AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57492

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57492.t1 MTR_0002s0040 53.698 311 103 10 1 290 1 291 2.50e-95 283
MS.gene57492.t1 MTR_0263s0020 56.164 292 96 9 1 280 1 272 4.21e-94 280
MS.gene57492.t1 MTR_1457s0010 66.234 231 54 8 65 291 1 211 2.88e-93 275
MS.gene57492.t1 MTR_0002s1060 51.546 291 108 11 4 280 6 277 3.70e-75 232
MS.gene57492.t1 MTR_0062s0020 38.542 288 140 8 14 280 4 275 1.39e-48 164
MS.gene57492.t1 MTR_0062s0090 39.510 286 138 10 14 280 4 273 8.98e-48 161
MS.gene57492.t1 MTR_0062s0040 39.510 286 138 10 14 280 4 273 8.98e-48 161
MS.gene57492.t1 MTR_0062s0060 39.510 286 138 10 14 280 4 273 8.98e-48 161
MS.gene57492.t1 MTR_0443s0040 39.175 291 132 12 14 280 16 285 1.26e-47 161
MS.gene57492.t1 MTR_0062s0170 36.304 303 151 10 1 280 1 284 8.30e-39 139
MS.gene57492.t1 MTR_0062s0110 36.304 303 151 10 1 280 1 284 8.30e-39 139
MS.gene57492.t1 MTR_0062s0130 36.304 303 151 10 1 280 1 284 8.30e-39 139
MS.gene57492.t1 MTR_2g036240 36.304 303 151 10 1 280 1 284 8.30e-39 139
MS.gene57492.t1 MTR_2g036260 36.304 303 151 10 1 280 1 284 8.30e-39 139
MS.gene57492.t1 MTR_2g036290 36.304 303 151 10 1 280 1 284 8.30e-39 139
MS.gene57492.t1 MTR_8g046730 36.304 303 151 10 1 280 1 284 8.30e-39 139
MS.gene57492.t1 MTR_6g079630 34.182 275 156 8 12 280 32 287 3.22e-37 134
MS.gene57492.t1 MTR_2g096030 32.990 291 163 10 14 291 31 302 1.39e-33 124
MS.gene57492.t1 MTR_2g096040 33.202 253 145 6 39 283 26 262 2.08e-28 110
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 69 sgRNAs with CRISPR-Local

Find 80 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAGGGAATATAAAAGATTT+TGG 0.113401 8.2:-64917522 None:intergenic
AATCGATTTCCATGTCATTT+TGG 0.208877 8.2:+64917560 MS.gene57492:CDS
ACCACAGTGACGATATTAAT+TGG 0.223661 8.2:+64918033 MS.gene57492:CDS
ATTTCGTTGTAGTCAATATC+AGG 0.268052 8.2:-64917540 None:intergenic
GGAGAGAAAGGATATTTAGT+AGG 0.309124 8.2:-64917777 None:intergenic
ATCCAAGACTACACGTTTGA+TGG 0.357506 8.2:+64917852 MS.gene57492:CDS
TGTAGTGTTCATTAGTTTCA+TGG 0.361129 8.2:-64917995 None:intergenic
GAGAGAAAGGATATTTAGTA+GGG 0.368934 8.2:-64917776 None:intergenic
GTTGGAGAAATCTTCTTCAT+TGG 0.372094 8.2:-64917904 None:intergenic
GAATCGATCAACAGTGTTAC+CGG 0.376698 8.2:-64917466 None:intergenic
