AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene000258

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000258.t1 MTR_8g005900 94.068 354 18 1 1 354 1 351 0.0 612
MS.gene000258.t1 MTR_5g012680 56.000 325 126 4 33 352 44 356 6.03e-124 361
MS.gene000258.t1 MTR_5g036410 46.254 307 154 5 39 339 54 355 3.60e-93 283
MS.gene000258.t1 MTR_8g062770 47.241 290 136 6 38 315 47 331 8.01e-80 249
MS.gene000258.t1 MTR_6g008480 38.538 301 145 7 37 309 41 329 7.74e-60 196
MS.gene000258.t1 MTR_5g036080 35.664 286 161 7 31 312 55 321 4.55e-48 165
MS.gene000258.t1 MTR_5g036087 32.831 332 182 12 7 314 7 321 7.93e-37 136
MS.gene000258.t1 MTR_5g036083 33.574 277 141 9 45 314 38 278 2.71e-36 134
MS.gene000258.t1 MTR_5g036093 31.699 306 167 9 53 345 35 311 8.43e-35 130
MS.gene000258.t1 MTR_5g036360 31.970 269 147 8 51 311 81 321 6.15e-33 126
MS.gene000258.t1 MTR_5g036290 31.579 266 154 8 51 311 89 331 4.33e-31 121
MS.gene000258.t1 MTR_5g036270 28.704 324 162 10 48 314 2 313 9.90e-29 114
MS.gene000258.t1 MTR_5g036310 28.213 319 158 10 3 314 26 280 3.58e-22 95.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000258.t1 AT2G45040 50.857 350 149 7 6 352 10 339 9.42e-119 347
MS.gene000258.t1 AT4G16640 55.944 286 113 4 33 316 51 325 1.97e-109 324
MS.gene000258.t1 AT1G70170 45.329 289 141 5 39 315 46 329 6.04e-85 262
MS.gene000258.t1 AT1G59970 45.725 269 132 5 46 309 54 313 2.92e-79 247
MS.gene000258.t1 AT1G24140 42.173 313 156 7 39 332 48 354 6.05e-78 244

Find 68 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGGTGTACAATCTCTTTA+TGG 0.178172 8.3:+81965140 MS.gene000258:CDS
TTGAATATTGATGATATTAA+AGG 0.231900 8.3:+81965122 MS.gene000258:CDS
AAAGATACCTATCTCGTTTC+GGG 0.242215 8.3:+81964400 MS.gene000258:CDS
AGTTTGGAGTTCACACTTTC+GGG 0.242633 8.3:+81965231 MS.gene000258:CDS
GAGAAATGTGAAGGAGTATC+TGG 0.292363 8.3:-81964247 None:intergenic
ATGGTTTGTGATGGATATTT+TGG 0.295126 8.3:-81964316 None:intergenic
CAGTAATGTATCCAAGTTTA+AGG 0.295494 8.3:+81965078 MS.gene000258:CDS
CTTGAAGTCCAAGATTTCTT+TGG 0.299528 8.3:-81964491 None:intergenic
AAGTTTGGAGTTCACACTTT+CGG 0.320903 8.3:+81965230 MS.gene000258:CDS
ACAAATCATGGTGCAAAGTT+TGG 0.322005 8.3:+81965215 MS.gene000258:CDS
ATACAGGGAAATTGCAATAA+TGG 0.322978 8.3:-81965270 None:intergenic
GAGCCATTTGATGGAGTTCT+TGG 0.328970 8.3:+81964882 MS.gene000258:CDS
ATCAAATACCAAAGAAATCT+TGG 0.341782 8.3:+81964483 MS.gene000258:CDS
