG 0.606224 4:-32204573 None:intergenic
TTAAATGATCTTGGACCCGT+AGG 0.606770 4:-32204498 None:intergenic
TTGTACTAAACATCGGTGAA+GGG 0.617159 4:-32204605 None:intergenic
TCTGATAGAAATGCATCTAG+TGG 0.620682 4:+32204213 MsG0480020026.01.T01:CDS
ATCAGAATCGGCAATCACAT+CGG 0.630444 4:-32204196 None:intergenic
ACACAGTCATGGTTTGGCCA+CGG 0.630922 4:-32204431 None:intergenic
TTGAATTGCCGAGGATGATG+AGG 0.635828 4:-32204564 None:intergenic
AAATGGCTTGACATACAAAG+TGG 0.643704 4:+32204321 MsG0480020026.01.T01:CDS
TTGGTGAAATGATATATGGA+AGG 0.648778 4:+32204661 MsG0480020026.01.T01:CDS
TCGGCACTAGATAACACATA+CGG 0.649004 4:+32204633 MsG0480020026.01.T01:CDS
AGAATCGGCAATCACATCGG+TGG 0.651949 4:-32204193 None:intergenic
CAAACCATGACTGTGTCTGA+AGG 0.652258 4:+32204438 MsG0480020026.01.T01:CDS
GCCATATAATGGAACTAGCG+AGG 0.658937 4:-32204409 None:intergenic
AATGGCCTTAGATCAGTACA+TGG 0.660626 4:+32204107 None:intergenic
GAACCACTTGTACTAAACAT+CGG 0.669442 4:-32204612 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATGTATAAATGTTTTCTATC+TGG - Chr4:32204698-32204717 None:intergenic 20.0%
!!! CTAATTCTTATAGTTTTCAA+GGG + Chr4:32204721-32204740 MsG0480020026.01.T01:CDS 20.0%
! ATCTTTGGTGAAATGATATA+TGG + Chr4:32204657-32204676 MsG0480020026.01.T01:CDS 25.0%
! CCTTGAAAACTATAAGAATT+AGG - Chr4:32204723-32204742 None:intergenic 25.0%
!! CCTAATTCTTATAGTTTTCA+AGG + Chr4:32204720-32204739 MsG0480020026.01.T01:CDS 25.0%
!!! TGTTGATAACTTTGATAAGT+AGG - Chr4:32204543-32204562 None:intergenic 25.0%
AGATGCATTTCTATCAGAAT+CGG - Chr4:32204211-32204230 None:intergenic 30.0%
ATGATATATGGAAGGATGTT+TGG + Chr4:32204669-32204688 MsG0480020026.01.T01:CDS 30.0%
ATTAAATGTCTTCTCATCCT+TGG - Chr4:32204756-32204775 None:intergenic 30.0%
GTTGTAGCATTAAATGATCT+TGG - Chr4:32204510-32204529 None:intergenic 30.0%
TTGGTGAAATGATATATGGA+AGG + Chr4:32204661-32204680 MsG0480020026.01.T01:CDS 30.0%
! ATAAGCCATCTTTGAAAAAC+TGG + Chr4:32204163-32204182 MsG0480020026.01.T01:CDS 30.0%
!! AAAGGTATCAATTTGAGAGA+CGG - Chr4:32204139-32204158 None:intergenic 30.0%
!! GTTTTCCAGTTTTTCAAAGA+TGG - Chr4:32204171-32204190 None:intergenic 30.0%
AAATGGCTTGACATACAAAG+TGG + Chr4:32204321-32204340 MsG0480020026.01.T01:CDS 35.0%
ACAAAACTAAGCTGCAAAAG+AGG - Chr4:32204815-32204834 None:intergenic 35.0%
CAAAGATGGCTTATCTTCAA+AGG - Chr4:32204157-32204176 None:intergenic 35.0%
GAACCACTTGTACTAAACAT+CGG - Chr4:32204615-32204634 None:intergenic 35.0%
GATAACACATACGGAATCTT+TGG + Chr4:32204642-32204661 MsG0480020026.01.T01:CDS 35.0%
GATGTTTAGTACAAGTGGTT+CGG + Chr4:32204614-32204633 MsG0480020026.01.T01:CDS 35.0%
TCAAGCCATTTGTAAATGCA+AGG - Chr4:32204312-32204331 None:intergenic 35.0%
TCTGATAGAAATGCATCTAG+TGG + Chr4:32204213-32204232 MsG0480020026.01.T01:CDS 35.0%
TCTTCTCATCCTTGGATTAT+TGG - Chr4:32204748-32204767 None:intergenic 35.0%
TTGTACTAAACATCGGTGAA+GGG - Chr4:32204608-32204627 None:intergenic 35.0%
ATCAACATCCTCATCATCCT+CGG + Chr4:32204556-32204575 MsG0480020026.01.T01:CDS 40.0%
ATCAGAATCGGCAATCACAT+CGG - Chr4:32204199-32204218 None:intergenic 40.0%
CTTGTACTAAACATCGGTGA+AGG - Chr4:32204609-32204628 None:intergenic 40.0%
TCACCGATGTTTAGTACAAG+TGG + Chr4:32204609-32204628 MsG0480020026.01.T01:CDS 40.0%
