AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene27635

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene27635.t1 MTR_7g077620 66.488 373 115 7 1 366 1 370 2.19e-162 460
MS.gene27635.t1 MTR_7g077650 61.619 383 121 13 1 368 1 372 1.40e-146 419
MS.gene27635.t1 MTR_7g077660 61.186 371 131 9 5 368 4 368 3.53e-141 405
MS.gene27635.t1 MTR_7g076100 73.418 237 56 4 137 368 66 300 9.41e-113 331
MS.gene27635.t1 MTR_7g076100 84.615 52 8 0 1 52 1 52 1.27e-24 102
MS.gene27635.t1 MTR_7g076110 58.503 294 111 6 85 368 21 313 8.27e-106 313
MS.gene27635.t1 MTR_5g038260 44.000 400 165 16 6 368 6 383 4.05e-84 260
MS.gene27635.t1 MTR_1g108740 43.152 387 153 16 3 366 2 344 7.19e-80 248
MS.gene27635.t1 MTR_5g038230 42.532 395 148 16 6 366 4 353 3.38e-78 244
MS.gene27635.t1 MTR_1g064570 40.380 421 171 17 5 368 3 400 2.82e-73 233
MS.gene27635.t1 MTR_5g082770 44.839 310 132 11 6 301 4 288 5.93e-67 213
MS.gene27635.t1 MTR_7g076130 70.161 124 33 2 167 286 25 148 4.33e-53 173
MS.gene27635.t1 MTR_1g016150 46.701 197 96 5 3 193 2 195 2.70e-47 160
MS.gene27635.t1 MTR_1g016150 59.375 64 18 2 254 314 177 235 1.99e-12 66.6
MS.gene27635.t1 MTR_5g082780 40.708 226 102 7 112 323 1 208 2.34e-40 142
MS.gene27635.t1 MTR_1g108750 44.156 154 52 4 6 158 4 124 5.92e-24 95.9
MS.gene27635.t1 MTR_3g114970 24.227 388 229 17 5 364 3 353 1.42e-13 71.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 68 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTGGTTGGCTTTCATTAA+TGG 0.158823 7.2:+29691663 MS.gene27635:CDS
GCAGCAACGACATAATTATT+TGG 0.166448 7.2:-29691805 None:intergenic
AAAGAGCAAGCCAACCATTT+TGG 0.203122 7.2:+29691857 MS.gene27635:CDS
AAGTCTTGATGTTTATAAAT+TGG 0.216976 7.2:+29692152 MS.gene27635:CDS
TTCTCATAGTAAGTAAAATT+AGG 0.229231 7.2:-29692009 None:intergenic
TATCCCATATGAAAATTAAA+TGG 0.231038 7.2:+29691626 MS.gene27635:CDS
TAATTATTTGGGCTTGTAAT+GGG 0.291906 7.2:-29691793 None:intergenic
GGTATAGTACTACACTTAAA+AGG 0.328753 7.2:-29691715 None:intergenic
CAGCAACGACATAATTATTT+GGG 0.330157 7.2:-29691804 None:intergenic
TATGTCGTTGCTGCCATTTA+CGG 0.330732 7.2:+29691814 MS.gene27635:CDS
AGAAGAACTGCCTCTTAGTT+TGG 0.335492 7.2:+29691378 MS.gene27635:CDS
CGCATCCCCTTGAAGGAAAT+AGG 0.370062 7.2:-29692396 None:intergenic
AAGATGAGAAAATCCGTAAA+TGG 0.376143 7.2:-29691827 None:intergenic
AAGAACACATCGATCACATT+AGG 0.376838 7.2:+29691416 MS.gene27635:CDS