GACCACTGAGATCTAAAATT+AGG 0.342679 8.3:-81965170 None:intergenic
GTTCAAATTAATTATAATAC+AGG 0.346576 8.3:-81965286 None:intergenic
AAAAGATACCTATCTCGTTT+CGG 0.355227 8.3:+81964399 MS.gene000258:CDS
ACATGAGATTGGACATTTGT+TGG 0.375194 8.3:+81965028 MS.gene000258:CDS
TAGATGGAGTTCAGTTATTC+CGG 0.381227 8.3:+81964782 MS.gene000258:CDS
TAGATCTCAGTGGTCTTCAT+TGG 0.382448 8.3:+81965178 MS.gene000258:CDS
AATCTTGGACTTCAAGTAAC+TGG 0.389374 8.3:+81964498 MS.gene000258:CDS
CATGAGATTGGACATTTGTT+GGG 0.392912 8.3:+81965029 MS.gene000258:CDS
TCAAACGAGCATTCTCTAGA+TGG 0.397604 8.3:+81964766 MS.gene000258:CDS
ACTTTCGGGTTCTCTATGAT+TGG 0.399324 8.3:+81965245 MS.gene000258:CDS
GAGACTTGGACGGTTGATTT+CGG 0.401503 8.3:+81964960 MS.gene000258:CDS
AAACTTTGCACCATGATTTG+TGG 0.402827 8.3:-81965213 None:intergenic
TAATGTACCCGAAACGAGAT+AGG 0.407063 8.3:-81964407 None:intergenic
AAGCCATAGGTTAGTGTCAT+TGG 0.410592 8.3:-81964690 None:intergenic
TCTGATTCGACAAAACTTAC+CGG 0.414194 8.3:-81964801 None:intergenic
TTATCTCTTGGCCTTAAACT+TGG 0.420331 8.3:-81965089 None:intergenic
CATTCGTTCTCACCGGAGAT+AGG 0.424201 8.3:+81964915 MS.gene000258:CDS
GTCACATAGTTCTTTGAAAG+AGG 0.449261 8.3:+81965055 MS.gene000258:CDS
TGAAGGAGTATCTGGGTGAT+AGG 0.455918 8.3:-81964239 None:intergenic
TGATTTCGGTGTAACGAAAT+CGG 0.459611 8.3:+81964974 MS.gene000258:CDS
ACCTCGATGCAGCCGAGACT+TGG 0.460543 8.3:+81964946 MS.gene000258:CDS
GGTGATGGTGAGCCATTTGA+TGG 0.470162 8.3:+81964873 MS.gene000258:CDS
TTTGTCGAATCAGAGGATTA+TGG 0.472195 8.3:+81964810 MS.gene000258:CDS
TCTGATATCTCCACAAATCA+TGG 0.490593 8.3:+81965203 MS.gene000258:CDS
ATTCATAGCTTCACCAATGC+TGG 0.494960 8.3:+81964342 MS.gene000258:CDS
TCAGTAGCAACACATGAGAT+TGG 0.504027 8.3:+81965017 MS.gene000258:CDS
GTTGTTGCCTCTGCCAGCAT+TGG 0.507410 8.3:-81964355 None:intergenic
AGCTTCACCAATGCTGGCAG+AGG 0.514014 8.3:+81964348 MS.gene000258:CDS
ACACCAAGAACTCCATCAAA+TGG 0.514511 8.3:-81964885 None:intergenic
CGGTGTAACGAAATCGGAGG+TGG 0.518632 8.3:+81964980 MS.gene000258:CDS
CTATCTCCGGTGAGAACGAA+TGG 0.521976 8.3:-81964914 None:intergenic
ATCAGAGGATTATGGTTTCG+CGG 0.530317 8.3:+81964818 MS.gene000258:CDS
ACTTGAGCATACAAGAGATA+AGG 0.535220 8.3:+81964736 MS.gene000258:CDS
AGAAATGTGAAGGAGTATCT+GGG 0.543003 8.3:-81964246 None:intergenic
GATCATTTGAGAAACTGTAT+TGG 0.546404 8.3:-81964532 None:intergenic
