AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280008894.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008894.01.T02 MTR_2g461020 84.043 94 7 1 1 86 4 97 5.84e-50 155
MsG0280008894.01.T02 MTR_4g116480 44.565 92 33 4 1 84 1 82 4.94e-13 59.3
MsG0280008894.01.T01 MTR_2g461020 98.413 189 3 0 1 189 1 189 3.67e-139 386
MsG0280008894.01.T01 MTR_1g103050 30.729 192 94 5 1 186 1 159 2.28e-18 78.2
MsG0280008894.01.T01 MTR_4g116480 46.809 94 40 2 4 97 1 84 3.40e-16 70.9
MsG0280008894.01.T01 MTR_1g106815 58.333 48 20 0 140 187 198 245 2.41e-14 69.3
MsG0280008894.01.T01 MTR_3g083480 41.429 70 40 1 117 186 213 281 1.50e-13 68.2
MsG0280008894.01.T01 MTR_1g047180 55.319 47 21 0 140 186 681 727 1.09e-12 66.2
MsG0280008894.01.T01 MTR_3g067995 50.000 50 24 1 135 183 205 254 6.34e-12 63.2
MsG0280008894.01.T01 MTR_6g007680 51.923 52 24 1 136 186 60 111 7.35e-12 60.8
MsG0280008894.01.T01 MTR_1g014710 44.898 49 27 0 135 183 226 274 6.73e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008894.01.T01 AT2G15580 47.264 201 84 6 1 186 1 194 3.23e-51 163
MsG0280008894.01.T01 AT1G49850 62.000 50 19 0 137 186 198 247 1.49e-16 75.5
MsG0280008894.01.T01 AT2G15580 47.000 100 34 4 1 86 1 95 6.39e-16 70.5
MsG0280008894.01.T01 AT2G15580 47.000 100 34 4 1 86 1 95 8.21e-16 70.9
MsG0280008894.01.T01 AT1G55530 28.962 183 95 5 9 183 109 264 2.48e-13 67.4
MsG0280008894.01.T01 AT1G55530 28.962 183 95 5 9 183 109 264 2.48e-13 67.4
MsG0280008894.01.T01 AT1G04790 50.000 48 24 0 139 186 586 633 5.57e-13 67.0
MsG0280008894.01.T01 AT1G55530 55.102 49 22 0 135 183 183 231 1.72e-12 65.1
MsG0280008894.01.T01 AT3G13430 59.524 42 17 0 142 183 225 266 5.69e-12 63.5
MsG0280008894.01.T01 AT3G13430 59.524 42 17 0 142 183 225 266 5.69e-12 63.5
MsG0280008894.01.T01 AT3G13430 59.524 42 17 0 142 183 225 266 5.69e-12 63.5
MsG0280008894.01.T01 AT3G13430 59.524 42 17 0 142 183 225 266 5.69e-12 63.5
MsG0280008894.01.T01 AT1G68070 50.000 50 25 0 138 187 288 337 5.95e-12 63.5
MsG0280008894.01.T01 AT5G20910 48.980 49 25 0 135 183 223 271 1.15e-11 62.4
MsG0280008894.01.T01 AT1G74620 32.530 83 51 2 109 186 146 228 2.45e-11 61.2
MsG0280008894.01.T01 AT5G08139 52.381 42 20 0 142 183 309 350 7.18e-11 60.5

Find 51 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGAAGCATTCCTGCCATTT+TGG 0.188105 2:-41128545 None:intergenic
