AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039359.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039359.01.T01 MTR_7g072120 83.333 210 27 4 1 202 1 210 2.68e-128 360
MsG0780039359.01.T01 MTR_7g072170 80.952 210 32 2 1 202 1 210 4.75e-125 352
MsG0780039359.01.T01 MTR_7g072270 79.710 207 36 1 1 201 1 207 2.66e-124 350
MsG0780039359.01.T01 MTR_7g072140 79.524 210 35 2 1 202 1 210 5.00e-123 347
MsG0780039359.01.T01 MTR_7g072250 67.742 217 49 3 1 200 25 237 1.86e-100 291
MsG0780039359.01.T01 MTR_7g072270 78.788 165 29 1 1 159 1 165 4.22e-96 276
MsG0780039359.01.T01 MTR_7g071710 95.763 118 5 0 86 203 1 118 3.56e-81 237
MsG0780039359.01.T01 MTR_4g029430 57.360 197 79 2 6 201 5 197 2.26e-80 238
MsG0780039359.01.T01 MTR_1g014180 52.151 186 79 5 16 196 5 185 1.05e-58 182
MsG0780039359.01.T01 MTR_1g014150 46.739 184 90 4 14 195 11 188 2.46e-47 154
MsG0780039359.01.T01 MTR_1g014160 40.426 188 87 6 26 195 59 239 4.24e-30 111
MsG0780039359.01.T01 MTR_2g103840 31.138 167 107 5 39 201 42 204 1.38e-22 91.3
MsG0780039359.01.T01 MTR_5g074550 31.111 180 109 6 26 195 17 191 4.97e-21 86.7
MsG0780039359.01.T01 MTR_4g010180 26.738 187 130 6 20 202 11 194 4.02e-20 84.7
MsG0780039359.01.T01 MTR_2g103850 29.762 168 110 5 39 202 43 206 1.23e-19 83.6
MsG0780039359.01.T01 MTR_8g099000 28.042 189 115 8 29 198 45 231 9.53e-12 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039359.01.T01 AT5G01750 57.000 200 85 1 4 202 15 214 2.56e-91 266
MsG0780039359.01.T01 AT3G11740 59.259 189 75 2 16 202 3 191 1.21e-82 244
MsG0780039359.01.T01 AT2G14560 51.295 193 92 2 9 200 1 192 5.12e-71 215
MsG0780039359.01.T01 AT2G14560 50.510 196 95 2 6 200 58 252 4.84e-70 214
MsG0780039359.01.T01 AT1G33840 46.919 211 100 2 1 199 1 211 3.76e-68 208
MsG0780039359.01.T01 AT5G01750 55.063 158 70 1 4 160 15 172 2.78e-66 201
MsG0780039359.01.T01 AT2G14560 48.171 164 83 2 9 171 1 163 4.36e-55 173
MsG0780039359.01.T01 AT2G14560 49.045 157 78 2 6 161 58 213 3.74e-54 173
MsG0780039359.01.T01 AT1G33840 43.353 173 86 2 1 161 1 173 3.39e-50 161
MsG0780039359.01.T01 AT3G16900 42.703 185 86 4 16 199 15 180 3.77e-49 158
MsG0780039359.01.T01 AT3G56180 36.082 194 117 4 12 201 14 204 2.51e-37 129
MsG0780039359.01.T01 AT3G56180 35.567 194 116 5 12 201 14 202 5.15e-35 123
MsG0780039359.01.T01 AT3G10986 33.158 190 120 4 15 197 3 192 2.52e-30 110
MsG0780039359.01.T01 AT3G15810 31.548 168 105 6 39 202 44 205 6.59e-24 94.7
MsG0780039359.01.T01 AT1G80120 33.333 168 105 4 39 202 30 194 2.72e-19 82.4
MsG0780039359.01.T01 AT2G38640 31.361 169 107 5 33 198 30 192 1.66e-16 74.7