AAGATTTCTCCAACTACGTT+GGG 0.393833 8.2:+64917913 MS.gene57492:CDS
CATCTTCGTTGTAAGTCTCA+TGG 0.421031 8.2:-64917590 None:intergenic
GTAGTGTTCATTAGTTTCAT+GGG 0.454037 8.2:-64917994 None:intergenic
GGTTAGGCTGCATGTAGAAT+TGG 0.458886 8.2:-64918064 None:intergenic
AACACTACAAGCTACTCTAC+AGG 0.460172 8.2:+64918009 MS.gene57492:CDS
CGGAAAATTCTATCCCGATT+GGG 0.468618 8.2:+64917623 MS.gene57492:CDS
CCACAGTGACGATATTAATT+GGG 0.471394 8.2:+64918034 MS.gene57492:CDS
TGCCATCAAACGTGTAGTCT+TGG 0.476476 8.2:-64917854 None:intergenic
CTAAGTACCACCTTGACCTT+GGG 0.479326 8.2:-64917696 None:intergenic
GATCGGTGCTTGCTCCTACT+AGG 0.491839 8.2:-64918160 None:intergenic
GCAGATATCAAGATCCCAAT+CGG 0.494886 8.2:-64917637 None:intergenic
TGTTCATTAGTTTCATGGGA+TGG 0.496934 8.2:-64917990 None:intergenic
TATAACGTCCCCAACGTAGT+TGG 0.497459 8.2:-64917922 None:intergenic
TTGCGAGTCTAACATAGATC+AGG 0.504007 8.2:-64918112 None:intergenic
CTGCGGTATACCACGTGTGC+AGG 0.504725 8.2:+64917656 MS.gene57492:CDS
CCGGAAAATTCTATCCCGAT+TGG 0.509755 8.2:+64917622 MS.gene57492:CDS
GCTAAGTACCACCTTGACCT+TGG 0.518197 8.2:-64917697 None:intergenic
TCAGTCTCGTCAGTGGGGTT+AGG 0.532019 8.2:-64918080 None:intergenic
ACGAAGACATCTAGTGGAAG+TGG 0.532647 8.2:-64918203 None:intergenic
CATGAGACTTACAACGAAGA+TGG 0.533162 8.2:+64917591 MS.gene57492:CDS
ATCTTCGTTGTAAGTCTCAT+GGG 0.537135 8.2:-64917589 None:intergenic
GAGAAAGGATATTTAGTAGG+GGG 0.545897 8.2:-64917774 None:intergenic
ACTTACAACGAAGATGGAAA+AGG 0.547716 8.2:+64917597 MS.gene57492:CDS
TACAAAGTCAGTCTCGTCAG+TGG 0.547959 8.2:-64918087 None:intergenic
ACAAAGTCAGTCTCGTCAGT+GGG 0.548454 8.2:-64918086 None:intergenic
GTCAAGGTGGTACTTAGCAT+TGG 0.558729 8.2:+64917702 MS.gene57492:CDS
TGATCTATGTTAGACTCGCA+AGG 0.562801 8.2:+64918114 MS.gene57492:CDS
GAAGATTTCTCCAACTACGT+TGG 0.566238 8.2:+64917912 MS.gene57492:CDS
ATTACGTCCGTCACGTGGAT+CGG 0.567052 8.2:-64918177 None:intergenic
TCGTGATATACAAAGTGTGC+AGG 0.567577 8.2:+64917728 MS.gene57492:CDS
AAGGTGGTACTTAGCATTGG+TGG 0.572579 8.2:+64917705 MS.gene57492:CDS
AGTTTCATGGGATGGAGCAA+TGG 0.579271 8.2:-64917982 None:intergenic
TTTCGTTGTAGTCAATATCA+GGG 0.579571 8.2:-64917539 None:intergenic
AACGAAGATGGAAAAGGCAC+CGG 0.582283 8.2:+64917603 MS.gene57492:CDS
CAGATATCAAGATCCCAATC+GGG 0.583723 8.2:-64917636 None:intergenic
CTCGCAACGAAGACATCTAG+TGG 0.584791 8.2:-64918209 None:intergenic