ACAACAAATTTAGACAATTA+AGG 0.274164 2:-41129466 None:intergenic
CAGAAAATCCTCCAGACTTA+TGG 0.295617 2:-41128597 None:intergenic
TAGAAATAATGAACTAATAA+TGG 0.297750 2:+41129547 MsG0280008894.01.T01:three_prime_UTR
GAGTTACAAACTGAGGTATA+TGG 0.311218 2:+41129213 MsG0280008894.01.T01:CDS
AAGAAATGAAAAGCTTGTTT+AGG 0.331374 2:-41128361 None:intergenic
TTTGTCATCCAATCTTTGTT+TGG 0.351023 2:-41128897 None:intergenic
CTCCTACCATATTCTCATCT+TGG 0.373947 2:-41128862 None:intergenic
GTCACACCAAGATGAGAATA+TGG 0.386289 2:+41128856 MsG0280008894.01.T01:CDS
TTGCTCCAACTGAACTTCCT+TGG 0.389745 2:-41129252 None:intergenic
ATTCCACATGCTTGAAGCCT+TGG 0.391055 2:+41129376 MsG0280008894.01.T01:CDS
TGAATGATTAGAACTGCTTT+TGG 0.405186 2:-41128424 None:intergenic
AAATTTGTTGTAGACTTTGT+TGG 0.406680 2:+41129478 MsG0280008894.01.T01:three_prime_UTR
CTTCTAGCTGATTCAACTCC+TGG 0.409347 2:-41128565 None:intergenic
TATTTCCTCATCATCTTCAA+TGG 0.411710 2:+41128696 MsG0280008894.01.T01:CDS
AGAGGATTGTGCTGTGTGTT+TGG 0.420957 2:+41129299 MsG0280008894.01.T01:CDS
AAAATGGCAGGAATGCTTCC+AGG 0.421917 2:+41128547 MsG0280008894.01.T01:exon
AGGAAATAGTGAAAATCTAA+AGG 0.434746 2:-41129446 None:intergenic
AGAAGACGTGTCCATAAGTC+TGG 0.443956 2:+41128586 MsG0280008894.01.T01:CDS
AAAGCATTATTATCTAAAAC+AGG 0.453933 2:+41128460 MsG0280008894.01.T01:five_prime_UTR
GGAAATAGTGAAAATCTAAA+GGG 0.456814 2:-41129445 None:intergenic
TATTCTCATCTTGGTGTGAC+TGG 0.474654 2:-41128853 None:intergenic
TGTTTGGAATCATTTAAGAT+TGG 0.475277 2:+41129315 MsG0280008894.01.T01:CDS
ATGAGGAAATACGAGATTCA+TGG 0.479758 2:-41128684 None:intergenic
AAAGGGTATCAGAAAACATA+AGG 0.481341 2:+41128930 MsG0280008894.01.T01:CDS
TAGAGCAGCCAAACAAAGAT+TGG 0.490480 2:+41128889 MsG0280008894.01.T01:CDS
AATGAAAAGCTTGTTTAGGT+GGG 0.491071 2:-41128357 None:intergenic
GAAAATCTAAAGGGAAAGAA+TGG 0.491291 2:-41129436 None:intergenic
AAATGAAAAGCTTGTTTAGG+TGG 0.493240 2:-41128358 None:intergenic
AGTTACAAACTGAGGTATAT+GGG 0.503707 2:+41129214 MsG0280008894.01.T01:CDS
TCAGTTGGAGCAAATTGAGC+TGG 0.509816 2:+41129262 MsG0280008894.01.T01:CDS
AACTTGTGTGCACAAGGTAA+AGG 0.529312 2:-41129351 None:intergenic
GTGGTCCAAGGAAGTTCAGT+TGG 0.539114 2:+41129247 MsG0280008894.01.T01:CDS
GTTTAAGAAAACACAAATCA+AGG 0.540688 2:-41129524 None:intergenic
TGACAAATTCAGATCACAAA+GGG 0.548128 2:+41128913 MsG0280008894.01.T01:CDS
ATAATGCTTTGGTGACTGAC+AGG 0.548888 2:-41128447 None:intergenic
