AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010894.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010894.01.T01 MTR_2g093990 98.413 189 3 0 1 189 1 189 7.71e-120 343
MsG0280010894.01.T01 MTR_4g059720 77.202 193 41 2 1 191 1 192 8.33e-105 305
MsG0280010894.01.T01 MTR_2g017950 52.212 226 71 6 1 189 1 226 1.98e-65 206
MsG0280010894.01.T01 MTR_8g087460 60.000 170 62 4 23 187 74 242 1.35e-58 189
MsG0280010894.01.T01 MTR_8g087470 60.000 170 62 4 23 187 74 242 1.61e-58 189
MsG0280010894.01.T01 MTR_2g017970 57.407 162 68 1 41 201 68 229 9.94e-58 186
MsG0280010894.01.T01 MTR_4g059840 56.180 178 72 5 29 200 59 236 4.12e-57 184
MsG0280010894.01.T01 MTR_2g093980 56.805 169 72 1 21 188 49 217 1.26e-56 183
MsG0280010894.01.T01 MTR_2g017960 56.442 163 70 1 41 202 68 230 1.56e-56 182
MsG0280010894.01.T01 MTR_4g059790 55.056 178 74 5 29 200 59 236 5.50e-56 182
MsG0280010894.01.T01 MTR_7g101080 51.977 177 80 3 13 188 16 188 5.80e-55 178
MsG0280010894.01.T01 MTR_4g053380 55.030 169 72 3 29 193 63 231 6.14e-55 179
MsG0280010894.01.T01 MTR_8g087450 54.658 161 71 2 29 187 64 224 7.53e-54 176
MsG0280010894.01.T01 MTR_4g059780 57.927 164 67 2 29 191 79 241 4.84e-53 174
MsG0280010894.01.T01 MTR_2g093970 45.192 208 85 3 9 187 9 216 5.55e-52 171
MsG0280010894.01.T01 MTR_2g090765 46.629 178 94 1 11 188 9 185 7.76e-39 136
MsG0280010894.01.T01 MTR_5g098060 38.788 165 93 3 41 200 48 209 1.14e-25 102
MsG0280010894.01.T01 MTR_7g075453 32.370 173 101 5 32 199 176 337 1.39e-17 82.0
MsG0280010894.01.T01 MTR_5g098420 28.000 175 113 5 30 198 183 350 3.96e-13 68.9
MsG0280010894.01.T01 MTR_2g437700 29.605 152 101 3 41 188 195 344 8.48e-13 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010894.01.T01 AT5G03170 56.219 201 82 5 9 207 7 203 5.58e-64 201
MsG0280010894.01.T01 AT5G60490 60.667 150 58 1 40 188 38 187 1.01e-57 185
MsG0280010894.01.T01 AT2G20520 44.776 201 107 3 4 200 1 201 7.23e-45 152
MsG0280010894.01.T01 AT5G44130 46.914 162 79 3 41 195 36 197 2.90e-38 135
MsG0280010894.01.T01 AT1G03870 44.444 162 88 2 41 200 39 200 4.48e-36 129
MsG0280010894.01.T01 AT2G04780 35.333 150 92 2 41 188 46 192 7.12e-18 81.3
MsG0280010894.01.T01 AT2G04780 35.333 150 92 2 41 188 46 192 7.12e-18 81.3
MsG0280010894.01.T01 AT3G60900 33.140 172 109 4 32 202 180 346 2.85e-15 75.5
MsG0280010894.01.T01 AT3G46550 32.370 173 110 5 34 201 200 370 5.09e-15 74.7
MsG0280010894.01.T01 AT4G12730 29.012 162 102 5 32 188 179 332 1.09e-13 70.9
MsG0280010894.01.T01 AT2G45470 29.936 157 106 2 32 188 180 332 2.61e-12 66.6
MsG0280010894.01.T01 AT5G55730 29.204 113 79 1 76 188 218 329 4.76e-11 62.8