AGAGAAAGGATATTTAGTAG+GGG 0.590103 8.2:-64917775 None:intergenic
GGGCAAAGGCCAAAATGACA+TGG 0.593006 8.2:-64917569 None:intergenic
GCGTTGAACCTTCATGAGAT+CGG 0.594521 8.2:-64918237 None:intergenic
AAAAGACTCAAGGAAGAGGT+AGG 0.596213 8.2:+64917945 MS.gene57492:CDS
GGAACATTACGTCCGTCACG+TGG 0.606987 8.2:-64918182 None:intergenic
ACAATGTCTCATCTCATCAC+CGG 0.607947 8.2:+64917447 None:intergenic
GAGTTGCTCCGATCTCATGA+AGG 0.616774 8.2:+64918229 MS.gene57492:CDS
CTCATGAAGGTTCAACGCAG+TGG 0.621602 8.2:+64918242 MS.gene57492:CDS
GTTGTAAGTCTCATGGGCAA+AGG 0.623453 8.2:-64917583 None:intergenic
GATCTATGTTAGACTCGCAA+GGG 0.624736 8.2:+64918115 MS.gene57492:CDS
GCTCAAGTATCCCAAGGTCA+AGG 0.636705 8.2:+64917686 MS.gene57492:CDS
ACACTACAAGCTACTCTACA+GGG 0.639330 8.2:+64918010 MS.gene57492:CDS
AGCTTGATATCCTGCACACG+TGG 0.641314 8.2:-64917666 None:intergenic
ATCGACGGCATTATCACACC+AGG 0.643275 8.2:-64917814 None:intergenic
GCAAGCACCGATCCACGTGA+CGG 0.658997 8.2:+64918170 MS.gene57492:CDS
AGATTTCTCCAACTACGTTG+GGG 0.668094 8.2:+64917914 MS.gene57492:CDS
TATCAAGCTCAAGTATCCCA+AGG 0.668476 8.2:+64917680 MS.gene57492:CDS
CCCAATTAATATCGTCACTG+TGG 0.680315 8.2:-64918034 None:intergenic
GCAGGATATCATCAAGCACA+AGG 0.687092 8.2:+64917746 MS.gene57492:CDS
CAAGTATCCCAAGGTCAAGG+TGG 0.692556 8.2:+64917689 MS.gene57492:CDS
CAAAGTCAGTCTCGTCAGTG+GGG 0.694670 8.2:-64918085 None:intergenic
GATTGGGATCTTGATATCTG+CGG 0.706223 8.2:+64917639 MS.gene57492:CDS
GGAAGAGGTAGGTATCAATG+TGG 0.752690 8.2:+64917956 MS.gene57492:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATATAAAAGATTTTGGGTA+TGG - chr8.2:64917519-64917538 None:intergenic 20.0%
!! CAGGGAATATAAAAGATTTT+GGG - chr8.2:64917524-64917543 None:intergenic 25.0%
!! TCAGGGAATATAAAAGATTT+TGG - chr8.2:64917525-64917544 None:intergenic 25.0%
!! TTCATTTTACGAGAATACAT+TGG + chr8.2:64917486-64917505 MS.gene57492:CDS 25.0%
AGAGAAAGGATATTTAGTAG+GGG - chr8.2:64917778-64917797 None:intergenic 30.0%
ATTTCGTTGTAGTCAATATC+AGG - chr8.2:64917543-64917562 None:intergenic 30.0%
GAGAGAAAGGATATTTAGTA+GGG - chr8.2:64917779-64917798 None:intergenic 30.0%
TATAAAAAGACTCAAGGAAG+AGG + chr8.2:64917941-64917960 MS.gene57492:CDS 30.0%
TTTCGTTGTAGTCAATATCA+GGG - chr8.2:64917542-64917561 None:intergenic 30.0%
! GTAGTGTTCATTAGTTTCAT+GGG - chr8.2:64917997-64918016 None:intergenic 30.0%