TAACCAAGGCTTCAAGCATG+TGG 0.558920 2:-41129379 None:intergenic
AAGAACATGAAGTGTGTGGA+AGG 0.571227 2:+41129171 MsG0280008894.01.T01:CDS
CAAATTGAGCTGGAAAGCAT+CGG 0.579936 2:+41129272 MsG0280008894.01.T01:CDS
CTGGAAAGCATCGGAACAAG+AGG 0.580805 2:+41129281 MsG0280008894.01.T01:CDS
ACAAACCATTGAAGATGATG+AGG 0.590614 2:-41128701 None:intergenic
AAGGCTTCAAGCATGTGGAA+TGG 0.593453 2:-41129374 None:intergenic
GGACAAAGAAAAGTGGTCCA+AGG 0.620165 2:+41129235 MsG0280008894.01.T01:CDS
GTATATGGGACAAAGAAAAG+TGG 0.626148 2:+41129228 MsG0280008894.01.T01:CDS
GAATGGAACTTGTGTGCACA+AGG 0.639361 2:-41129357 None:intergenic
CATAGAAGAGTTACAAACTG+AGG 0.641006 2:+41129206 MsG0280008894.01.T01:CDS
TTTGTTGGATGAATGAAGTG+AGG 0.658438 2:+41129493 MsG0280008894.01.T01:three_prime_UTR
ATGACAAATTCAGATCACAA+AGG 0.661195 2:+41128912 MsG0280008894.01.T01:CDS
AGAATGGTAGTTCTACAACA+TGG 0.664178 2:-41129420 None:intergenic
CACCAAGATGAGAATATGGT+AGG 0.666185 2:+41128860 MsG0280008894.01.T01:CDS
AGACGTGTCCATAAGTCTGG+AGG 0.667088 2:+41128589 MsG0280008894.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTTATTAATATTATTTA+TGG + Chr2:41128799-41128818 MsG0280008894.01.T01:intron 0.0%
!!! AAATAAAAAACTATCTTTTT+AGG - Chr2:41128992-41129011 None:intergenic 10.0%
!! TAGAAATAATGAACTAATAA+TGG + Chr2:41129547-41129566 MsG0280008894.01.T01:three_prime_UTR 15.0%
!!! GAAAATAAATCAAAACTTTT+TGG - Chr2:41128970-41128989 None:intergenic 15.0%
!! ACAACAAATTTAGACAATTA+AGG - Chr2:41129469-41129488 None:intergenic 20.0%
!!! AAAGCATTATTATCTAAAAC+AGG + Chr2:41128460-41128479 MsG0280008894.01.T01:five_prime_UTR 20.0%
!!! TGTTTTAGATAATAATGCTT+TGG - Chr2:41128461-41128480 None:intergenic 20.0%
! AGGAAATAGTGAAAATCTAA+AGG - Chr2:41129449-41129468 None:intergenic 25.0%
! ATTAATCAGATCTAAGTTCT+AGG - Chr2:41129078-41129097 None:intergenic 25.0%
! GAATAAGAGCAATGTTATAT+CGG + Chr2:41129616-41129635 MsG0280008894.01.T01:three_prime_UTR 25.0%
! GGAAATAGTGAAAATCTAAA+GGG - Chr2:41129448-41129467 None:intergenic 25.0%
! GTTTAAGAAAACACAAATCA+AGG - Chr2:41129527-41129546 None:intergenic 25.0%
! TTTGTTCAAACACAGAAAAA+AGG + Chr2:41128521-41128540 MsG0280008894.01.T01:five_prime_UTR 25.0%
!! AAGAAATGAAAAGCTTGTTT+AGG - Chr2:41128364-41128383 None:intergenic 25.0%
!! TGTGAATTATTTTCTAACCA+AGG - Chr2:41129396-41129415 None:intergenic 25.0%