GTGTCTGGGACACCACATCT+TGG 0.546997 8.3:-81964558 None:intergenic
AGGTGAAGTCTTCCTATCTC+CGG 0.553302 8.3:-81964927 None:intergenic
ATGCCAATGACACTAACCTA+TGG 0.555029 8.3:+81964687 MS.gene000258:CDS
TATCTCCGGTGAGAACGAAT+GGG 0.562042 8.3:-81964913 None:intergenic
GGCAGAGGCAACAACATCCC+AGG 0.565058 8.3:+81964363 MS.gene000258:CDS
GAAATCAACCGTCCAAGTCT+CGG 0.567339 8.3:-81964958 None:intergenic
AGTAGTGAAGAGAAATGTGA+AGG 0.574185 8.3:-81964256 None:intergenic
GTTAGCCCATTCGTTCTCAC+CGG 0.599027 8.3:+81964908 MS.gene000258:CDS
TTCAAATTAATTATAATACA+GGG 0.602524 8.3:-81965285 None:intergenic
TATAGTGGTGACCATGGTGA+TGG 0.605121 8.3:+81964858 MS.gene000258:CDS
ATGAATGTCATGGTTTGTGA+TGG 0.608360 8.3:-81964325 None:intergenic
GTAGTCACTTGAGAAGCCAT+AGG 0.626586 8.3:-81964703 None:intergenic
CAAATGATCACACCAAGATG+TGG 0.640519 8.3:+81964546 MS.gene000258:CDS
TGGTGAAGCTATGAATGTCA+TGG 0.644473 8.3:-81964335 None:intergenic
CGATGCAGCCGAGACTTGGA+CGG 0.657273 8.3:+81964950 MS.gene000258:CDS
TCCAAGTCTCGGCTGCATCG+AGG 0.696377 8.3:-81964947 None:intergenic
TTTCGGTGTAACGAAATCGG+AGG 0.702180 8.3:+81964977 MS.gene000258:CDS
CAAATGGCTCACCATCACCA+TGG 0.702776 8.3:-81964869 None:intergenic
GTGAAGATGATGATAATGTG+AGG 0.703519 8.3:-81964284 None:intergenic
GGCATGTCACGTGACCAACG+TGG 0.753244 8.3:-81964669 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAAAATAGGATTTTATAG+TGG + chr8.3:81964843-81964862 MS.gene000258:CDS 15.0%
!!! TTGAATATTGATGATATTAA+AGG + chr8.3:81965122-81965141 MS.gene000258:CDS 15.0%
!!! TGTTATGAATATGATTTTGA+TGG - chr8.3:81964620-81964639 None:intergenic 20.0%
! ATCAAATACCAAAGAAATCT+TGG + chr8.3:81964483-81964502 MS.gene000258:CDS 25.0%
!! TTTTGAATTGTGATATTCCT+GGG - chr8.3:81964383-81964402 None:intergenic 25.0%
!!! ACGAATTTTGTTTATTTTCC+TGG + chr8.3:81964642-81964661 MS.gene000258:CDS 25.0%
AAAAGATACCTATCTCGTTT+CGG + chr8.3:81964399-81964418 MS.gene000258:CDS 30.0%
ATACAGGGAAATTGCAATAA+TGG - chr8.3:81965273-81965292 None:intergenic 30.0%
CAGTAATGTATCCAAGTTTA+AGG + chr8.3:81965078-81965097 MS.gene000258:CDS 30.0%
GATCATTTGAGAAACTGTAT+TGG - chr8.3:81964535-81964554 None:intergenic 30.0%
! AAAGGTGTACAATCTCTTTA+TGG + chr8.3:81965140-81965159 MS.gene000258:CDS 30.0%
! AAATCAGCTCTTTTATCTCT+TGG - chr8.3:81965104-81965123 None:intergenic 30.0%
! ATCCTAATTTTAGATCTCAG+TGG + chr8.3:81965168-81965187 MS.gene000258:CDS 30.0%
! CTTTTGAATTGTGATATTCC+TGG - chr8.3:81964384-81964403 None:intergenic 30.0%