MsG0780039359.01.T01 AT5G20640 28.177 181 113 5 36 201 33 211 3.97e-15 71.2
MsG0780039359.01.T01 AT2G05910 29.586 169 98 8 39 198 28 184 1.85e-13 66.2
MsG0780039359.01.T01 AT5G41590 23.864 176 124 4 33 198 44 219 5.47e-11 60.1

Find 45 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATCACAAACATCTTCTT+TGG 0.257604 7:+62720283 None:intergenic
CTTGCGACGTAGGGTGGTTA+TGG 0.262386 7:+62721009 None:intergenic
GGATTTGGCGGTCGTGAAAA+AGG 0.350662 7:-62721152 MsG0780039359.01.T01:CDS
TTGCGACGTAGGGTGGTTAT+GGG 0.360381 7:+62721010 None:intergenic
GCACCCACCACCACCATATT+CGG 0.362096 7:-62721202 MsG0780039359.01.T01:CDS
ACAATATTGAGAGCCGAATA+TGG 0.363340 7:+62721189 None:intergenic
ATTGCCATTGACATCTTTAA+CGG 0.374139 7:+62721105 None:intergenic
GTGGTGGTGGGTGCCGGCAT+CGG 0.380802 7:+62721211 None:intergenic
TGCTCCGTATCCAGTGGATT+TGG 0.401326 7:-62721167 MsG0780039359.01.T01:CDS
ATGAAAGCGTAATCAACATT+AGG 0.408032 7:+62720005 None:intergenic
CCTTCGTGACCGCCGTGTCT+TGG 0.416816 7:-62721050 MsG0780039359.01.T01:CDS
GCCGGCATCGGTGGTTGATA+AGG 0.437331 7:+62721223 None:intergenic
AATATGGTGGTGGTGGGTGC+CGG 0.438186 7:+62721205 None:intergenic
GATAAACAGTGACTGCAAAA+TGG 0.440688 7:+62720027 None:intergenic
GTGGTGGGTGCCGGCATCGG+TGG 0.452113 7:+62721214 None:intergenic
CGATCTTGTATTGTTTATGC+TGG 0.461622 7:-62720236 MsG0780039359.01.T01:CDS
TTCACGACCGCCAAATCCAC+TGG 0.473461 7:+62721157 None:intergenic
CGTGTCTTGGTTGATGCTGC+TGG 0.478066 7:-62721037 MsG0780039359.01.T01:CDS
TCCTTATCAACCACCGATGC+CGG 0.493777 7:-62721224 MsG0780039359.01.T01:CDS
TAAAGTCAAAGGTAGTTGGT+TGG 0.499063 7:-62720261 MsG0780039359.01.T01:CDS
AACGGTGAAGTTGTCTGCCA+TGG 0.529412 7:+62721123 None:intergenic
TACTAACAACATTGTTGCAC+AGG 0.530405 7:-62720210 MsG0780039359.01.T01:intron
TGTTGATTACGCTTTCATAG+TGG 0.535949 7:-62720000 MsG0780039359.01.T01:CDS
CCAAGACACGGCGGTCACGA+AGG 0.540538 7:+62721050 None:intergenic
ACCGCCAAATCCACTGGATA+CGG 0.545681 7:+62721163 None:intergenic
TGAAAGTACCTTGCGACGTA+GGG 0.546082 7:+62721000 None:intergenic
TCCGTATCCAGTGGATTTGG+CGG 0.571007 7:-62721164 MsG0780039359.01.T01:CDS
AGAGCCGAATATGGTGGTGG+TGG 0.571753 7:+62721198 None:intergenic
TTGAAAGTACCTTGCGACGT+AGG 0.577009 7:+62720999 None:intergenic
AGTGACTATGCATGATCGGT+GGG 0.580863 7:-62720414 MsG0780039359.01.T01:CDS
AGATAGTGACTATGCATGAT+CGG 0.590141 7:-62720418 MsG0780039359.01.T01:CDS
TTCACCGTTAAAGATGTCAA+TGG 0.593126 7:-62721109 MsG0780039359.01.T01:CDS
CAAGACACGGCGGTCACGAA+GGG 0.593582 7:+62721051 None:intergenic
CATAACCACCCTACGTCGCA+AGG 0.600007 7:-62721008 MsG0780039359.01.T01:intron
AAGTACCTTGCGACGTAGGG+TGG 0.605892 7:+62721003 None:intergenic