MsG0280010894.01.T01 AT5G55730 29.204 113 79 1 76 188 218 329 4.76e-11 62.8

Find 54 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTAGAATCTTTACTCTTTC+TGG 0.005869 2:+76479074 None:intergenic
TGGTTTGGAGGAGGCGGATA+AGG 0.325830 2:+76479507 None:intergenic
TCACCAGCTTGTGTTCTAAC+TGG 0.342486 2:+76479284 None:intergenic
TGGGATAGAAGAGGACTATT+AGG 0.347658 2:+76479627 None:intergenic
TTAGTCCATTGTTTGAGTTT+AGG 0.358844 2:+76479453 None:intergenic
GCATTGAACATAACAAGTTC+AGG 0.362726 2:-76479245 MsG0280010894.01.T01:CDS
GGATTCTGATAATGTCTGTT+GGG 0.384524 2:+76479555 None:intergenic
CGGAGCCGGTGGAGGAGACT+TGG 0.401331 2:+76479100 None:intergenic
ATTGAGAAAACCAGGTTTGA+GGG 0.410912 2:+76479397 None:intergenic
TGATTCAACTGCTGAATTTG+TGG 0.418383 2:+76479601 None:intergenic
GTAGAAAAGGAATTGTCATT+TGG 0.421312 2:+76479419 None:intergenic
GGTTTGGAGGAGGCGGATAA+GGG 0.431410 2:+76479508 None:intergenic
GCTGATGATGGTGATGGTGC+TGG 0.431800 2:+76479578 None:intergenic
TCTGGAGCCGGAGCCGGTGG+AGG 0.436563 2:+76479092 None:intergenic
ACTCTTTCTGGAGCCGGAGC+CGG 0.436567 2:+76479086 None:intergenic
ATCTTTACTCTTTCTGGAGC+CGG 0.438395 2:+76479080 None:intergenic
ACCAGGTTTGAGGGTAGAAA+AGG 0.452364 2:+76479406 None:intergenic
GCATTTCCTGCTTACTGAGT+TGG 0.452437 2:+76478890 None:intergenic
CAAGTCTCCTCCACCGGCTC+CGG 0.455878 2:-76479099 MsG0280010894.01.T01:CDS
GTGTGGCTACTTGAGTGGTT+TGG 0.457924 2:+76479492 None:intergenic
AACTGCTGAATTTGTGGTGG+TGG 0.462937 2:+76479607 None:intergenic
ATGTTCAATGCTAATCTCTC+AGG 0.465635 2:+76479257 None:intergenic
TGATAAAGTTCTTCTTCCTA+AGG 0.474783 2:-76479135 MsG0280010894.01.T01:CDS
AGAAGTGAGAGTGTGAAGAG+AGG 0.477000 2:+76479650 None:intergenic
ACTCAAGTGAATTTAACAAC+TGG 0.489837 2:-76479221 MsG0280010894.01.T01:CDS
AAACAAATGAGGGTAGTTCA+TGG 0.490124 2:+76479336 None:intergenic
TTGGGAATGAAGAAATCCTT+AGG 0.492755 2:+76479119 None:intergenic
AGGATTCTGATAATGTCTGT+TGG 0.501442 2:+76479554 None:intergenic
CTACTTGAGTGGTTTGGAGG+AGG 0.504028 2:+76479498 None:intergenic
CTTTCTGGAGCCGGAGCCGG+TGG 0.513848 2:+76479089 None:intergenic
TGGCTACTTGAGTGGTTTGG+AGG 0.514366 2:+76479495 None:intergenic
AATTGAGAAAACCAGGTTTG+AGG 0.523032 2:+76479396 None:intergenic
CTTGAGTGGTTTGGAGGAGG+CGG 0.526143 2:+76479501 None:intergenic
ATGTCTGTTGGGGCTGATGA+TGG 0.532088 2:+76479566 None:intergenic
GTTGTTAATGCTACTGTTGG+TGG 0.549812 2:-76479197 MsG0280010894.01.T01:CDS
CATTGAACATAACAAGTTCA+GGG 0.550919 2:-76479244 MsG0280010894.01.T01:CDS
ATTTGAGAGTGAAACAAATG+AGG 0.552176 2:+76479325 None:intergenic
GGTGTTGTTAATGCTACTGT+TGG 0.552358 2:-76479200 MsG0280010894.01.T01:CDS
TTTGAGAGTGAAACAAATGA+GGG 0.553534 2:+76479326 None:intergenic
GGAGCCGGTGGAGGAGACTT+GGG 0.560404 2:+76479101 None:intergenic