!! TGTTTGGAATCATTTAAGAT+TGG + Chr2:41129315-41129334 MsG0280008894.01.T01:CDS 25.0%
!!! AAATTTGTTGTAGACTTTGT+TGG + Chr2:41129478-41129497 MsG0280008894.01.T01:three_prime_UTR 25.0%
!!! GAAACTTGTTATGTATTACT+AGG + Chr2:41129145-41129164 MsG0280008894.01.T01:intron 25.0%
AGTTACAAACTGAGGTATAT+GGG + Chr2:41129214-41129233 MsG0280008894.01.T01:CDS 30.0%
ATGACAAATTCAGATCACAA+AGG + Chr2:41128912-41128931 MsG0280008894.01.T01:CDS 30.0%
GAAAATCTAAAGGGAAAGAA+TGG - Chr2:41129439-41129458 None:intergenic 30.0%
GTGTTATGAGAAGAAAAAGA+TGG - Chr2:41128628-41128647 None:intergenic 30.0%
TATTTCCTCATCATCTTCAA+TGG + Chr2:41128696-41128715 MsG0280008894.01.T01:CDS 30.0%
TGACAAATTCAGATCACAAA+GGG + Chr2:41128913-41128932 MsG0280008894.01.T01:CDS 30.0%
TTTGTCATCCAATCTTTGTT+TGG - Chr2:41128900-41128919 None:intergenic 30.0%
! AAATGAAAAGCTTGTTTAGG+TGG - Chr2:41128361-41128380 None:intergenic 30.0%
! AATGAAAAGCTTGTTTAGGT+GGG - Chr2:41128360-41128379 None:intergenic 30.0%
! TGAATGATTAGAACTGCTTT+TGG - Chr2:41128427-41128446 None:intergenic 30.0%
!! AAAGGGTATCAGAAAACATA+AGG + Chr2:41128930-41128949 MsG0280008894.01.T01:CDS 30.0%
ACAAACCATTGAAGATGATG+AGG - Chr2:41128704-41128723 None:intergenic 35.0%
ATGAGGAAATACGAGATTCA+TGG - Chr2:41128687-41128706 None:intergenic 35.0%
CACAGAAAAAAGGACCAAAA+TGG + Chr2:41128531-41128550 MsG0280008894.01.T01:exon 35.0%
CATAGAAGAGTTACAAACTG+AGG + Chr2:41129206-41129225 MsG0280008894.01.T01:CDS 35.0%
GAAAAAGAACATGAAGTGTG+TGG + Chr2:41129167-41129186 MsG0280008894.01.T01:CDS 35.0%
GAGTTACAAACTGAGGTATA+TGG + Chr2:41129213-41129232 MsG0280008894.01.T01:CDS 35.0%
GTATATGGGACAAAGAAAAG+TGG + Chr2:41129228-41129247 MsG0280008894.01.T01:CDS 35.0%
TTTGTTGGATGAATGAAGTG+AGG + Chr2:41129493-41129512 MsG0280008894.01.T01:three_prime_UTR 35.0%
! AGAATGGTAGTTCTACAACA+TGG - Chr2:41129423-41129442 None:intergenic 35.0%
AACTTGTGTGCACAAGGTAA+AGG - Chr2:41129354-41129373 None:intergenic 40.0%
AAGAACATGAAGTGTGTGGA+AGG + Chr2:41129171-41129190 MsG0280008894.01.T01:CDS 40.0%
CACCAAGATGAGAATATGGT+AGG + Chr2:41128860-41128879 MsG0280008894.01.T01:CDS 40.0%
CAGAAAATCCTCCAGACTTA+TGG - Chr2:41128600-41128619 None:intergenic 40.0%
CTCCTACCATATTCTCATCT+TGG - Chr2:41128865-41128884 None:intergenic 40.0%
GAAAAAAGGACCAAAATGGC+AGG + Chr2:41128535-41128554 MsG0280008894.01.T01:exon 40.0%
GTCACACCAAGATGAGAATA+TGG + Chr2:41128856-41128875 MsG0280008894.01.T01:CDS 40.0%