! TGTAGTGTTCATTAGTTTCA+TGG - chr8.2:64917998-64918017 None:intergenic 30.0%
!! AATCGATTTCCATGTCATTT+TGG + chr8.2:64917560-64917579 MS.gene57492:CDS 30.0%
!! ACTTTTGAAAAACTCCTAGT+AGG + chr8.2:64918146-64918165 MS.gene57492:CDS 30.0%
!!! TCTTTTTCAATAGGAGAGAA+AGG - chr8.2:64917792-64917811 None:intergenic 30.0%
AAGATTTCTCCAACTACGTT+GGG + chr8.2:64917913-64917932 MS.gene57492:CDS 35.0%
ACCACAGTGACGATATTAAT+TGG + chr8.2:64918033-64918052 MS.gene57492:CDS 35.0%
ACTTACAACGAAGATGGAAA+AGG + chr8.2:64917597-64917616 MS.gene57492:CDS 35.0%
ATCTTCGTTGTAAGTCTCAT+GGG - chr8.2:64917592-64917611 None:intergenic 35.0%
CCACAGTGACGATATTAATT+GGG + chr8.2:64918034-64918053 MS.gene57492:CDS 35.0%
CTCCTATTGAAAAAGAATCC+TGG + chr8.2:64917796-64917815 MS.gene57492:CDS 35.0%
GAGAAAGGATATTTAGTAGG+GGG - chr8.2:64917777-64917796 None:intergenic 35.0%
GGACGTTATAAAAAGACTCA+AGG + chr8.2:64917935-64917954 MS.gene57492:CDS 35.0%
GGAGAGAAAGGATATTTAGT+AGG - chr8.2:64917780-64917799 None:intergenic 35.0%
GTTGGAGAAATCTTCTTCAT+TGG - chr8.2:64917907-64917926 None:intergenic 35.0%
! TGTTCATTAGTTTCATGGGA+TGG - chr8.2:64917993-64918012 None:intergenic 35.0%
!!! CACCAGGATTCTTTTTCAAT+AGG - chr8.2:64917801-64917820 None:intergenic 35.0%
AAAAGACTCAAGGAAGAGGT+AGG + chr8.2:64917945-64917964 MS.gene57492:CDS 40.0%
AACACTACAAGCTACTCTAC+AGG + chr8.2:64918009-64918028 MS.gene57492:CDS 40.0%
ACACTACAAGCTACTCTACA+GGG + chr8.2:64918010-64918029 MS.gene57492:CDS 40.0%
AGATTTCTCCAACTACGTTG+GGG + chr8.2:64917914-64917933 MS.gene57492:CDS 40.0%
ATCCAAGACTACACGTTTGA+TGG + chr8.2:64917852-64917871 MS.gene57492:CDS 40.0%
CAGATATCAAGATCCCAATC+GGG - chr8.2:64917639-64917658 None:intergenic 40.0%
CATCTTCGTTGTAAGTCTCA+TGG - chr8.2:64917593-64917612 None:intergenic 40.0%
CATGAGACTTACAACGAAGA+TGG + chr8.2:64917591-64917610 MS.gene57492:CDS 40.0%
CCCAATTAATATCGTCACTG+TGG - chr8.2:64918037-64918056 None:intergenic 40.0%
CGGAAAATTCTATCCCGATT+GGG + chr8.2:64917623-64917642 MS.gene57492:CDS 40.0%
GAAGATTTCTCCAACTACGT+TGG + chr8.2:64917912-64917931 MS.gene57492:CDS 40.0%
GAATCGATCAACAGTGTTAC+CGG - chr8.2:64917469-64917488 None:intergenic 40.0%
GATCTATGTTAGACTCGCAA+GGG + chr8.2:64918115-64918134 MS.gene57492:CDS 40.0%
GATTGGGATCTTGATATCTG+CGG + chr8.2:64917639-64917658 MS.gene57492:CDS 40.0%