AAGTTACCAACTCAGTAAGC+AGG 0.561747 2:-76478896 MsG0280010894.01.T01:CDS
GATTTGTGTGGCTACTTGAG+TGG 0.563809 2:+76479487 None:intergenic
TTGGAGGAGGCGGATAAGGG+TGG 0.565992 2:+76479511 None:intergenic
GTTGGGGCTGATGATGGTGA+TGG 0.565993 2:+76479572 None:intergenic
CAACTCCTAAACTCAAACAA+TGG 0.569617 2:-76479458 MsG0280010894.01.T01:CDS
TTAAGAGAATTGAGAAAACC+AGG 0.579313 2:+76479389 None:intergenic
ACTGCTGAATTTGTGGTGGT+GGG 0.587110 2:+76479608 None:intergenic
CATTCCCAAGTCTCCTCCAC+CGG 0.590749 2:-76479105 MsG0280010894.01.T01:CDS
TTGTGGTGGTGGGATAGAAG+AGG 0.596092 2:+76479618 None:intergenic
AATCCAGTTAGAACACAAGC+TGG 0.607953 2:-76479287 MsG0280010894.01.T01:CDS
TTCAACTGCTGAATTTGTGG+TGG 0.608674 2:+76479604 None:intergenic
GATAAGGGTGGTGAATCCGC+CGG 0.611907 2:+76479523 None:intergenic
GATTCTGATAATGTCTGTTG+GGG 0.622771 2:+76479556 None:intergenic
GAGTTGTGCATTGATTTGTG+TGG 0.650430 2:+76479475 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CGAATTTCATTTTTATGTGT+TGG - Chr2:76479628-76479647 MsG0280010894.01.T01:CDS 25.0%
!!! TTCATTTTTATGTGTTGGAT+TGG - Chr2:76479633-76479652 MsG0280010894.01.T01:CDS 25.0%
ACTCAAGTGAATTTAACAAC+TGG - Chr2:76479253-76479272 MsG0280010894.01.T01:CDS 30.0%
ATGAGTTTGAAGGACAAAAA+TGG - Chr2:76479477-76479496 MsG0280010894.01.T01:CDS 30.0%
ATTTGAGAGTGAAACAAATG+AGG + Chr2:76479152-76479171 None:intergenic 30.0%
CATTGAACATAACAAGTTCA+GGG - Chr2:76479230-76479249 MsG0280010894.01.T01:CDS 30.0%
CTTAGAATCTTTACTCTTTC+TGG + Chr2:76479403-76479422 None:intergenic 30.0%
GTAGAAAAGGAATTGTCATT+TGG + Chr2:76479058-76479077 None:intergenic 30.0%
TCTAAGAAAAAATCTGCAGA+GGG - Chr2:76479417-76479436 MsG0280010894.01.T01:CDS 30.0%
TGATAAAGTTCTTCTTCCTA+AGG - Chr2:76479339-76479358 MsG0280010894.01.T01:CDS 30.0%
TTAAGAGAATTGAGAAAACC+AGG + Chr2:76479088-76479107 None:intergenic 30.0%
TTTGAGAGTGAAACAAATGA+GGG + Chr2:76479151-76479170 None:intergenic 30.0%
! TTAGTCCATTGTTTGAGTTT+AGG + Chr2:76479024-76479043 None:intergenic 30.0%
! TTCTAAGAAAAAATCTGCAG+AGG - Chr2:76479416-76479435 MsG0280010894.01.T01:CDS 30.0%
!!! TTTTATGTGTTGGATTGGTT+GGG - Chr2:76479638-76479657 MsG0280010894.01.T01:CDS 30.0%
!!! TTTTTATGTGTTGGATTGGT+TGG - Chr2:76479637-76479656 MsG0280010894.01.T01:CDS 30.0%
AAACAAATGAGGGTAGTTCA+TGG + Chr2:76479141-76479160 None:intergenic 35.0%
AATTGAGAAAACCAGGTTTG+AGG + Chr2:76479081-76479100 None:intergenic 35.0%
ATCAGAATCCTCAAAAAAGC+CGG - Chr2:76478932-76478951 MsG0280010894.01.T01:CDS 35.0%
ATCTTCTGCTATGAGTTTGA+AGG - Chr2:76479467-76479486 MsG0280010894.01.T01:CDS 35.0%
ATGTTCAATGCTAATCTCTC+AGG + Chr2:76479220-76479239 None:intergenic 35.0%