TCTCATAGTAAGTAAAATTA+GGG 0.387493 7.2:-29692008 None:intergenic
ATCTTTACCTATTTCCTTCA+AGG 0.391074 7.2:+29692389 MS.gene27635:CDS
TTTGAGAGGTGGCAGACTAA+TGG 0.407722 7.2:-29691740 None:intergenic
GGGTTCTACCGCAATTTCAA+TGG 0.408089 7.2:+29692427 MS.gene27635:CDS
AAAAGGATTGACTAGAGTTA+TGG 0.415743 7.2:-29691698 None:intergenic
TGATGTTTATAAATTGGAAC+TGG 0.417875 7.2:+29692158 MS.gene27635:CDS
TTGAGAGGTGGCAGACTAAT+GGG 0.429349 7.2:-29691739 None:intergenic
TATGAAAATTAAATGGTGTA+TGG 0.432693 7.2:+29691633 MS.gene27635:CDS
ATAATTATTTGGGCTTGTAA+TGG 0.437481 7.2:-29691794 None:intergenic
AAGAGGCAGTTCTTCTAAGT+TGG 0.451082 7.2:-29691371 None:intergenic
TTAGGTTTGGTGTGGTGTGC+AGG 0.455358 7.2:+29691434 MS.gene27635:CDS
CACATCGATCACATTAGGTT+TGG 0.455542 7.2:+29691421 MS.gene27635:CDS
AAAGCCTTTCATCATAGCAT+TGG 0.456480 7.2:-29692062 None:intergenic
AAGCCTTTCATCATAGCATT+GGG 0.457571 7.2:-29692061 None:intergenic
GTATGGACTATTCATTTGGT+TGG 0.468308 7.2:+29691650 MS.gene27635:CDS
TGGTGTATGGACTATTCATT+TGG 0.472010 7.2:+29691646 MS.gene27635:CDS
AATGAGGAAGGTAGTAGATT+GGG 0.475711 7.2:+29691348 None:intergenic
TAGTTTGGTTCTTGATAAGT+TGG 0.478359 7.2:+29691393 MS.gene27635:CDS
GGTTCTACCGCAATTTCAAT+GGG 0.481590 7.2:+29692428 MS.gene27635:CDS
CTATATGAATCCAAAATGGT+TGG 0.483203 7.2:-29691867 None:intergenic
CAATGAGGAAGGTAGTAGAT+TGG 0.484957 7.2:+29691347 None:intergenic
AGGAGGATTGTTGATCTTGA+AGG 0.506138 7.2:-29691968 None:intergenic
ATACAAGGATCTCTTCTCGT+TGG 0.507143 7.2:-29691566 None:intergenic
AATCTTTGAATGGAGACATA+TGG 0.507395 7.2:+29692094 MS.gene27635:CDS
GAGATCTATAATGTGAAGGA+TGG 0.509549 7.2:+29692351 MS.gene27635:CDS
CTGCTAATTGCTGATGGCAG+CGG 0.512572 7.2:+29691931 MS.gene27635:CDS
ACCTCTCAAATCTGTTTACA+AGG 0.516115 7.2:+29691753 MS.gene27635:CDS
TTATCAAGAACCAAACTAAG+AGG 0.519484 7.2:-29691388 None:intergenic
TCTTTACCTATTTCCTTCAA+GGG 0.520742 7.2:+29692390 MS.gene27635:CDS
TTGGTGTGGTGTGCAGGAGT+TGG 0.525759 7.2:+29691440 MS.gene27635:CDS
CATCCCAATGCTATGATGAA+AGG 0.550966 7.2:+29692058 MS.gene27635:CDS
TTCTAACTTGGAGAAACAAG+AGG 0.552906 7.2:-29692277 None:intergenic
ATAAATTGGAACTGGATGCC+CGG 0.559787 7.2:+29692166 MS.gene27635:CDS
GTTGATCTTGAAGGATACAA+TGG 0.562836 7.2:-29691959 None:intergenic
TGTAATGGGGTCAGCAGACA+AGG 0.568289 7.2:-29691779 None:intergenic
CTTTACCTATTTCCTTCAAG+GGG 0.577911 7.2:+29692391 MS.gene27635:CDS