TAGAGCAGCCAAACAAAGAT+TGG + Chr2:41128889-41128908 MsG0280008894.01.T01:CDS 40.0%
! ATAATGCTTTGGTGACTGAC+AGG - Chr2:41128450-41128469 None:intergenic 40.0%
! CAAATTGAGCTGGAAAGCAT+CGG + Chr2:41129272-41129291 MsG0280008894.01.T01:CDS 40.0%
! TATTCTCATCTTGGTGTGAC+TGG - Chr2:41128856-41128875 None:intergenic 40.0%
!! ACAAAAAGAAGAGCGTCTTG+AGG - Chr2:41128650-41128669 None:intergenic 40.0%
AAAATGGCAGGAATGCTTCC+AGG + Chr2:41128547-41128566 MsG0280008894.01.T01:exon 45.0%
AAGGCTTCAAGCATGTGGAA+TGG - Chr2:41129377-41129396 None:intergenic 45.0%
AGAAGACGTGTCCATAAGTC+TGG + Chr2:41128586-41128605 MsG0280008894.01.T01:CDS 45.0%
AGAGGATTGTGCTGTGTGTT+TGG + Chr2:41129299-41129318 MsG0280008894.01.T01:CDS 45.0%
ATTCCACATGCTTGAAGCCT+TGG + Chr2:41129376-41129395 MsG0280008894.01.T01:CDS 45.0%
GAATGGAACTTGTGTGCACA+AGG - Chr2:41129360-41129379 None:intergenic 45.0%
GGACAAAGAAAAGTGGTCCA+AGG + Chr2:41129235-41129254 MsG0280008894.01.T01:CDS 45.0%
TAACCAAGGCTTCAAGCATG+TGG - Chr2:41129382-41129401 None:intergenic 45.0%
TCAGTTGGAGCAAATTGAGC+TGG + Chr2:41129262-41129281 MsG0280008894.01.T01:CDS 45.0%
TTGCTCCAACTGAACTTCCT+TGG - Chr2:41129255-41129274 None:intergenic 45.0%
! CTTCTAGCTGATTCAACTCC+TGG - Chr2:41128568-41128587 None:intergenic 45.0%
!!! ACTGCTTTTGGTGATGCTAG+TGG - Chr2:41128415-41128434 None:intergenic 45.0%
!!! CTGCTTTTGGTGATGCTAGT+GGG - Chr2:41128414-41128433 None:intergenic 45.0%
!!! TGGAAGCATTCCTGCCATTT+TGG - Chr2:41128548-41128567 None:intergenic 45.0%
!! AGAATATATAAAAAAAAAAA+AGG - Chr2:41128771-41128790 None:intergenic 5.0%
AGACGTGTCCATAAGTCTGG+AGG + Chr2:41128589-41128608 MsG0280008894.01.T01:CDS 50.0%
GTGGTCCAAGGAAGTTCAGT+TGG + Chr2:41129247-41129266 MsG0280008894.01.T01:CDS 50.0%
!! CTGGAAAGCATCGGAACAAG+AGG + Chr2:41129281-41129300 MsG0280008894.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr2 gene 41128318 41129636 41128318 ID=MsG0280008894.01;Name=MsG0280008894.01
Chr2 mRNA 41128318 41129636 41128318 ID=MsG0280008894.01.T01;Parent=MsG0280008894.01;Name=MsG0280008894.01.T01;_AED=0.17;_eAED=0.17;_QI=232|1|1|1|0|0|3|184|189
Chr2 exon 41129167 41129636 41129167 ID=MsG0280008894.01.T01:exon:30030;Parent=MsG0280008894.01.T01
Chr2 exon 41128836 41128951 41128836 ID=MsG0280008894.01.T01:exon:30029;Parent=MsG0280008894.01.T01
Chr2 exon 41128318 41128717 41128318 ID=MsG0280008894.01.T01:exon:30028;Parent=MsG0280008894.01.T01