TCCTCGCTAGTTCCATTATA+TGG + Chr4:32204408-32204427 MsG0480020026.01.T01:CDS 40.0%
TCGGCACTAGATAACACATA+CGG + Chr4:32204633-32204652 MsG0480020026.01.T01:CDS 40.0%
TGACCACAAAAAGTGACTAC+CGG - Chr4:32204276-32204295 None:intergenic 40.0%
TTAAATGATCTTGGACCCGT+AGG - Chr4:32204501-32204520 None:intergenic 40.0%
TTCAAGGGACCAATAATCCA+AGG + Chr4:32204736-32204755 MsG0480020026.01.T01:CDS 40.0%
TTTGTGGTCATCTTTACTGC+TGG + Chr4:32204286-32204305 MsG0480020026.01.T01:CDS 40.0%
! ATCGTCCATGTACTGATCTA+AGG - Chr4:32204115-32204134 None:intergenic 40.0%
! GTGAGTTCTGATTTGCATAC+CGG - Chr4:32204384-32204403 None:intergenic 40.0%
CAAACCATGACTGTGTCTGA+AGG + Chr4:32204438-32204457 MsG0480020026.01.T01:CDS 45.0%
CTAGTTCCATTATATGGCCG+TGG + Chr4:32204414-32204433 MsG0480020026.01.T01:CDS 45.0%
CTTCAGACACAGTCATGGTT+TGG - Chr4:32204440-32204459 None:intergenic 45.0%
CTTTGACTGTAACATCTGCC+TGG + Chr4:32204236-32204255 MsG0480020026.01.T01:CDS 45.0%
GACCACAAAAAGTGACTACC+GGG - Chr4:32204275-32204294 None:intergenic 45.0%
GATTTGCATACCGGACATTG+TGG - Chr4:32204375-32204394 None:intergenic 45.0%
TTGAATTGCCGAGGATGATG+AGG - Chr4:32204567-32204586 None:intergenic 45.0%
! GCCATATAATGGAACTAGCG+AGG - Chr4:32204412-32204431 None:intergenic 45.0%
! TGGCTTCTGCTTCTCGTTTT+CGG - Chr4:32204355-32204374 None:intergenic 45.0%
!! GCTGGCCTTGCATTTACAAA+TGG + Chr4:32204304-32204323 MsG0480020026.01.T01:CDS 45.0%
!! GGAATTGAGTTGAATTGCCG+AGG - Chr4:32204576-32204595 None:intergenic 45.0%
AAGGCAAGGCTCAGCAAGTA+GGG + Chr4:32204457-32204476 MsG0480020026.01.T01:CDS 50.0%
AGAATCGGCAATCACATCGG+TGG - Chr4:32204196-32204215 None:intergenic 50.0%
ATCGGTGAAGGGTAACTGCT+CGG - Chr4:32204597-32204616 None:intergenic 50.0%
CATGACTGTGTCTGAAGGCA+AGG + Chr4:32204443-32204462 MsG0480020026.01.T01:CDS 50.0%
CTTGCCTTCAGACACAGTCA+TGG - Chr4:32204445-32204464 None:intergenic 50.0%
GAAGCAGAAGCCACAATGTC+CGG + Chr4:32204362-32204381 MsG0480020026.01.T01:CDS 50.0%
GTTTGGCCACGGCCATATAA+TGG - Chr4:32204423-32204442 None:intergenic 50.0%
! ACACAGTCATGGTTTGGCCA+CGG - Chr4:32204434-32204453 None:intergenic 50.0%
!!! GACCCGGTAGTCACTTTTTG+TGG + Chr4:32204270-32204289 MsG0480020026.01.T01:CDS 50.0%
ATCGGCAATCACATCGGTGG+AGG - Chr4:32204193-32204212 None:intergenic 55.0%
CCTGGATTGTGTGCAAGACC+CGG + Chr4:32204254-32204273 MsG0480020026.01.T01:CDS 55.0%
GAAGGCAAGGCTCAGCAAGT+AGG + Chr4:32204456-32204475 MsG0480020026.01.T01:CDS 55.0%
TGTCGTGCCTCGAAGACCTA+CGG + Chr4:32204482-32204501 MsG0480020026.01.T01:CDS 55.0%
CCGGGTCTTGCACACAATCC+AGG - Chr4:32204257-32204276 None:intergenic 60.0%
CTTGGACCCGTAGGTCTTCG+AGG - Chr4:32204492-32204511 None:intergenic 60.0%
GTCGTGCCTCGAAGACCTAC+GGG + Chr4:32204483-32204502 MsG0480020026.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 32204108 32204851 32204108 ID=MsG0480020026.01;Name=MsG0480020026.01
Chr4 mRNA 32204108 32204851 32204108 ID=MsG0480020026.01.T01;Parent=MsG0480020026.01;Name=MsG0480020026.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|247
Chr4 exon 32204108 32204851 32204108 ID=MsG0480020026.01.T01:exon:13087;Parent=MsG0480020026.01.T01
Chr4 CDS 32204108 32204851 32204108 ID=MsG0480020026.01.T01:cds;Parent=MsG0480020026.01.T01
Gene Sequence