AATTATTTGGGCTTGTAATG+GGG 0.583882 7.2:-29691792 None:intergenic
AAAGGTCTGCTAATTGCTGA+TGG 0.586662 7.2:+29691925 MS.gene27635:CDS
GTGACTTAGAATGCTATACA+AGG 0.596070 7.2:-29691581 None:intergenic
GTGAGGATCATGAGCATAGG+TGG 0.597353 7.2:-29691514 None:intergenic
TATCAATCCCATTGAAATTG+CGG 0.597459 7.2:-29692435 None:intergenic
CTTAGGCTTAGCAATGAGGA+AGG 0.598112 7.2:+29691336 None:intergenic
CTTTCATCATAGCATTGGGA+TGG 0.603237 7.2:-29692057 None:intergenic
TTGTAAACAGATTTGAGAGG+TGG 0.604090 7.2:-29691751 None:intergenic
CGATCACATTAGGTTTGGTG+TGG 0.607424 7.2:+29691426 MS.gene27635:CDS
TTCGAGACAGTTTGTCTGTG+AGG 0.609415 7.2:-29691531 None:intergenic
GTTAGAGATCTATAATGTGA+AGG 0.621618 7.2:+29692347 MS.gene27635:CDS
TTGGAACTGGATGCCCGGAG+TGG 0.634177 7.2:+29692171 MS.gene27635:CDS
GGGTCATATGAGTCAGCACA+AGG 0.657673 7.2:-29691988 None:intergenic
TCTGTGAGGATCATGAGCAT+AGG 0.687755 7.2:-29691517 None:intergenic
TTTGAATGGAGACATATGGA+TGG 0.693585 7.2:+29692098 MS.gene27635:CDS
GCCTTGTAAACAGATTTGAG+AGG 0.700590 7.2:-29691754 None:intergenic
AGAGGTGGCAGACTAATGGG+AGG 0.724272 7.2:-29691736 None:intergenic
TCATATGAGTCAGCACAAGG+AGG 0.731539 7.2:-29691985 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGATGTTGTATTTTATAA+AGG + chr7.2:29691907-29691926 MS.gene27635:CDS 15.0%
!! AAGTCTTGATGTTTATAAAT+TGG + chr7.2:29692152-29692171 MS.gene27635:CDS 20.0%
!! ACCATAAAAATCATCAATTT+AGG + chr7.2:29691482-29691501 MS.gene27635:CDS 20.0%
!! TATCCCATATGAAAATTAAA+TGG + chr7.2:29691626-29691645 MS.gene27635:CDS 20.0%
!! TATGAAAATTAAATGGTGTA+TGG + chr7.2:29691633-29691652 MS.gene27635:CDS 20.0%
!! TCTCATAGTAAGTAAAATTA+GGG - chr7.2:29692011-29692030 None:intergenic 20.0%
!! TTCTCATAGTAAGTAAAATT+AGG - chr7.2:29692012-29692031 None:intergenic 20.0%
!!! AATTGAATCTTTTTCTAACT+TGG - chr7.2:29692292-29692311 None:intergenic 20.0%
!!! ACACCATTTAATTTTCATAT+GGG - chr7.2:29691632-29691651 None:intergenic 20.0%
!!! TACACCATTTAATTTTCATA+TGG - chr7.2:29691633-29691652 None:intergenic 20.0%
!!! TATTTTGTGAAATCTTTGAA+TGG + chr7.2:29692084-29692103 MS.gene27635:CDS 20.0%
!!! TCCTAAATTGATGATTTTTA+TGG - chr7.2:29691486-29691505 None:intergenic 20.0%
!!! TTTTCTATATGAATCCAAAA+TGG - chr7.2:29691874-29691893 None:intergenic 20.0%
! ATAATTATTTGGGCTTGTAA+TGG - chr7.2:29691797-29691816 None:intergenic 25.0%
! ATATGGGATAAAAATGCAAT+GGG - chr7.2:29691616-29691635 None:intergenic 25.0%
