AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene00058

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00058.t1 MTR_2g031980 94.249 313 18 0 1 313 1 313 0.0 610
MS.gene00058.t1 MTR_8g038220 48.882 313 159 1 1 313 1 312 1.70e-111 326
MS.gene00058.t1 MTR_8g038220 47.923 313 163 0 1 313 1 313 1.03e-109 321
MS.gene00058.t1 MTR_3g018780 46.154 312 168 0 1 312 1 312 2.62e-108 318
MS.gene00058.t1 MTR_3g018790 46.965 313 166 0 1 313 1 313 6.53e-106 311
MS.gene00058.t1 MTR_8g038180 46.795 312 166 0 1 312 1 312 6.64e-104 306
MS.gene00058.t1 MTR_5g063670 46.154 312 167 1 1 311 1 312 2.08e-102 303
MS.gene00058.t1 MTR_8g038210 45.048 313 171 1 1 313 1 312 1.07e-96 288
MS.gene00058.t1 MTR_8g038210 43.770 313 175 1 1 313 1 312 5.03e-94 281
MS.gene00058.t1 MTR_0276s0050 43.564 303 171 0 11 313 12 314 4.20e-89 269
MS.gene00058.t1 MTR_3g018790 44.813 241 133 0 73 313 19 259 2.50e-73 227
MS.gene00058.t1 MTR_8g038150 38.361 305 185 1 11 312 12 316 9.75e-69 217
MS.gene00058.t1 MTR_8g107640 36.424 302 190 2 11 311 12 312 1.18e-65 209
MS.gene00058.t1 MTR_6g071605 36.102 313 197 3 1 311 1 312 1.19e-65 209
MS.gene00058.t1 MTR_6g071615 37.061 313 194 3 1 311 1 312 1.46e-63 203
MS.gene00058.t1 MTR_1g112520 35.161 310 197 3 5 311 4 312 3.37e-60 195
MS.gene00058.t1 MTR_8g038170 38.730 315 170 6 14 312 5 312 7.58e-60 194
MS.gene00058.t1 MTR_8g038170 38.730 315 170 6 14 312 5 312 7.58e-60 194
MS.gene00058.t1 MTR_1g033560 34.437 302 196 2 11 311 12 312 1.15e-59 193
MS.gene00058.t1 MTR_6g071595 34.783 299 193 2 14 311 15 312 5.26e-56 184
MS.gene00058.t1 MTR_3g018920 41.232 211 92 1 1 211 1 179 8.60e-56 179
MS.gene00058.t1 MTR_6g071595 33.473 239 157 2 14 251 15 252 4.15e-41 144
MS.gene00058.t1 MTR_6g028030 27.076 277 194 4 44 312 34 310 7.90e-29 113
MS.gene00058.t1 MTR_3g018925 47.368 95 50 0 219 313 14 108 1.65e-21 87.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00058.t1 AT5G12380 58.199 311 130 0 1 311 1 311 4.81e-135 385
MS.gene00058.t1 AT5G10230 47.000 300 159 0 12 311 13 312 1.90e-98 293
MS.gene00058.t1 AT5G10220 46.815 314 164 2 1 311 1 314 1.05e-97 291
MS.gene00058.t1 AT1G35720 44.408 304 168 1 11 313 12 315 5.11e-96 286
MS.gene00058.t1 AT5G65020 42.173 313 179 2 1 311 1 313 1.12e-89 270
MS.gene00058.t1 AT5G65020 42.708 288 164 1 25 311 11 298 7.20e-86 260
MS.gene00058.t1 AT2G38760 41.748 309 174 2 11 313 12 320 9.37e-81 248
MS.gene00058.t1 AT1G68090 34.106 302 198 1 11 311 12 313 3.05e-60 195
MS.gene00058.t1 AT2G38750 34.839 310 177 6 21 312 15 317 6.86e-54 179
MS.gene00058.t1 AT2G38750 34.967 306 174 6 25 312 2 300 1.09e-53 177
MS.gene00058.t1 AT1G68090 33.473 239 158 1 11 248 12 250 1.93e-44 152