!!! ATGGTTTGTGATGGATATTT+TGG - chr8.3:81964319-81964338 None:intergenic 30.0%
AAACTTTGCACCATGATTTG+TGG - chr8.3:81965216-81965235 None:intergenic 35.0%
AAAGATACCTATCTCGTTTC+GGG + chr8.3:81964400-81964419 MS.gene000258:CDS 35.0%
AATCTTGGACTTCAAGTAAC+TGG + chr8.3:81964498-81964517 MS.gene000258:CDS 35.0%
ACAAATCATGGTGCAAAGTT+TGG + chr8.3:81965215-81965234 MS.gene000258:CDS 35.0%
ACATGAGATTGGACATTTGT+TGG + chr8.3:81965028-81965047 MS.gene000258:CDS 35.0%
ACTTGAGCATACAAGAGATA+AGG + chr8.3:81964736-81964755 MS.gene000258:CDS 35.0%
AGTAGTGAAGAGAAATGTGA+AGG - chr8.3:81964259-81964278 None:intergenic 35.0%
CATGAGATTGGACATTTGTT+GGG + chr8.3:81965029-81965048 MS.gene000258:CDS 35.0%
CTTGAAGTCCAAGATTTCTT+TGG - chr8.3:81964494-81964513 None:intergenic 35.0%
GGTTTCGCGGATATAAAAAT+AGG + chr8.3:81964831-81964850 MS.gene000258:CDS 35.0%
TAGATGGAGTTCAGTTATTC+CGG + chr8.3:81964782-81964801 MS.gene000258:CDS 35.0%
TCTGATATCTCCACAAATCA+TGG + chr8.3:81965203-81965222 MS.gene000258:CDS 35.0%
TTTGTCGAATCAGAGGATTA+TGG + chr8.3:81964810-81964829 MS.gene000258:CDS 35.0%
! AAGTTTGGAGTTCACACTTT+CGG + chr8.3:81965230-81965249 MS.gene000258:CDS 35.0%
! ATGAATGTCATGGTTTGTGA+TGG - chr8.3:81964328-81964347 None:intergenic 35.0%
! GACCACTGAGATCTAAAATT+AGG - chr8.3:81965173-81965192 None:intergenic 35.0%
! GTCACATAGTTCTTTGAAAG+AGG + chr8.3:81965055-81965074 MS.gene000258:CDS 35.0%
! GTGAAGATGATGATAATGTG+AGG - chr8.3:81964287-81964306 None:intergenic 35.0%
! TCTGATTCGACAAAACTTAC+CGG - chr8.3:81964804-81964823 None:intergenic 35.0%
! TGATTTCGGTGTAACGAAAT+CGG + chr8.3:81964974-81964993 MS.gene000258:CDS 35.0%
!! AGAAATGTGAAGGAGTATCT+GGG - chr8.3:81964249-81964268 None:intergenic 35.0%
!! GATGAGTTTTTGTTGTGTCT+GGG - chr8.3:81964575-81964594 None:intergenic 35.0%
!! TGATGAGTTTTTGTTGTGTC+TGG - chr8.3:81964576-81964595 None:intergenic 35.0%
!! TTATCTCTTGGCCTTAAACT+TGG - chr8.3:81965092-81965111 None:intergenic 35.0%
!!! GTTTGTGATGGATATTTTGG+TGG - chr8.3:81964316-81964335 None:intergenic 35.0%
AAGCCATAGGTTAGTGTCAT+TGG - chr8.3:81964693-81964712 None:intergenic 40.0%
ACACCAAGAACTCCATCAAA+TGG - chr8.3:81964888-81964907 None:intergenic 40.0%
ATCAGAGGATTATGGTTTCG+CGG + chr8.3:81964818-81964837 MS.gene000258:CDS 40.0%
ATGCCAATGACACTAACCTA+TGG + chr8.3:81964687-81964706 MS.gene000258:CDS 40.0%