! TAATTATTTGGGCTTGTAAT+GGG - chr7.2:29691796-29691815 None:intergenic 25.0%
! TGATGTTTATAAATTGGAAC+TGG + chr7.2:29692158-29692177 MS.gene27635:CDS 25.0%
!!! AAGACAACATTTTATTTGTC+GGG + chr7.2:29692229-29692248 MS.gene27635:CDS 25.0%
!!! GAAGACAACATTTTATTTGT+CGG + chr7.2:29692228-29692247 MS.gene27635:CDS 25.0%
AAAAGGATTGACTAGAGTTA+TGG - chr7.2:29691701-29691720 None:intergenic 30.0%
AAGATGAGAAAATCCGTAAA+TGG - chr7.2:29691830-29691849 None:intergenic 30.0%
AATCTTTGAATGGAGACATA+TGG + chr7.2:29692094-29692113 MS.gene27635:CDS 30.0%
AATGAAAAAGCTTGAGAGTT+TGG + chr7.2:29692206-29692225 MS.gene27635:CDS 30.0%
AATTATTTGGGCTTGTAATG+GGG - chr7.2:29691795-29691814 None:intergenic 30.0%
ATCTTTACCTATTTCCTTCA+AGG + chr7.2:29692389-29692408 MS.gene27635:CDS 30.0%
CAGCAACGACATAATTATTT+GGG - chr7.2:29691807-29691826 None:intergenic 30.0%
CATATGGGATAAAAATGCAA+TGG - chr7.2:29691617-29691636 None:intergenic 30.0%
CTATATGAATCCAAAATGGT+TGG - chr7.2:29691870-29691889 None:intergenic 30.0%
GGTATAGTACTACACTTAAA+AGG - chr7.2:29691718-29691737 None:intergenic 30.0%
GTTAGAGATCTATAATGTGA+AGG + chr7.2:29692347-29692366 MS.gene27635:CDS 30.0%
TATGGGATAAAAATGCAATG+GGG - chr7.2:29691615-29691634 None:intergenic 30.0%
TCTTTACCTATTTCCTTCAA+GGG + chr7.2:29692390-29692409 MS.gene27635:CDS 30.0%
TTATCAAGAACCAAACTAAG+AGG - chr7.2:29691391-29691410 None:intergenic 30.0%
!! AACATTTTATTTGTCGGGAT+TGG + chr7.2:29692234-29692253 MS.gene27635:CDS 30.0%
!! ATTTGGTTGGCTTTCATTAA+TGG + chr7.2:29691663-29691682 MS.gene27635:CDS 30.0%
!! TAGTTTGGTTCTTGATAAGT+TGG + chr7.2:29691393-29691412 MS.gene27635:CDS 30.0%
AAAGCCTTTCATCATAGCAT+TGG - chr7.2:29692065-29692084 None:intergenic 35.0%
AAGAACACATCGATCACATT+AGG + chr7.2:29691416-29691435 MS.gene27635:CDS 35.0%
AAGCCTTTCATCATAGCATT+GGG - chr7.2:29692064-29692083 None:intergenic 35.0%
ACCTCTCAAATCTGTTTACA+AGG + chr7.2:29691753-29691772 MS.gene27635:CDS 35.0%
CTTTACCTATTTCCTTCAAG+GGG + chr7.2:29692391-29692410 MS.gene27635:CDS 35.0%
GAGATCTATAATGTGAAGGA+TGG + chr7.2:29692351-29692370 MS.gene27635:CDS 35.0%
GCAGCAACGACATAATTATT+TGG - chr7.2:29691808-29691827 None:intergenic 35.0%
GTGACTTAGAATGCTATACA+AGG - chr7.2:29691584-29691603 None:intergenic 35.0%
GTTGATCTTGAAGGATACAA+TGG - chr7.2:29691962-29691981 None:intergenic 35.0%
TTCTAACTTGGAGAAACAAG+AGG - chr7.2:29692280-29692299 None:intergenic 35.0%
TTGTAAACAGATTTGAGAGG+TGG - chr7.2:29691754-29691773 None:intergenic 35.0%