Find 39 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGACTTTCAATATCTTTA+AGG 0.055725 2.1:+60036293 MS.gene00058:CDS
TTCAATCAATTGATGAAGTA+TGG 0.245555 2.1:-60036205 None:intergenic
TCGTGCAGAGAAAGATTTAA+AGG 0.292895 2.1:+60036749 MS.gene00058:CDS
TTACCTTGGCCAGATATCTT+TGG 0.294272 2.1:-60036560 None:intergenic
TAGAAATTCTGAAGAGCTTC+TGG 0.299957 2.1:+60035909 MS.gene00058:CDS
ATCTCACGCCTTGAATGATT+TGG 0.303941 2.1:+60036689 MS.gene00058:CDS
CAGCTACAAACTGAACTTTC+AGG 0.322985 2.1:+60035653 MS.gene00058:CDS
CGATGACAGCCAAAGATATC+TGG 0.346203 2.1:+60036551 MS.gene00058:CDS
TCAATAATCACTTTGTAATC+TGG 0.360081 2.1:-60035874 None:intergenic
AATATCTTTAAGGACTTGTA+TGG 0.373979 2.1:+60036303 MS.gene00058:CDS
GTATGGCACAACAGTTAATA+AGG 0.375904 2.1:+60036320 MS.gene00058:CDS
ATAGTTTCAGCGTCTTCAAT+TGG 0.393727 2.1:-60035378 None:intergenic
TTCATTTGCCAAATCATTCA+AGG 0.394711 2.1:-60036697 None:intergenic
GAGAGGCAATATCTTCTTCA+AGG 0.414345 2.1:-60035969 None:intergenic
ATCCATTGTCCAATGGCTAA+TGG 0.416560 2.1:-60035800 None:intergenic
GCACCGATGTATTCATCAAT+TGG 0.432652 2.1:-60036504 None:intergenic
TTATCAAGAAATTTATCATC+AGG 0.460775 2.1:+60035619 MS.gene00058:CDS
TGAACTTTCAGGAAACTTTG+AGG 0.461813 2.1:+60035664 MS.gene00058:CDS
TCAAAGAAAACTTGTGAGGC+TGG 0.474305 2.1:+60035595 MS.gene00058:CDS
AGTGTAGCATCTCTTTCAGC+TGG 0.500813 2.1:-60035823 None:intergenic
GATATTGCCTCTCAAACTAC+TGG 0.522663 2.1:+60035979 MS.gene00058:CDS
CCATTCATGATTCTGTTGCT+AGG 0.535196 2.1:+60036808 MS.gene00058:CDS
ATTCTGTTGCTAGGAAGACA+TGG 0.545887 2.1:+60036817 MS.gene00058:CDS
ACAAGCACTTACAAGTATGA+TGG 0.552513 2.1:+60036144 MS.gene00058:CDS
CAGCTGGATCCATTGTCCAA+TGG 0.561660 2.1:-60035807 None:intergenic
CCTAGCAACAGAATCATGAA+TGG 0.562607 2.1:-60036808 None:intergenic
ATCAGAGAGCCATTAGCCAT+TGG 0.563246 2.1:+60035791 MS.gene00058:intron
GCTGTCATCGATGCATCGAA+CGG 0.601285 2.1:-60036538 None:intergenic
TTCTGTTGCTAGGAAGACAT+GGG 0.615900 2.1:+60036818 MS.gene00058:CDS
AATATCACCAGTAGTTTGAG+AGG 0.620279 2.1:-60035986 None:intergenic
ACTATCAAGAATGCATGCAA+AGG 0.624132 2.1:+60035396 MS.gene00058:CDS
AGCCATTAGCCATTGGACAA+TGG 0.627989 2.1:+60035798 MS.gene00058:CDS
CAGCCAAAGATATCTGGCCA+AGG 0.638343 2.1:+60036557 MS.gene00058:CDS
AAGCTCAAAGAAAACTTGTG+AGG 0.650998 2.1:+60035591 MS.gene00058:CDS
AGGATTCGGGACAAATGAGA+CGG 0.683910 2.1:+60035538 MS.gene00058:intron
AGATGAGTTTGATGAGAATG+TGG 0.686942 2.1:+60036167 MS.gene00058:CDS
ACTCCAATTGATGAATACAT+CGG 0.695402 2.1:+60036501 MS.gene00058:CDS
TCTGTTGCTAGGAAGACATG+GGG 0.714554 2.1:+60036819 MS.gene00058:CDS
AGATGCTACACTTATTAACG+AGG 0.731686 2.1:+60035834 MS.gene00058:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATCTGTTTTCAATTTTA+GGG + chr2.1:60036468-60036487 MS.gene00058:intron 15.0%