TAGTGACTATGCATGATCGG+TGG 0.614019 7:-62720415 MsG0780039359.01.T01:CDS
AATGTCGTGTTCAAAGTGAA+AGG 0.628065 7:-62721085 MsG0780039359.01.T01:CDS
ATATTGTGCTCCGTATCCAG+TGG 0.650396 7:-62721173 MsG0780039359.01.T01:CDS
TGCGACGTAGGGTGGTTATG+GGG 0.653394 7:+62721011 None:intergenic
CAGCAGCATCAACCAAGACA+CGG 0.658669 7:+62721038 None:intergenic
TTGAGAGCCGAATATGGTGG+TGG 0.662726 7:+62721195 None:intergenic
GAGCCGAATATGGTGGTGGT+GGG 0.669874 7:+62721199 None:intergenic
GATCGGTGGGAAGCTTACAG+AGG 0.712766 7:-62720401 MsG0780039359.01.T01:CDS
ATATTGAGAGCCGAATATGG+TGG 0.741009 7:+62721192 None:intergenic
CAGCATCAACCAAGACACGG+CGG 0.770095 7:+62721041 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTTTAAAATAACTAGT+AGG - Chr7:62720306-62720325 MsG0780039359.01.T01:CDS 10.0%
!! ATCATAAACTAAATTATAAG+TGG + Chr7:62720499-62720518 None:intergenic 15.0%
!!! AGTATATATAAGAGTATATA+AGG - Chr7:62721017-62721036 MsG0780039359.01.T01:CDS 15.0%
!!! TTTATGTTTTTGCTTTTTTT+CGG + Chr7:62720651-62720670 None:intergenic 15.0%
!! ACGTCTTATCTAAAAATAAA+GGG + Chr7:62720366-62720385 None:intergenic 20.0%
!! CTCTTTATATAAAAGTTTGT+AGG - Chr7:62720462-62720481 MsG0780039359.01.T01:intron 20.0%
!! TACGTCTTATCTAAAAATAA+AGG + Chr7:62720367-62720386 None:intergenic 20.0%
!! TATGATTAGTATATGTTCTT+AGG + Chr7:62721065-62721084 None:intergenic 20.0%
!! TTAGTGTGAATTTCAATAAT+TGG - Chr7:62720614-62720633 MsG0780039359.01.T01:intron 20.0%
!! TTGAGATATATGAAGTATAA+TGG + Chr7:62720709-62720728 None:intergenic 20.0%
!!! ATATAAGGTTTTACGTTAAT+TGG - Chr7:62721032-62721051 MsG0780039359.01.T01:CDS 20.0%
!!! GATTCATTAAGTTGTAATAT+TGG - Chr7:62720744-62720763 MsG0780039359.01.T01:intron 20.0%
!!! TTATGTTTTTGCTTTTTTTC+GGG + Chr7:62720650-62720669 None:intergenic 20.0%
! AAAATCACAAACATCTTCTT+TGG + Chr7:62720908-62720927 None:intergenic 25.0%
! CAGTGAATAACTTATATATG+AGG + Chr7:62720561-62720580 None:intergenic 25.0%
!!! ATTTTAAAGTCAAAGGTAGT+TGG - Chr7:62720923-62720942 MsG0780039359.01.T01:intron 25.0%
!!! GTTTGTGATTTTAAAGTCAA+AGG - Chr7:62720916-62720935 MsG0780039359.01.T01:intron 25.0%
ATTGCCATTGACATCTTTAA+CGG + Chr7:62720086-62720105 None:intergenic 30.0%
! ATGAAAGCGTAATCAACATT+AGG + Chr7:62721186-62721205 None:intergenic 30.0%
!!! AAACTAGATGTGTTTTTAGC+GGG - Chr7:62720877-62720896 MsG0780039359.01.T01:intron 30.0%
!!! CAAACTAGATGTGTTTTTAG+CGG - Chr7:62720876-62720895 MsG0780039359.01.T01:intron 30.0%
AATGTCGTGTTCAAAGTGAA+AGG - Chr7:62720103-62720122 MsG0780039359.01.T01:intron 35.0%
ACAATATTGAGAGCCGAATA+TGG + Chr7:62720002-62720021 None:intergenic 35.0%
AGATAGTGACTATGCATGAT+CGG - Chr7:62720770-62720789 MsG0780039359.01.T01:intron 35.0%