ATTGAGAAAACCAGGTTTGA+GGG + Chr2:76479080-76479099 None:intergenic 35.0%
CAACTCCTAAACTCAAACAA+TGG - Chr2:76479016-76479035 MsG0280010894.01.T01:intron 35.0%
GCATTGAACATAACAAGTTC+AGG - Chr2:76479229-76479248 MsG0280010894.01.T01:CDS 35.0%
TGATTCAACTGCTGAATTTG+TGG + Chr2:76478876-76478895 None:intergenic 35.0%
TTGGGAATGAAGAAATCCTT+AGG + Chr2:76479358-76479377 None:intergenic 35.0%
! AGGATTCTGATAATGTCTGT+TGG + Chr2:76478923-76478942 None:intergenic 35.0%
! GATTCTGATAATGTCTGTTG+GGG + Chr2:76478921-76478940 None:intergenic 35.0%
! GGATTCTGATAATGTCTGTT+GGG + Chr2:76478922-76478941 None:intergenic 35.0%
AAGTTACCAACTCAGTAAGC+AGG - Chr2:76479578-76479597 MsG0280010894.01.T01:CDS 40.0%
AATCCAGTTAGAACACAAGC+TGG - Chr2:76479187-76479206 MsG0280010894.01.T01:CDS 40.0%
GTTGTTAATGCTACTGTTGG+TGG - Chr2:76479277-76479296 MsG0280010894.01.T01:CDS 40.0%
TGGGATAGAAGAGGACTATT+AGG + Chr2:76478850-76478869 None:intergenic 40.0%
TTCAACTGCTGAATTTGTGG+TGG + Chr2:76478873-76478892 None:intergenic 40.0%
!! ATCTTTACTCTTTCTGGAGC+CGG + Chr2:76479397-76479416 None:intergenic 40.0%
!! GAGTTGTGCATTGATTTGTG+TGG + Chr2:76479002-76479021 None:intergenic 40.0%
!! GGTGTTGTTAATGCTACTGT+TGG - Chr2:76479274-76479293 MsG0280010894.01.T01:CDS 40.0%
AACTGCTGAATTTGTGGTGG+TGG + Chr2:76478870-76478889 None:intergenic 45.0%
ACCAGGTTTGAGGGTAGAAA+AGG + Chr2:76479071-76479090 None:intergenic 45.0%
ACTGCTGAATTTGTGGTGGT+GGG + Chr2:76478869-76478888 None:intergenic 45.0%
AGAATCCTCAAAAAAGCCGG+CGG - Chr2:76478935-76478954 MsG0280010894.01.T01:CDS 45.0%
GATTTGTGTGGCTACTTGAG+TGG + Chr2:76478990-76479009 None:intergenic 45.0%
GCATTTCCTGCTTACTGAGT+TGG + Chr2:76479587-76479606 None:intergenic 45.0%
TCACCAGCTTGTGTTCTAAC+TGG + Chr2:76479193-76479212 None:intergenic 45.0%
TCACTATCATCTGCAGAAGC+AGG + Chr2:76479444-76479463 None:intergenic 45.0%
! AGAAGTGAGAGTGTGAAGAG+AGG + Chr2:76478827-76478846 None:intergenic 45.0%
! TCCTTTTCTACCCTCAAACC+TGG - Chr2:76479067-76479086 MsG0280010894.01.T01:CDS 45.0%
ATGTCTGTTGGGGCTGATGA+TGG + Chr2:76478911-76478930 None:intergenic 50.0%
GTGTGGCTACTTGAGTGGTT+TGG + Chr2:76478985-76479004 None:intergenic 50.0%
! CTACTTGAGTGGTTTGGAGG+AGG + Chr2:76478979-76478998 None:intergenic 50.0%
! TGGCTACTTGAGTGGTTTGG+AGG + Chr2:76478982-76479001 None:intergenic 50.0%
!! TTGTGGTGGTGGGATAGAAG+AGG + Chr2:76478859-76478878 None:intergenic 50.0%
!!! TGAATCCGCCGGCTTTTTTG+AGG + Chr2:76478943-76478962 None:intergenic 50.0%
CATTCCCAAGTCTCCTCCAC+CGG - Chr2:76479369-76479388 MsG0280010894.01.T01:CDS 55.0%
GATAAGGGTGGTGAATCCGC+CGG + Chr2:76478954-76478973 None:intergenic 55.0%
GGTTTGGAGGAGGCGGATAA+GGG + Chr2:76478969-76478988 None:intergenic 55.0%
