AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69928


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69928.t1 MTR_1g081260 99.340 303 2 0 1 303 1 303 0.0 616
MS.gene69928.t1 MTR_7g114790 71.704 311 73 7 1 302 1 305 4.32e-155 436
MS.gene69928.t1 MTR_7g095100 64.401 309 102 4 1 303 1 307 6.00e-143 405
MS.gene69928.t1 MTR_3g076610 35.636 275 151 3 5 257 8 278 2.16e-61 198
MS.gene69928.t1 MTR_5g069570 37.647 255 155 3 10 260 14 268 3.55e-60 194
MS.gene69928.t1 MTR_4g104760 36.122 263 152 6 4 253 7 266 2.86e-59 192
MS.gene69928.t1 MTR_4g055230 36.760 321 166 10 1 301 1 304 1.59e-57 187
MS.gene69928.t1 MTR_3g082430 40.773 233 133 3 26 253 12 244 1.62e-57 187
MS.gene69928.t1 MTR_2g084965 38.060 268 147 7 6 254 8 275 1.34e-48 164
MS.gene69928.t1 MTR_3g106250 36.090 266 143 8 4 253 6 260 5.62e-48 164
MS.gene69928.t1 MTR_7g103900 32.822 326 178 10 1 302 1 309 9.51e-48 162
MS.gene69928.t1 MTR_5g096570 33.564 289 176 5 23 301 1178 1460 1.78e-47 171
MS.gene69928.t1 MTR_8g069535 80.488 82 15 1 8 89 9 89 1.07e-32 121
MS.gene69928.t1 MTR_8g069535 66.102 59 20 0 176 234 89 147 5.51e-17 79.0
MS.gene69928.t1 MTR_1g013100 29.643 280 154 13 4 261 8 266 1.30e-32 123
MS.gene69928.t1 MTR_7g103900 29.614 233 139 7 1 212 1 229 5.45e-27 105
MS.gene69928.t1 MTR_5g069550 32.143 168 98 2 10 175 14 167 4.04e-24 97.1
MS.gene69928.t1 MTR_0716s0040 58.228 79 11 1 195 273 15 71 1.69e-22 89.4
MS.gene69928.t1 MTR_0716s0020 71.154 52 11 1 56 107 3 50 3.85e-16 72.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69928.t1 AT5G28150 65.461 304 89 4 1 303 1 289 3.29e-138 392
MS.gene69928.t1 AT3G04860 64.052 306 90 6 1 303 1 289 9.02e-134 381
MS.gene69928.t1 AT2G04220 41.200 250 142 3 14 259 12 260 4.64e-65 207
MS.gene69928.t1 AT4G12690 41.975 243 135 4 15 253 9 249 7.45e-64 203
MS.gene69928.t1 AT4G12690 41.975 243 135 4 15 253 9 249 7.45e-64 203
MS.gene69928.t1 AT5G48270 33.639 327 172 12 5 303 13 322 1.81e-51 172
MS.gene69928.t1 AT2G27770 33.134 335 174 10 1 301 1 319 2.91e-48 164
MS.gene69928.t1 AT3G13229 34.468 235 143 4 33 256 8 242 8.23e-44 151
MS.gene69928.t1 AT5G11000 36.905 252 118 9 31 253 33 272 1.64e-41 148
MS.gene69928.t1 AT2G25200 28.185 259 148 8 6 242 16 258 2.94e-29 114
MS.gene69928.t1 AT2G36470 26.471 272 145 8 1 241 1 248 8.47e-20 88.2

Find 42 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTCTCTCAGGATAAAATT+TGG 0.148503 1.4:-65949946 MS.gene69928:CDS
AAACAAATGGTTCTTCTTCT+TGG 0.224208 1.4:-65950328 MS.gene69928:CDS
TTTATTGGGATGTTTATAAT+TGG 0.245969 1.4:-65950015 MS.gene69928:CDS
GTCTTGAAGTTGAGGTTTAT+TGG 0.251621 1.4:-65950030 MS.gene69928:CDS
AACACCTTGTTGCTGCAATT+TGG 0.305444 1.4:+65949859 None:intergenic
GATCTTTCTTCAGCTAGATT+TGG 0.328970 1.4:-65950400 MS.gene69928:CDS
TTTCTCTCAGGATAAAATTT+GGG 0.343648 1.4:-65949945 MS.gene69928:CDS
GTTTACCAGTGTTCAATTAG+AGG 0.364536 1.4:-65950604 MS.gene69928:CDS
AGGTTGAAGTGGAAGTTTAG+AGG 0.371290 1.4:-65950076 MS.gene69928:CDS
TCTTGAAGTTGAGGTTTATT+GGG 0.375109 1.4:-65950029 MS.gene69928:CDS
TTCTTCTTCTTGGTGATTTG+AGG 0.384951 1.4:-65950318 MS.gene69928:CDS
AAAACATTTGCATCAGAAAC+AGG 0.388646 1.4:+65949914 None:intergenic
TTCAAGACCATCCACAAGTA+TGG 0.397921 1.4:+65950045 None:intergenic
AAGCAAAACTGCTCAGAATC+TGG 0.403487 1.4:-65950635 MS.gene69928:CDS
GTTGTAAGATTGATGTGTAT+TGG 0.407371 1.4:-65950423 MS.gene69928:CDS