TTTGAATGGAGACATATGGA+TGG + chr7.2:29692098-29692117 MS.gene27635:CDS 35.0%
! GTATGGACTATTCATTTGGT+TGG + chr7.2:29691650-29691669 MS.gene27635:CDS 35.0%
! TGGTGTATGGACTATTCATT+TGG + chr7.2:29691646-29691665 MS.gene27635:CDS 35.0%
!! TTTGTTCAAGTTTTCCACTC+CGG - chr7.2:29692188-29692207 None:intergenic 35.0%
AAAGGTCTGCTAATTGCTGA+TGG + chr7.2:29691925-29691944 MS.gene27635:CDS 40.0%
AAGAGGCAGTTCTTCTAAGT+TGG - chr7.2:29691374-29691393 None:intergenic 40.0%
AGAAGAACTGCCTCTTAGTT+TGG + chr7.2:29691378-29691397 MS.gene27635:CDS 40.0%
AGGAGGATTGTTGATCTTGA+AGG - chr7.2:29691971-29691990 None:intergenic 40.0%
ATAAATTGGAACTGGATGCC+CGG + chr7.2:29692166-29692185 MS.gene27635:CDS 40.0%
ATACAAGGATCTCTTCTCGT+TGG - chr7.2:29691569-29691588 None:intergenic 40.0%
CACATCGATCACATTAGGTT+TGG + chr7.2:29691421-29691440 MS.gene27635:CDS 40.0%
CATCCCAATGCTATGATGAA+AGG + chr7.2:29692058-29692077 MS.gene27635:CDS 40.0%
GCCTTGTAAACAGATTTGAG+AGG - chr7.2:29691757-29691776 None:intergenic 40.0%
GGTTCTACCGCAATTTCAAT+GGG + chr7.2:29692428-29692447 MS.gene27635:CDS 40.0%
! AAAGAGCAAGCCAACCATTT+TGG + chr7.2:29691857-29691876 MS.gene27635:CDS 40.0%
! CTTTCATCATAGCATTGGGA+TGG - chr7.2:29692060-29692079 None:intergenic 40.0%
! TATGTCGTTGCTGCCATTTA+CGG + chr7.2:29691814-29691833 MS.gene27635:CDS 40.0%
!! TTGTTCAAGTTTTCCACTCC+GGG - chr7.2:29692187-29692206 None:intergenic 40.0%
AAAAACTCGCATCCCCTTGA+AGG - chr7.2:29692406-29692425 None:intergenic 45.0%
GGGTTCTACCGCAATTTCAA+TGG + chr7.2:29692427-29692446 MS.gene27635:CDS 45.0%
TCATATGAGTCAGCACAAGG+AGG - chr7.2:29691988-29692007 None:intergenic 45.0%
TCTGTGAGGATCATGAGCAT+AGG - chr7.2:29691520-29691539 None:intergenic 45.0%
TTCGAGACAGTTTGTCTGTG+AGG - chr7.2:29691534-29691553 None:intergenic 45.0%
TTGAGAGGTGGCAGACTAAT+GGG - chr7.2:29691742-29691761 None:intergenic 45.0%
TTTGAGAGGTGGCAGACTAA+TGG - chr7.2:29691743-29691762 None:intergenic 45.0%
!! CGATCACATTAGGTTTGGTG+TGG + chr7.2:29691426-29691445 MS.gene27635:CDS 45.0%
!!! CAAGGGGATGCGAGTTTTTT+GGG + chr7.2:29692407-29692426 MS.gene27635:CDS 45.0%
!!! TCAAGGGGATGCGAGTTTTT+TGG + chr7.2:29692406-29692425 MS.gene27635:CDS 45.0%
CGCATCCCCTTGAAGGAAAT+AGG - chr7.2:29692399-29692418 None:intergenic 50.0%
CTGCTAATTGCTGATGGCAG+CGG + chr7.2:29691931-29691950 MS.gene27635:CDS 50.0%
GGGTCATATGAGTCAGCACA+AGG - chr7.2:29691991-29692010 None:intergenic 50.0%