CGATCTTGTATTGTTTATGC+TGG - Chr7:62720952-62720971 MsG0780039359.01.T01:intron 35.0%
CGCTAAAAACACATCTAGTT+TGG + Chr7:62720878-62720897 None:intergenic 35.0%
GATAAACAGTGACTGCAAAA+TGG + Chr7:62721164-62721183 None:intergenic 35.0%
TAAAGTCAAAGGTAGTTGGT+TGG - Chr7:62720927-62720946 MsG0780039359.01.T01:intron 35.0%
TACTAACAACATTGTTGCAC+AGG - Chr7:62720978-62720997 MsG0780039359.01.T01:intron 35.0%
TTCACCGTTAAAGATGTCAA+TGG - Chr7:62720079-62720098 MsG0780039359.01.T01:intron 35.0%
! TGTTGATTACGCTTTCATAG+TGG - Chr7:62721188-62721207 MsG0780039359.01.T01:CDS 35.0%
ATATTGAGAGCCGAATATGG+TGG + Chr7:62719999-62720018 None:intergenic 40.0%
CGTGAAAAAGGTAATGACCA+TGG - Chr7:62720048-62720067 MsG0780039359.01.T01:CDS 40.0%
TCTAAAAATAAAGGGCAGCG+CGG + Chr7:62720358-62720377 None:intergenic 40.0%
AGTGACTATGCATGATCGGT+GGG - Chr7:62720774-62720793 MsG0780039359.01.T01:intron 45.0%
ATATTGTGCTCCGTATCCAG+TGG - Chr7:62720015-62720034 MsG0780039359.01.T01:CDS 45.0%
GAATTACGTGAGTCCACACT+CGG + Chr7:62720336-62720355 None:intergenic 45.0%
TAGTGACTATGCATGATCGG+TGG - Chr7:62720773-62720792 MsG0780039359.01.T01:intron 45.0%
!! TGAAAGTACCTTGCGACGTA+GGG + Chr7:62720191-62720210 None:intergenic 45.0%
!! TTGAAAGTACCTTGCGACGT+AGG + Chr7:62720192-62720211 None:intergenic 45.0%
AACGGTGAAGTTGTCTGCCA+TGG + Chr7:62720068-62720087 None:intergenic 50.0%
ACCGCCAAATCCACTGGATA+CGG + Chr7:62720028-62720047 None:intergenic 50.0%
ACTAGTAGGACATCCGAGTG+TGG - Chr7:62720320-62720339 MsG0780039359.01.T01:CDS 50.0%
CAGCAGCATCAACCAAGACA+CGG + Chr7:62720153-62720172 None:intergenic 50.0%
GGATTTGGCGGTCGTGAAAA+AGG - Chr7:62720036-62720055 MsG0780039359.01.T01:CDS 50.0%
TCCTTATCAACCACCGATGC+CGG - Chr7:62719964-62719983 MsG0780039359.01.T01:CDS 50.0%
TTGAGAGCCGAATATGGTGG+TGG + Chr7:62719996-62720015 None:intergenic 50.0%
TTGCGACGTAGGGTGGTTAT+GGG + Chr7:62720181-62720200 None:intergenic 50.0%
! TCCGTATCCAGTGGATTTGG+CGG - Chr7:62720024-62720043 MsG0780039359.01.T01:CDS 50.0%
! TGCTCCGTATCCAGTGGATT+TGG - Chr7:62720021-62720040 MsG0780039359.01.T01:CDS 50.0%
AAGTACCTTGCGACGTAGGG+TGG + Chr7:62720188-62720207 None:intergenic 55.0%
CAGCATCAACCAAGACACGG+CGG + Chr7:62720150-62720169 None:intergenic 55.0%
CATAACCACCCTACGTCGCA+AGG - Chr7:62720180-62720199 MsG0780039359.01.T01:intron 55.0%
CTTGCGACGTAGGGTGGTTA+TGG + Chr7:62720182-62720201 None:intergenic 55.0%
GATCGGTGGGAAGCTTACAG+AGG - Chr7:62720787-62720806 MsG0780039359.01.T01:intron 55.0%
GCACCCACCACCACCATATT+CGG - Chr7:62719986-62720005 MsG0780039359.01.T01:CDS 55.0%
TGCGACGTAGGGTGGTTATG+GGG + Chr7:62720180-62720199 None:intergenic 55.0%