!!! ATTTCAATGGTATAAATTTT+TGG - chr2.1:60035773-60035792 None:intergenic 15.0%
!! AAATTCATGCAATAAAATCA+AGG + chr2.1:60036432-60036451 MS.gene00058:intron 20.0%
!! AGAAATTATCAAATAGAGAA+TGG - chr2.1:60036612-60036631 None:intergenic 20.0%
!! TTATCAAGAAATTTATCATC+AGG + chr2.1:60035619-60035638 MS.gene00058:CDS 20.0%
!!! AATTTTATTTGAGACATTGT+CGG + chr2.1:60035485-60035504 MS.gene00058:intron 20.0%
!!! CTAAAATATTTTCGTAACTT+TGG - chr2.1:60036586-60036605 None:intergenic 20.0%
!!! GAAAATCTGTTTTCAATTTT+AGG + chr2.1:60036467-60036486 MS.gene00058:intron 20.0%
!!! TATGTATGTTAACTTGATTT+AGG + chr2.1:60036662-60036681 MS.gene00058:intron 20.0%
!!! TTCTTCGATAAATTTTTTGA+AGG - chr2.1:60036396-60036415 None:intergenic 20.0%
! CAATAAAATCAAGGATATCA+TGG + chr2.1:60036441-60036460 MS.gene00058:intron 25.0%
! TCAATAATCACTTTGTAATC+TGG - chr2.1:60035877-60035896 None:intergenic 25.0%
! TGTGACTTTCAATATCTTTA+AGG + chr2.1:60036293-60036312 MS.gene00058:CDS 25.0%
! TTCAATCAATTGATGAAGTA+TGG - chr2.1:60036208-60036227 None:intergenic 25.0%
! TTCTACTGTCTAATAACAAA+GGG + chr2.1:60035458-60035477 MS.gene00058:intron 25.0%
! TTTCTACTGTCTAATAACAA+AGG + chr2.1:60035457-60035476 MS.gene00058:intron 25.0%
!! AATATCTTTAAGGACTTGTA+TGG + chr2.1:60036303-60036322 MS.gene00058:CDS 25.0%
!! ACTTTTATCCTTGAATTGTT+GGG + chr2.1:60036852-60036871 MS.gene00058:CDS 25.0%
!! CATTGTTTCTCTTCAAAAAA+TGG - chr2.1:60036785-60036804 None:intergenic 25.0%
!!! AACAGTTTTGTTATGTTACA+TGG + chr2.1:60036054-60036073 MS.gene00058:intron 25.0%
ACTCCAATTGATGAATACAT+CGG + chr2.1:60036501-60036520 MS.gene00058:CDS 30.0%
TTCATTTGCCAAATCATTCA+AGG - chr2.1:60036700-60036719 None:intergenic 30.0%
! ATGTGATTTTTATCGTGTAC+AGG + chr2.1:60035518-60035537 MS.gene00058:intron 30.0%
! ATTCTTTTCCCAACAATTCA+AGG - chr2.1:60036863-60036882 None:intergenic 30.0%
! GACTTTTATCCTTGAATTGT+TGG + chr2.1:60036851-60036870 MS.gene00058:CDS 30.0%
! GTTTTCTTTGAGCTTCATTT+CGG - chr2.1:60035586-60035605 None:intergenic 30.0%
! TTTTTATCGTGTACAGGATT+CGG + chr2.1:60035524-60035543 MS.gene00058:intron 30.0%
!! ACTATTTTTCACACAGTTGT+TGG + chr2.1:60036113-60036132 MS.gene00058:intron 30.0%
!! TTTCAATTTTAGGGACTATC+AGG + chr2.1:60036477-60036496 MS.gene00058:intron 30.0%
AAGCTCAAAGAAAACTTGTG+AGG + chr2.1:60035591-60035610 MS.gene00058:CDS 35.0%
AATATCACCAGTAGTTTGAG+AGG - chr2.1:60035989-60036008 None:intergenic 35.0%
ACAAGCACTTACAAGTATGA+TGG + chr2.1:60036144-60036163 MS.gene00058:CDS 35.0%
ACTATCAAGAATGCATGCAA+AGG + chr2.1:60035396-60035415 MS.gene00058:CDS 35.0%
AGATGAGTTTGATGAGAATG+TGG + chr2.1:60036167-60036186 MS.gene00058:CDS 35.0%
AGATGCTACACTTATTAACG+AGG + chr2.1:60035834-60035853 MS.gene00058:CDS 35.0%