>MsG0480020026.01.T01

ATGGCCTTAGATCAGTACATGGACGATACCGTCTCTCAAATTGATACCTTTGAAGATAAGCCATCTTTGAAAAACTGGAAAACCTCCACCGATGTGATTGCCGATTCTGATAGAAATGCATCTAGTGGCTTTGACTGTAACATCTGCCTGGATTGTGTGCAAGACCCGGTAGTCACTTTTTGTGGTCATCTTTACTGCTGGCCTTGCATTTACAAATGGCTTGACATACAAAGTGGCATCTCTTCCGAAAACGAGAAGCAGAAGCCACAATGTCCGGTATGCAAATCAGAACTCACTCAATCCTCGCTAGTTCCATTATATGGCCGTGGCCAAACCATGACTGTGTCTGAAGGCAAGGCTCAGCAAGTAGGGATTGTCGTGCCTCGAAGACCTACGGGTCCAAGATCATTTAATGCTACAACTGTTTCACAACCTACTTATCAAAGTTATCAACATCCTCATCATCCTCGGCAATTCAACTCAATTCCGAGCAGTTACCCTTCACCGATGTTTAGTACAAGTGGTTCGGCACTAGATAACACATACGGAATCTTTGGTGAAATGATATATGGAAGGATGTTTGGTAACCAGATAGAAAACATTTATACATATCCTAATTCTTATAGTTTTCAAGGGACCAATAATCCAAGGATGAGAAGACATTTAATGCAAGTTGATAAATCACTCAACAGAATCAGTTTTTTCCTCTTTTGCAGCTTAGTTTTGTGTGTTCTCTTATTTTGA

Protein sequence

>MsG0480020026.01.T01

MALDQYMDDTVSQIDTFEDKPSLKNWKTSTDVIADSDRNASSGFDCNICLDCVQDPVVTFCGHLYCWPCIYKWLDIQSGISSENEKQKPQCPVCKSELTQSSLVPLYGRGQTMTVSEGKAQQVGIVVPRRPTGPRSFNATTVSQPTYQSYQHPHHPRQFNSIPSSYPSPMFSTSGSALDNTYGIFGEMIYGRMFGNQIENIYTYPNSYSFQGTNNPRMRRHLMQVDKSLNRISFFLFCSLVLCVLLF*