TTCACGACCGCCAAATCCAC+TGG + Chr7:62720034-62720053 None:intergenic 55.0%
! CGTGTCTTGGTTGATGCTGC+TGG - Chr7:62720151-62720170 MsG0780039359.01.T01:intron 55.0%
!! AATATGGTGGTGGTGGGTGC+CGG + Chr7:62719986-62720005 None:intergenic 55.0%
!! AGAGCCGAATATGGTGGTGG+TGG + Chr7:62719993-62720012 None:intergenic 55.0%
!! GAGCCGAATATGGTGGTGGT+GGG + Chr7:62719992-62720011 None:intergenic 55.0%
CAAGACACGGCGGTCACGAA+GGG + Chr7:62720140-62720159 None:intergenic 60.0%
!! GCCGGCATCGGTGGTTGATA+AGG + Chr7:62719968-62719987 None:intergenic 60.0%
CCAAGACACGGCGGTCACGA+AGG + Chr7:62720141-62720160 None:intergenic 65.0%
CCTTCGTGACCGCCGTGTCT+TGG - Chr7:62720138-62720157 MsG0780039359.01.T01:intron 65.0%
!! GTGGTGGTGGGTGCCGGCAT+CGG + Chr7:62719980-62719999 None:intergenic 70.0%
!! GTGGTGGGTGCCGGCATCGG+TGG + Chr7:62719977-62719996 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr7 gene 62719956 62721254 62719956 ID=MsG0780039359.01;Name=MsG0780039359.01
Chr7 mRNA 62719956 62721254 62719956 ID=MsG0780039359.01.T01;Parent=MsG0780039359.01;Name=MsG0780039359.01.T01;_AED=0.27;_eAED=0.27;_QI=0|0|0|1|1|1|3|0|203
Chr7 exon 62721009 62721254 62721009 ID=MsG0780039359.01.T01:exon:16928;Parent=MsG0780039359.01.T01
Chr7 exon 62720211 62720438 62720211 ID=MsG0780039359.01.T01:exon:16929;Parent=MsG0780039359.01.T01
Chr7 exon 62719956 62720093 62719956 ID=MsG0780039359.01.T01:exon:16930;Parent=MsG0780039359.01.T01
Chr7 CDS 62721009 62721254 62721009 ID=MsG0780039359.01.T01:cds;Parent=MsG0780039359.01.T01
Chr7 CDS 62720211 62720438 62720211 ID=MsG0780039359.01.T01:cds;Parent=MsG0780039359.01.T01
Chr7 CDS 62719956 62720093 62719956 ID=MsG0780039359.01.T01:cds;Parent=MsG0780039359.01.T01
Gene Sequence

>MsG0780039359.01.T01

ATGGCTTATCCTTATCAACCACCGATGCCGGCACCCACCACCACCATATTCGGCTCTCAATATTGTGCTCCGTATCCAGTGGATTTGGCGGTCGTGAAAAAGGTAATGACCATGGCAGACAACTTCACCGTTAAAGATGTCAATGGCAATGTCGTGTTCAAAGTGAAAGGTTCTCTCTTAACCCTTCGTGACCGCCGTGTCTTGGTTGATGCTGCTGGTAACCCCATAACCACCCTACGTCGCAAGATAGTGACTATGCATGATCGGTGGGAAGCTTACAGAGGAGAAAGCACAAGTTCTAAAGATCTTATATTTACATTGAGAAAATCATCGTTATTGCAGTTGAAGACCAAACTAGATGTGTTTTTAGCGGGTAATACCAAAGAAGATGTTTGTGATTTTAAAGTCAAAGGTAGTTGGTTGGAACGATCTTGTATTGTTTATGCTGGTGATACTAACAACATTGTTGCACAGATGCACAAAAAGCACACTATTCAGAGTATTTTAATTGATAAAGACCATTTTGCAGTCACTGTTTATCCTAATGTTGATTACGCTTTCATAGTGGCATTAATCGCGATTCTTAACGAGATTAACGAAGATGATGATTGA

Protein sequence

>MsG0780039359.01.T01

MAYPYQPPMPAPTTTIFGSQYCAPYPVDLAVVKKVMTMADNFTVKDVNGNVVFKVKGSLLTLRDRRVLVDAAGNPITTLRRKIVTMHDRWEAYRGESTSSKDLIFTLRKSSLLQLKTKLDVFLAGNTKEDVCDFKVKGSWLERSCIVYAGDTNNIVAQMHKKHTIQSILIDKDHFAVTVYPNVDYAFIVALIAILNEINEDDD*