ATAGTTTCAGCGTCTTCAAT+TGG - chr2.1:60035381-60035400 None:intergenic 35.0%
GTATGGCACAACAGTTAATA+AGG + chr2.1:60036320-60036339 MS.gene00058:CDS 35.0%
TAATGGCTCTCTGATTTCAA+TGG - chr2.1:60035786-60035805 None:intergenic 35.0%
TAGACAGTGATGTGTATGTA+TGG - chr2.1:60036363-60036382 None:intergenic 35.0%
TCGTGCAGAGAAAGATTTAA+AGG + chr2.1:60036749-60036768 MS.gene00058:CDS 35.0%
TGAACTTTCAGGAAACTTTG+AGG + chr2.1:60035664-60035683 MS.gene00058:CDS 35.0%
TTTCGTAACTTTGGTTACCT+TGG - chr2.1:60036577-60036596 None:intergenic 35.0%
! TAGAAATTCTGAAGAGCTTC+TGG + chr2.1:60035909-60035928 MS.gene00058:CDS 35.0%
! TTTTATCGTGTACAGGATTC+GGG + chr2.1:60035525-60035544 MS.gene00058:intron 35.0%
ATCCATTGTCCAATGGCTAA+TGG - chr2.1:60035803-60035822 None:intergenic 40.0%
ATCTCACGCCTTGAATGATT+TGG + chr2.1:60036689-60036708 MS.gene00058:CDS 40.0%
ATTCTGTTGCTAGGAAGACA+TGG + chr2.1:60036817-60036836 MS.gene00058:CDS 40.0%
CAGCTACAAACTGAACTTTC+AGG + chr2.1:60035653-60035672 MS.gene00058:CDS 40.0%
CCATTCATGATTCTGTTGCT+AGG + chr2.1:60036808-60036827 MS.gene00058:CDS 40.0%
CCTAGCAACAGAATCATGAA+TGG - chr2.1:60036811-60036830 None:intergenic 40.0%
GAGAGGCAATATCTTCTTCA+AGG - chr2.1:60035972-60035991 None:intergenic 40.0%
GATATTGCCTCTCAAACTAC+TGG + chr2.1:60035979-60035998 MS.gene00058:CDS 40.0%
TCAAAGAAAACTTGTGAGGC+TGG + chr2.1:60035595-60035614 MS.gene00058:CDS 40.0%
TTACCTTGGCCAGATATCTT+TGG - chr2.1:60036563-60036582 None:intergenic 40.0%
TTCTGTTGCTAGGAAGACAT+GGG + chr2.1:60036818-60036837 MS.gene00058:CDS 40.0%
! GCACCGATGTATTCATCAAT+TGG - chr2.1:60036507-60036526 None:intergenic 40.0%
AGCCATTAGCCATTGGACAA+TGG + chr2.1:60035798-60035817 MS.gene00058:CDS 45.0%
AGGATTCGGGACAAATGAGA+CGG + chr2.1:60035538-60035557 MS.gene00058:intron 45.0%
AGTGTAGCATCTCTTTCAGC+TGG - chr2.1:60035826-60035845 None:intergenic 45.0%
ATCAGAGAGCCATTAGCCAT+TGG + chr2.1:60035791-60035810 MS.gene00058:intron 45.0%
CGATGACAGCCAAAGATATC+TGG + chr2.1:60036551-60036570 MS.gene00058:CDS 45.0%
TCTGTTGCTAGGAAGACATG+GGG + chr2.1:60036819-60036838 MS.gene00058:CDS 45.0%
CAGCCAAAGATATCTGGCCA+AGG + chr2.1:60036557-60036576 MS.gene00058:CDS 50.0%
CAGCTGGATCCATTGTCCAA+TGG - chr2.1:60035810-60035829 None:intergenic 50.0%
GCTGTCATCGATGCATCGAA+CGG - chr2.1:60036541-60036560 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 60035345 60036884 60035345 ID=MS.gene00058
chr2.1 mRNA 60035345 60036884 60035345 ID=MS.gene00058.t1;Parent=MS.gene00058
chr2.1 exon 60035345 60035417 60035345 ID=MS.gene00058.t1.exon1;Parent=MS.gene00058.t1
chr2.1 CDS 60035345 60035417 60035345 ID=cds.MS.gene00058.t1;Parent=MS.gene00058.t1
chr2.1 exon 60035540 60035685 60035540 ID=MS.gene00058.t1.exon2;Parent=MS.gene00058.t1