! CTTGAGTGGTTTGGAGGAGG+CGG + Chr2:76478976-76478995 None:intergenic 55.0%
! TGGTTTGGAGGAGGCGGATA+AGG + Chr2:76478970-76478989 None:intergenic 55.0%
!! GCTGATGATGGTGATGGTGC+TGG + Chr2:76478899-76478918 None:intergenic 55.0%
!! GTTGGGGCTGATGATGGTGA+TGG + Chr2:76478905-76478924 None:intergenic 55.0%
TTGGAGGAGGCGGATAAGGG+TGG + Chr2:76478966-76478985 None:intergenic 60.0%
!! ACTCTTTCTGGAGCCGGAGC+CGG + Chr2:76479391-76479410 None:intergenic 60.0%
GGAGCCGGTGGAGGAGACTT+GGG + Chr2:76479376-76479395 None:intergenic 65.0%
!! CAAGTCTCCTCCACCGGCTC+CGG - Chr2:76479375-76479394 MsG0280010894.01.T01:CDS 65.0%
CGGAGCCGGTGGAGGAGACT+TGG + Chr2:76479377-76479396 None:intergenic 70.0%
!! CTTTCTGGAGCCGGAGCCGG+TGG + Chr2:76479388-76479407 None:intergenic 70.0%
! TCTGGAGCCGGAGCCGGTGG+AGG + Chr2:76479385-76479404 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr2 gene 76478806 76479690 76478806 ID=MsG0280010894.01;Name=MsG0280010894.01
Chr2 mRNA 76478806 76479690 76478806 ID=MsG0280010894.01.T01;Parent=MsG0280010894.01;Name=MsG0280010894.01.T01;_AED=0.50;_eAED=0.62;_QI=0|0|0|1|1|1|2|0|267
Chr2 exon 76479058 76479690 76479058 ID=MsG0280010894.01.T01:exon:11862;Parent=MsG0280010894.01.T01
Chr2 exon 76478806 76478976 76478806 ID=MsG0280010894.01.T01:exon:11861;Parent=MsG0280010894.01.T01
Chr2 CDS 76479058 76479690 76479058 ID=MsG0280010894.01.T01:cds;Parent=MsG0280010894.01.T01
Chr2 CDS 76478806 76478976 76478806 ID=MsG0280010894.01.T01:cds;Parent=MsG0280010894.01.T01
Gene Sequence

>MsG0280010894.01.T01

ATGGTGAAGATGAACTATCCTCTCTTCACACTCTCACTTCTCCTAATAGTCCTCTTCTATCCCACCACCACAAATTCAGCAGTTGAATCACCAGCACCATCACCATCATCAGCCCCAACAGACATTATCAGAATCCTCAAAAAAGCCGGCGGATTCACCACCCTTATCCGCCTCCTCCAAACCACTCAAGTAGCCACACAAATCAATGCACAACTCCTAAACTCAAACAATGGACTAACACTCTTTGCACCAAATGACAATTCCTTTTCTACCCTCAAACCTGGTTTTCTCAATTCTCTTAATGATCAACAAAAGAATGAACTCATTCAATTCCATGAACTACCCTCATTTGTTTCACTCTCAAATTTTGATACTTTAAGCAATCCAGTTAGAACACAAGCTGGTGATGATCCTGAGAGATTAGCATTGAACATAACAAGTTCAGGGACTCAAGTGAATTTAACAACTGGTGTTGTTAATGCTACTGTTGGTGGTAGTGTTTTTTCTGATCATCAACTTGCTATTTATCAAGTTGATAAAGTTCTTCTTCCTAAGGATTTCTTCATTCCCAAGTCTCCTCCACCGGCTCCGGCTCCAGAAAGAGTAAAGATTCTAAGAAAAAATCTGCAGAGGTTGCTACAGTTGTTGCTGCGACTTTATTTTCATTGTGACAATGATAAAAAATTGAAAAAAGTTACCAACTCAGTAAGCAGGAAATGCTGCAACTTTATTTTCATTTCACGAATTTCATTTTTATGTGTTGGATTGGTTGGGAATTTTGTAGCACTTTCCAATGATTGTTAA
Protein sequence

>MsG0280010894.01.T01

MVKMNYPLFTLSLLLIVLFYPTTTNSAVESPAPSPSSAPTDIIRILKKAGGFTTLIRLLQTTQVATQINAQLLNSNNGLTLFAPNDNSFSTLKPGFLNSLNDQQKNELIQFHELPSFVSLSNFDTLSNPVRTQAGDDPERLALNITSSGTQVNLTTGVVNATVGGSVFSDHQLAIYQVDKVLLPKDFFIPKSPPPAPAPERVKILRKNLQRLLQLLLRLYFHCDNDKKLKKVTNSVSRKCCNFIFISRISFLCVGLVGNFVALSNDC*