GCAGATATCAAGATCCCAAT+CGG - chr8.2:64917640-64917659 None:intergenic 40.0%
TATCAAGCTCAAGTATCCCA+AGG + chr8.2:64917680-64917699 MS.gene57492:CDS 40.0%
TCGTGATATACAAAGTGTGC+AGG + chr8.2:64917728-64917747 MS.gene57492:CDS 40.0%
TGATCTATGTTAGACTCGCA+AGG + chr8.2:64918114-64918133 MS.gene57492:CDS 40.0%
TTGCGAGTCTAACATAGATC+AGG - chr8.2:64918115-64918134 None:intergenic 40.0%
! AACGCAGTGGCATTTTCATT+TGG + chr8.2:64918255-64918274 MS.gene57492:CDS 40.0%
! CCAATCGGGATAGAATTTTC+CGG - chr8.2:64917625-64917644 None:intergenic 40.0%
!! GATCTTTTTGAGCGAATCGA+CGG - chr8.2:64917832-64917851 None:intergenic 40.0%
ACAAAGTCAGTCTCGTCAGT+GGG - chr8.2:64918089-64918108 None:intergenic 45.0%
ACGAAGACATCTAGTGGAAG+TGG - chr8.2:64918206-64918225 None:intergenic 45.0%
AGTTTCATGGGATGGAGCAA+TGG - chr8.2:64917985-64918004 None:intergenic 45.0%
CCGGAAAATTCTATCCCGAT+TGG + chr8.2:64917622-64917641 MS.gene57492:CDS 45.0%
CTAAGTACCACCTTGACCTT+GGG - chr8.2:64917699-64917718 None:intergenic 45.0%
GCAGGATATCATCAAGCACA+AGG + chr8.2:64917746-64917765 MS.gene57492:CDS 45.0%
GCGTTGAACCTTCATGAGAT+CGG - chr8.2:64918240-64918259 None:intergenic 45.0%
GGAAGAGGTAGGTATCAATG+TGG + chr8.2:64917956-64917975 MS.gene57492:CDS 45.0%
GGTTAGGCTGCATGTAGAAT+TGG - chr8.2:64918067-64918086 None:intergenic 45.0%
GTCAAGGTGGTACTTAGCAT+TGG + chr8.2:64917702-64917721 MS.gene57492:CDS 45.0%
GTTGTAAGTCTCATGGGCAA+AGG - chr8.2:64917586-64917605 None:intergenic 45.0%
TACAAAGTCAGTCTCGTCAG+TGG - chr8.2:64918090-64918109 None:intergenic 45.0%
TATAACGTCCCCAACGTAGT+TGG - chr8.2:64917925-64917944 None:intergenic 45.0%
TGCCATCAAACGTGTAGTCT+TGG - chr8.2:64917857-64917876 None:intergenic 45.0%
! AACGAAGATGGAAAAGGCAC+CGG + chr8.2:64917603-64917622 MS.gene57492:CDS 45.0%
! AAGGTGGTACTTAGCATTGG+TGG + chr8.2:64917705-64917724 MS.gene57492:CDS 45.0%
AGCTTGATATCCTGCACACG+TGG - chr8.2:64917669-64917688 None:intergenic 50.0%
ATCGACGGCATTATCACACC+AGG - chr8.2:64917817-64917836 None:intergenic 50.0%
ATTACGTCCGTCACGTGGAT+CGG - chr8.2:64918180-64918199 None:intergenic 50.0%
CAAAGTCAGTCTCGTCAGTG+GGG - chr8.2:64918088-64918107 None:intergenic 50.0%
CAAGTATCCCAAGGTCAAGG+TGG + chr8.2:64917689-64917708 MS.gene57492:CDS 50.0%
CTCATGAAGGTTCAACGCAG+TGG + chr8.2:64918242-64918261 MS.gene57492:CDS 50.0%
CTCGCAACGAAGACATCTAG+TGG - chr8.2:64918212-64918231 None:intergenic 50.0%