Chr2 five_prime_UTR 41128318 41128549 41128318 ID=MsG0280008894.01.T01:five_prime_utr;Parent=MsG0280008894.01.T01
Chr2 CDS 41128550 41128717 41128550 ID=MsG0280008894.01.T01:cds;Parent=MsG0280008894.01.T01
Chr2 CDS 41128836 41128951 41128836 ID=MsG0280008894.01.T01:cds;Parent=MsG0280008894.01.T01
Chr2 CDS 41129167 41129452 41129167 ID=MsG0280008894.01.T01:cds;Parent=MsG0280008894.01.T01
Chr2 three_prime_UTR 41129453 41129636 41129453 ID=MsG0280008894.01.T01:three_prime_utr;Parent=MsG0280008894.01.T01
Chr2 mRNA 41128559 41128961 41128559 ID=MsG0280008894.01.T02;Parent=MsG0280008894.01;Name=MsG0280008894.01.T02;_AED=0.41;_eAED=0.42;_QI=0|0|0|1|0|0|2|0|86
Chr2 exon 41128822 41128961 41128822 ID=MsG0280008894.01.T02:exon:30032;Parent=MsG0280008894.01.T02
Chr2 exon 41128559 41128679 41128559 ID=MsG0280008894.01.T02:exon:30031;Parent=MsG0280008894.01.T02
Chr2 CDS 41128559 41128679 41128559 ID=MsG0280008894.01.T02:cds;Parent=MsG0280008894.01.T02
Chr2 CDS 41128822 41128961 41128822 ID=MsG0280008894.01.T02:cds;Parent=MsG0280008894.01.T02
Gene Sequence

>MsG0280008894.01.T02

ATGCTTCCAGGAGTTGAATCAGCTAGAAGAAGACGTGTCCATAAGTCTGGAGGATTTTCTGATTCACCATCTTTTTCTTCTCATAACACCTCAAGACGCTCTTCTTTTTGTTTGTATGCAAATTTGAATTTACAGCAAAGAAATATATTATACCAGTCACACCAAGATGAGAATATGGTAGGAGCAGCTAGAGCAGCCAAACAAAGATTGGATGACAAATTCAGATCACAAAGGGTATCAGAAAACATAAGGTATAAATAA

>MsG0280008894.01.T01

ATGGCAGGAATGCTTCCAGGAGTTGAATCAGCTAGAAGAAGACGTGTCCATAAGTCTGGAGGATTTTCTGATTCACCATCTTTTTCTTCTCATAACACCTCAAGACGCTCTTCTTTTTGTTTGTATGCAAGTAACCATGAATCTCGTATTTCCTCATCATCTTCAATGCAAAGAAATATATTATACCAGTCACACCAAGATGAGAATATGGTAGGAGCAGCTAGAGCAGCCAAACAAAGATTGGATGACAAATTCAGATCACAAAGGGTATCAGAAAACATAAGGAAAAAGAACATGAAGTGTGTGGAAGGTAGAAACGAAAGCATAGAAGAGTTACAAACTGAGGTATATGGGACAAAGAAAAGTGGTCCAAGGAAGTTCAGTTGGAGCAAATTGAGCTGGAAAGCATCGGAACAAGAGGATTGTGCTGTGTGTTTGGAATCATTTAAGATTGGAGACAAATTGATTCCTTTACCTTGTGCACACAAGTTCCATTCCACATGCTTGAAGCCTTGGTTAGAAAATAATTCACACTGTCCATGTTGTAGAACTACCATTCTTTCCCTTTAG

Protein sequence

>MsG0280008894.01.T02

MLPGVESARRRRVHKSGGFSDSPSFSSHNTSRRSSFCLYANLNLQQRNILYQSHQDENMVGAARAAKQRLDDKFRSQRVSENIRYK*

>MsG0280008894.01.T01

MAGMLPGVESARRRRVHKSGGFSDSPSFSSHNTSRRSSFCLYASNHESRISSSSSMQRNILYQSHQDENMVGAARAAKQRLDDKFRSQRVSENIRKKNMKCVEGRNESIEELQTEVYGTKKSGPRKFSWSKLSWKASEQEDCAVCLESFKIGDKLIPLPCAHKFHSTCLKPWLENNSHCPCCRTTILSL*