GTGAGGATCATGAGCATAGG+TGG - chr7.2:29691517-29691536 None:intergenic 50.0%
! TGTAATGGGGTCAGCAGACA+AGG - chr7.2:29691782-29691801 None:intergenic 50.0%
!! TTAGGTTTGGTGTGGTGTGC+AGG + chr7.2:29691434-29691453 MS.gene27635:CDS 50.0%
AGAGGTGGCAGACTAATGGG+AGG - chr7.2:29691739-29691758 None:intergenic 55.0%
TTGGTGTGGTGTGCAGGAGT+TGG + chr7.2:29691440-29691459 MS.gene27635:CDS 55.0%
TTGGAACTGGATGCCCGGAG+TGG + chr7.2:29692171-29692190 MS.gene27635:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 29691349 29692455 29691349 ID=MS.gene27635
chr7.2 mRNA 29691349 29692455 29691349 ID=MS.gene27635.t1;Parent=MS.gene27635
chr7.2 exon 29691349 29692455 29691349 ID=MS.gene27635.t1.exon1;Parent=MS.gene27635.t1
chr7.2 CDS 29691349 29692455 29691349 ID=cds.MS.gene27635.t1;Parent=MS.gene27635.t1
Gene Sequence

>MS.gene27635

ATGAGGAAGGTAGTAGATTGGGCCAACTTAGAAGAACTGCCTCTTAGTTTGGTTCTTGATAAGTTGGAAGAACACATCGATCACATTAGGTTTGGTGTGGTGTGCAGGAGTTGGCTATCTGTTGCAAAGCTTAACCATAAAAATCATCAATTTAGGATTAGTATACCACCTATGCTCATGATCCTCACAGACAAACTGTCTCGAAGACGTAAAAAAACCAACGAGAAGAGATCCTTGTATAGCATTCTAAGTCACAAAGAGTACCCCATTGCATTTTTATCCCATATGAAAATTAAATGGTGTATGGACTATTCATTTGGTTGGCTTTCATTAATGGAATATAACGATGCCATAACTCTAGTCAATCCTTTTAAGTGTAGTACTATACCTCCCATTAGTCTGCCACCTCTCAAATCTGTTTACAAGGCTACCTTGTCTGCTGACCCCATTACAAGCCCAAATAATTATGTCGTTGCTGCCATTTACGGATTTTCTCATCTTGCATTCAAAAGAGCAAGCCAACCATTTTGGATTCATATAGAAAATGAATGTGCTATCATTGATGTTGTATTTTATAAAGGTCTGCTAATTGCTGATGGCAGCGGAAAAACCATTGTATCCTTCAAGATCAACAATCCTCCTTGTGCTGACTCATATGACCCTAATTTTACTTACTATGAGAAGATAGCTAGCACTACATATAGTGTTCCATCCCAATGCTATGATGAAAGGCTTTATTTTGTGAAATCTTTGAATGGAGACATATGGATGGTGAGAAGATATTTAAATATCGTTTTAGATGAAAGTCTTGATGTTTATAAATTGGAACTGGATGCCCGGAGTGGAAAACTTGAACAAATGAAAAAGCTTGAGAGTTTGGAAGACAACATTTTATTTGTCGGGATTGGTGATTCAATTTCTGTGTCAGCCTCTTGTTTCTCCAAGTTAGAAAAAGATTCAATTTATTTTATTTATGACAATGATATGCATGATTTAGCGTTAGAGATCTATAATGTGAAGGATGGAAGCTGTCAGAGACAATCTTTACCTATTTCCTTCAAGGGGATGCGAGTTTTTTGGGTTCTACCGCAATTTCAATGGGATTGA
Protein sequence

>MS.gene27635.t1

MRKVVDWANLEELPLSLVLDKLEEHIDHIRFGVVCRSWLSVAKLNHKNHQFRISIPPMLMILTDKLSRRRKKTNEKRSLYSILSHKEYPIAFLSHMKIKWCMDYSFGWLSLMEYNDAITLVNPFKCSTIPPISLPPLKSVYKATLSADPITSPNNYVVAAIYGFSHLAFKRASQPFWIHIENECAIIDVVFYKGLLIADGSGKTIVSFKINNPPCADSYDPNFTYYEKIASTTYSVPSQCYDERLYFVKSLNGDIWMVRRYLNIVLDESLDVYKLELDARSGKLEQMKKLESLEDNILFVGIGDSISVSASCFSKLEKDSIYFIYDNDMHDLALEIYNVKDGSCQRQSLPISFKGMRVFWVLPQFQWD