ATTCATAGCTTCACCAATGC+TGG + chr8.3:81964342-81964361 MS.gene000258:CDS 40.0%
CAAATGATCACACCAAGATG+TGG + chr8.3:81964546-81964565 MS.gene000258:CDS 40.0%
TAATGTACCCGAAACGAGAT+AGG - chr8.3:81964410-81964429 None:intergenic 40.0%
TAGATCTCAGTGGTCTTCAT+TGG + chr8.3:81965178-81965197 MS.gene000258:CDS 40.0%
TCAAACGAGCATTCTCTAGA+TGG + chr8.3:81964766-81964785 MS.gene000258:CDS 40.0%
TCAGTAGCAACACATGAGAT+TGG + chr8.3:81965017-81965036 MS.gene000258:CDS 40.0%
TGGTGAAGCTATGAATGTCA+TGG - chr8.3:81964338-81964357 None:intergenic 40.0%
! AGTTTGGAGTTCACACTTTC+GGG + chr8.3:81965231-81965250 MS.gene000258:CDS 40.0%
! ATTTTCCTGGAAAACCACGT+TGG + chr8.3:81964655-81964674 MS.gene000258:CDS 40.0%
! GGATTTTATAGTGGTGACCA+TGG + chr8.3:81964852-81964871 MS.gene000258:CDS 40.0%
!! ACTTTCGGGTTCTCTATGAT+TGG + chr8.3:81965245-81965264 MS.gene000258:CDS 40.0%
!! GAGAAATGTGAAGGAGTATC+TGG - chr8.3:81964250-81964269 None:intergenic 40.0%
!! GGTAAGTTTTGTCGAATCAG+AGG + chr8.3:81964803-81964822 MS.gene000258:CDS 40.0%
!!! ATGGATATTTTGGTGGCTAG+TGG - chr8.3:81964309-81964328 None:intergenic 40.0%
AGGTGAAGTCTTCCTATCTC+CGG - chr8.3:81964930-81964949 None:intergenic 45.0%
GAAATCAACCGTCCAAGTCT+CGG - chr8.3:81964961-81964980 None:intergenic 45.0%
GAGCCATTTGATGGAGTTCT+TGG + chr8.3:81964882-81964901 MS.gene000258:CDS 45.0%
GTAGTCACTTGAGAAGCCAT+AGG - chr8.3:81964706-81964725 None:intergenic 45.0%
TATAGTGGTGACCATGGTGA+TGG + chr8.3:81964858-81964877 MS.gene000258:CDS 45.0%
TATCTCCGGTGAGAACGAAT+GGG - chr8.3:81964916-81964935 None:intergenic 45.0%
! GAGACTTGGACGGTTGATTT+CGG + chr8.3:81964960-81964979 MS.gene000258:CDS 45.0%
! TTTCGGTGTAACGAAATCGG+AGG + chr8.3:81964977-81964996 MS.gene000258:CDS 45.0%
!! TGAAGGAGTATCTGGGTGAT+AGG - chr8.3:81964242-81964261 None:intergenic 45.0%
CAAATGGCTCACCATCACCA+TGG - chr8.3:81964872-81964891 None:intergenic 50.0%
CATTCGTTCTCACCGGAGAT+AGG + chr8.3:81964915-81964934 MS.gene000258:CDS 50.0%
CTATCTCCGGTGAGAACGAA+TGG - chr8.3:81964917-81964936 None:intergenic 50.0%
GTTAGCCCATTCGTTCTCAC+CGG + chr8.3:81964908-81964927 MS.gene000258:CDS 50.0%
! GGTGATGGTGAGCCATTTGA+TGG + chr8.3:81964873-81964892 MS.gene000258:CDS 50.0%
AGCTTCACCAATGCTGGCAG+AGG + chr8.3:81964348-81964367 MS.gene000258:CDS 55.0%
CGGTGTAACGAAATCGGAGG+TGG + chr8.3:81964980-81964999 MS.gene000258:CDS 55.0%
GTTGTTGCCTCTGCCAGCAT+TGG - chr8.3:81964358-81964377 None:intergenic 55.0%