chr2.1 CDS 60035540 60035685 60035540 ID=cds.MS.gene00058.t1;Parent=MS.gene00058.t1
chr2.1 exon 60035796 60036014 60035796 ID=MS.gene00058.t1.exon3;Parent=MS.gene00058.t1
chr2.1 CDS 60035796 60036014 60035796 ID=cds.MS.gene00058.t1;Parent=MS.gene00058.t1
chr2.1 exon 60036129 60036341 60036129 ID=MS.gene00058.t1.exon4;Parent=MS.gene00058.t1
chr2.1 CDS 60036129 60036341 60036129 ID=cds.MS.gene00058.t1;Parent=MS.gene00058.t1
chr2.1 exon 60036489 60036578 60036489 ID=MS.gene00058.t1.exon5;Parent=MS.gene00058.t1
chr2.1 CDS 60036489 60036578 60036489 ID=cds.MS.gene00058.t1;Parent=MS.gene00058.t1
chr2.1 exon 60036684 60036884 60036684 ID=MS.gene00058.t1.exon6;Parent=MS.gene00058.t1
chr2.1 CDS 60036684 60036884 60036684 ID=cds.MS.gene00058.t1;Parent=MS.gene00058.t1
Gene Sequence

>MS.gene00058

ATGGCTTCTCTACTTACTGTAAAAGATTTTTCTCCAATTGAAGACGCTGAAACTATCAAGAATGCATGCAAAGGTTGTCTTTCTTCAATCTTGTTTTGTCAAAGATTTGATGTTTCTACTGTCTAATAACAAAGGGAATAAATTTTATTTGAGACATTGTCGGAATACTAAATATGTGATTTTTATCGTGTACAGGATTCGGGACAAATGAGACGGCGATTATATCTGTACTAGCACACCGAAATGAAGCTCAAAGAAAACTTGTGAGGCTGGCTTATCAAGAAATTTATCATCAGGATCTTATAGAACAGCTACAAACTGAACTTTCAGGAAACTTTGAGGTAAATATATGTTGCAATTCATAACACTAATGTTTTATAAGTTATCATTATTTTATAAGCTTTGAGTGAATATCATTCTAATTGCCAAAAATTTATACCATTGAAATCAGAGAGCCATTAGCCATTGGACAATGGATCCAGCTGAAAGAGATGCTACACTTATTAACGAGGCATTAAAGAAAGCAACACCAGATTACAAAGTGATTATTGAGATTGTTTGCACTAGAAATTCTGAAGAGCTTCTGGCTTTAAAGCGTTCATATCATTCTCTTTTCAAGCATTGCCTTGAAGAAGATATTGCCTCTCAAACTACTGGTGATATTCGCAAAGTATGCGACTCTTGAGCATAATTAGATTTTTATAACGTGAACAGTTTTGTTATGTTACATGGACAATGTTTTGAACTAGTGCAACAAAATGAGATGTAACTATTTTTCACACAGTTGTTGGTTGCAGTTACAAGCACTTACAAGTATGATGGAGATGAGTTTGATGAGAATGTGGCTCATTCTGAAGCAACCATACTTCATCAATTGATTGAAAAGAAAGCTTTTAACGATGATGAAATTATTAGAATTTTAAGCACAAGAAGTAAGAAGCAGCTATGTGTGACTTTCAATATCTTTAAGGACTTGTATGGCACAACAGTTAATAAGGTACGATGAGTTTCTATACCATACATACACATCACTGTCTATCAGAAGTTTCCTTCAAAAAATTTATCGAAGAAATGATATTACAAATTTAAATTCATGCAATAAAATCAAGGATATCATGGAGTGAAAATCTGTTTTCAATTTTAGGGACTATCAGGTACTCCAATTGATGAATACATCGGTGCACTGCGTACTACCGTTCGATGCATCGATGACAGCCAAAGATATCTGGCCAAGGTAACCAAAGTTACGAAAATATTTTAGTAACCATTCTCTATTTGATAATTTCTTTATTCTATAGTTTTTATTAAACATGTGTATATGTATGTTAACTTGATTTAGGTGTTATCTCACGCCTTGAATGATTTGGCAAATGAAGAAAATGCTTTGAGTCGAGTTATAGTCACTCGTGCAGAGAAAGATTTAAAGGAAATTAATGACCATTTTTTGAAGAGAAACAATGTCACCATTCATGATTCTGTTGCTAGGAAGACATGGGGAAATTACAAGACTTTTATCCTTGAATTGTTGGGAAAAGAATAA
Protein sequence

>MS.gene00058.t1

MASLLTVKDFSPIEDAETIKNACKGFGTNETAIISVLAHRNEAQRKLVRLAYQEIYHQDLIEQLQTELSGNFERAISHWTMDPAERDATLINEALKKATPDYKVIIEIVCTRNSEELLALKRSYHSLFKHCLEEDIASQTTGDIRKLLVAVTSTYKYDGDEFDENVAHSEATILHQLIEKKAFNDDEIIRILSTRSKKQLCVTFNIFKDLYGTTVNKGLSGTPIDEYIGALRTTVRCIDDSQRYLAKVLSHALNDLANEENALSRVIVTRAEKDLKEINDHFLKRNNVTIHDSVARKTWGNYKTFILELLGKE