GAGTTGCTCCGATCTCATGA+AGG + chr8.2:64918229-64918248 MS.gene57492:CDS 50.0%
GCTAAGTACCACCTTGACCT+TGG - chr8.2:64917700-64917719 None:intergenic 50.0%
GCTCAAGTATCCCAAGGTCA+AGG + chr8.2:64917686-64917705 MS.gene57492:CDS 50.0%
GGGCAAAGGCCAAAATGACA+TGG - chr8.2:64917572-64917591 None:intergenic 50.0%
GGAACATTACGTCCGTCACG+TGG - chr8.2:64918185-64918204 None:intergenic 55.0%
TCAGTCTCGTCAGTGGGGTT+AGG - chr8.2:64918083-64918102 None:intergenic 55.0%
! GATCGGTGCTTGCTCCTACT+AGG - chr8.2:64918163-64918182 None:intergenic 55.0%
CTGCGGTATACCACGTGTGC+AGG + chr8.2:64917656-64917675 MS.gene57492:CDS 60.0%
!! GCAAGCACCGATCCACGTGA+CGG + chr8.2:64918170-64918189 MS.gene57492:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 64917450 64918329 64917450 ID=MS.gene57492
chr8.2 mRNA 64917450 64918329 64917450 ID=MS.gene57492.t1;Parent=MS.gene57492
chr8.2 exon 64917450 64918329 64917450 ID=MS.gene57492.t1.exon1;Parent=MS.gene57492.t1
chr8.2 CDS 64917450 64918329 64917450 ID=cds.MS.gene57492.t1;Parent=MS.gene57492.t1
Gene Sequence

>MS.gene57492

ATGTCTCATCTCATCACCGGTAACACTGTTGATCGATTCATTTTACGAGAATACATTGGCGTGAAACCATACCCAAAATCTTTTATATTCCCTGATATTGACTACAACGAAATCGATTTCCATGTCATTTTGGCCTTTGCCCATGAGACTTACAACGAAGATGGAAAAGGCACCGGAAAATTCTATCCCGATTGGGATCTTGATATCTGCGGTATACCACGTGTGCAGGATATCAAGCTCAAGTATCCCAAGGTCAAGGTGGTACTTAGCATTGGTGGTCGTGATATACAAAGTGTGCAGGATATCATCAAGCACAAGGATATTCCCCCTACTAAATATCCTTTCTCTCCTATTGAAAAAGAATCCTGGTGTGATAATGCCGTCGATTCGCTCAAAAAGATCATCCAAGACTACACGTTTGATGGCATTGATATTCTCTATGACAACATCAATACCAATGAAGAAGATTTCTCCAACTACGTTGGGGACGTTATAAAAAGACTCAAGGAAGAGGTAGGTATCAATGTGGTGTCCATTGCTCCATCCCATGAAACTAATGAACACTACAAGCTACTCTACAGGGACCACAGTGACGATATTAATTGGGTTAACTACCAATTCTACATGCAGCCTAACCCCACTGACGAGACTGACTTTGTAGACCTGATCTATGTTAGACTCGCAAGGGAATGTTACACTTTTGAAAAACTCCTAGTAGGAGCAAGCACCGATCCACGTGACGGACGTAATGTTCCACTTCCACTAGATGTCTTCGTTGCGAGTTGCTCCGATCTCATGAAGGTTCAACGCAGTGGCATTTTCATTTGGAATGCTAATGACTATGAGAAAATTGCACGAGATATCATAACAACTATCCCTC
Protein sequence

>MS.gene57492.t1

MSHLITGNTVDRFILREYIGVKPYPKSFIFPDIDYNEIDFHVILAFAHETYNEDGKGTGKFYPDWDLDICGIPRVQDIKLKYPKVKVVLSIGGRDIQSVQDIIKHKDIPPTKYPFSPIEKESWCDNAVDSLKKIIQDYTFDGIDILYDNINTNEEDFSNYVGDVIKRLKEEVGINVVSIAPSHETNEHYKLLYRDHSDDINWVNYQFYMQPNPTDETDFVDLIYVRLARECYTFEKLLVGASTDPRDGRNVPLPLDVFVASCSDLMKVQRSGIFIWNANDYEKIARDIITTIP