! CGTGACCAACGTGGTTTTCC+AGG - chr8.3:81964663-81964682 None:intergenic 55.0%
! GTGTCTGGGACACCACATCT+TGG - chr8.3:81964561-81964580 None:intergenic 55.0%
ACCTCGATGCAGCCGAGACT+TGG + chr8.3:81964946-81964965 MS.gene000258:CDS 60.0%
CGATGCAGCCGAGACTTGGA+CGG + chr8.3:81964950-81964969 MS.gene000258:CDS 60.0%
GGCAGAGGCAACAACATCCC+AGG + chr8.3:81964363-81964382 MS.gene000258:CDS 60.0%
GGCATGTCACGTGACCAACG+TGG - chr8.3:81964672-81964691 None:intergenic 60.0%
TCCAAGTCTCGGCTGCATCG+AGG - chr8.3:81964950-81964969 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 81964234 81965301 81964234 ID=MS.gene000258
chr8.3 mRNA 81964234 81965301 81964234 ID=MS.gene000258.t1;Parent=MS.gene000258
chr8.3 exon 81964234 81965301 81964234 ID=MS.gene000258.t1.exon1;Parent=MS.gene000258.t1
chr8.3 CDS 81964234 81965301 81964234 ID=cds.MS.gene000258.t1;Parent=MS.gene000258.t1
Gene Sequence

>MS.gene000258

ATGTTCCTATCACCCAGATACTCCTTCACATTTCTCTTCACTACTCTTCTCCTCACATTATCATCATCTTCACCACTAGCCACCAAAATATCCATCACAAACCATGACATTCATAGCTTCACCAATGCTGGCAGAGGCAACAACATCCCAGGAATATCACAATTCAAAAGATACCTATCTCGTTTCGGGTACATTAAAAACAATGACACATTCAGCGACGAATTTGATGCGAATTTTGAATCAGCTATCATCAAATACCAAAGAAATCTTGGACTTCAAGTAACTGGTAAACTCGATTCCAATACAGTTTCTCAAATGATCACACCAAGATGTGGTGTCCCAGACACAACAAAAACTCATCATCATCATCATCATCATAATCACCATCAAAATCATATTCATAACATGACGAATTTTGTTTATTTTCCTGGAAAACCACGTTGGTCACGTGACATGCCAATGACACTAACCTATGGCTTCTCAAGTGACTACATGATTCATAACTTGAGCATACAAGAGATAAGGAAAGCATTCAAACGAGCATTCTCTAGATGGAGTTCAGTTATTCCGGTAAGTTTTGTCGAATCAGAGGATTATGGTTTCGCGGATATAAAAATAGGATTTTATAGTGGTGACCATGGTGATGGTGAGCCATTTGATGGAGTTCTTGGTGTGTTAGCCCATTCGTTCTCACCGGAGATAGGAAGACTTCACCTCGATGCAGCCGAGACTTGGACGGTTGATTTCGGTGTAACGAAATCGGAGGTGGCAATTGATTTAGAGTCAGTAGCAACACATGAGATTGGACATTTGTTGGGTTTGTCACATAGTTCTTTGAAAGAGGCAGTAATGTATCCAAGTTTAAGGCCAAGAGATAAAAGAGCTGATTTGAATATTGATGATATTAAAGGTGTACAATCTCTTTATGGTTCTAATCCTAATTTTAGATCTCAGTGGTCTTCATTGGAATCTGATATCTCCACAAATCATGGTGCAAAGTTTGGAGTTCACACTTTCGGGTTCTCTATGATTGGTTCCATTATTGCAATTTCCCTGTATTATAATTAA
Protein sequence

>MS.gene000258.t1

MFLSPRYSFTFLFTTLLLTLSSSSPLATKISITNHDIHSFTNAGRGNNIPGISQFKRYLSRFGYIKNNDTFSDEFDANFESAIIKYQRNLGLQVTGKLDSNTVSQMITPRCGVPDTTKTHHHHHHHNHHQNHIHNMTNFVYFPGKPRWSRDMPMTLTYGFSSDYMIHNLSIQEIRKAFKRAFSRWSSVIPVSFVESEDYGFADIKIGFYSGDHGDGEPFDGVLGVLAHSFSPEIGRLHLDAAETWTVDFGVTKSEVAIDLESVATHEIGHLLGLSHSSLKEAVMYPSLRPRDKRADLNIDDIKGVQSLYGSNPNFRSQWSSLESDISTNHGAKFGVHTFGFSMIGSIIAISLYYN