CTTGCTTGATTACTATTACA+TGG 0.414169 1.4:-65950576 MS.gene69928:CDS
GTGATCCTTGTCTTATAGTT+CGG 0.427025 1.4:-65950129 MS.gene69928:CDS
TTGTAAGATTGATGTGTATT+GGG 0.428969 1.4:-65950422 MS.gene69928:CDS
GTTTAGAACATGTTTCTCTC+AGG 0.471644 1.4:-65949957 MS.gene69928:CDS
TCTTGGTGATTTGAGGAAAG+AGG 0.473028 1.4:-65950311 MS.gene69928:CDS
TACATGGAGCAAGAGTTTGA+TGG 0.480341 1.4:-65950560 MS.gene69928:CDS
TAAAGTTGATATAAAACCTT+GGG 0.481774 1.4:-65950488 MS.gene69928:CDS
TCTTCAGCTAGATTTGGTGT+TGG 0.510529 1.4:-65950394 MS.gene69928:CDS
AGTAGTAGTTGATAAACAAA+TGG 0.512418 1.4:-65950341 MS.gene69928:CDS
AGCAAGAGTTTGATGGGTCA+AGG 0.521441 1.4:-65950553 MS.gene69928:CDS
TGTGGATGGTCTTGAAGTTG+AGG 0.522288 1.4:-65950038 MS.gene69928:CDS
AAAACAGCATTCAAAGGTAA+AGG 0.522755 1.4:+65950265 None:intergenic
CGATAGCAAAACTGTGATGC+AGG 0.523931 1.4:-65950104 MS.gene69928:CDS
ACATGGAGCAAGAGTTTGAT+GGG 0.529745 1.4:-65950559 MS.gene69928:CDS
TGCAGTGGTCTTTCTCTCAG+AGG 0.536201 1.4:-65949892 MS.gene69928:CDS
TGCAGGTGAAGAGGTTGAAG+TGG 0.541978 1.4:-65950087 MS.gene69928:CDS
TGTTGGACCTGAACCATTGG+AGG 0.549909 1.4:-65950377 MS.gene69928:CDS
TGGTGTTGGACCTGAACCAT+TGG 0.554528 1.4:-65950380 MS.gene69928:CDS
GTAAAGTTGATATAAAACCT+TGG 0.555894 1.4:-65950489 MS.gene69928:CDS
AAATTGCAGCAACAAGGTGT+TGG 0.560217 1.4:-65949857 MS.gene69928:CDS
AGGAAATCATACCATACTTG+TGG 0.576851 1.4:-65950056 MS.gene69928:CDS
AATCATACCATACTTGTGGA+TGG 0.616419 1.4:-65950052 MS.gene69928:CDS
ATCTACCTCTAATTGAACAC+TGG 0.618529 1.4:+65950599 None:intergenic
GAGACCAAATTGCAGCAACA+AGG 0.620010 1.4:-65949863 MS.gene69928:CDS
TTTCTCTTAGAAAACACCCA+AGG 0.637931 1.4:+65950472 None:intergenic
AAACTGTGATGCAGGTGAAG+AGG 0.662598 1.4:-65950096 MS.gene69928:CDS
TCGATCCGAACTATAAGACA+AGG 0.676375 1.4:+65950124 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTATTGGGATGTTTATAAT+TGG - chr1.4:65950514-65950533 MS.gene69928:CDS 20.0%
!!! TAAAGTTGATATAAAACCTT+GGG - chr1.4:65950041-65950060 MS.gene69928:CDS 20.0%
! TTGTAAGATTGATGTGTATT+GGG - chr1.4:65950107-65950126 MS.gene69928:CDS 25.0%
! TTTCTCTCAGGATAAAATTT+GGG - chr1.4:65950584-65950603 MS.gene69928:CDS 25.0%
!!! AGTAGTAGTTGATAAACAAA+TGG - chr1.4:65950188-65950207 MS.gene69928:CDS 25.0%
!!! GATGTTTATAATTGGCTTTT+TGG - chr1.4:65950522-65950541 MS.gene69928:CDS 25.0%
!!! GTAAAGTTGATATAAAACCT+TGG - chr1.4:65950040-65950059 MS.gene69928:CDS 25.0%
!!! GTTTTTGGTAAGAAGTTTTT+TGG - chr1.4:65950306-65950325 MS.gene69928:CDS 25.0%
!!! TAAGAAGTTTTTTGGTAACA+AGG - chr1.4:65950314-65950333 MS.gene69928:CDS 25.0%
AAAACAGCATTCAAAGGTAA+AGG + chr1.4:65950267-65950286 None:intergenic 30.0%
AAAACATTTGCATCAGAAAC+AGG + chr1.4:65950618-65950637 None:intergenic 30.0%
AAACAAATGGTTCTTCTTCT+TGG - chr1.4:65950201-65950220 MS.gene69928:CDS 30.0%
CTTGCTTGATTACTATTACA+TGG - chr1.4:65949953-65949972 MS.gene69928:CDS 30.0%
GTTGTAAGATTGATGTGTAT+TGG - chr1.4:65950106-65950125 MS.gene69928:CDS 30.0%
GTTTCTCTCAGGATAAAATT+TGG - chr1.4:65950583-65950602 MS.gene69928:CDS 30.0%
TCTTGAAGTTGAGGTTTATT+GGG - chr1.4:65950500-65950519 MS.gene69928:CDS 30.0%
! GCTAAGAAAGAACATGTTTT+TGG - chr1.4:65950291-65950310 MS.gene69928:CDS 30.0%
!! AAGGATTTTCCATCTTGTTT+TGG - chr1.4:65949823-65949842 MS.gene69928:CDS 30.0%
AAAAAAACCTCCAATGGTTC+AGG + chr1.4:65950162-65950181 None:intergenic 35.0%
AATCATACCATACTTGTGGA+TGG - chr1.4:65950477-65950496 MS.gene69928:CDS 35.0%
AGGAAATCATACCATACTTG+TGG - chr1.4:65950473-65950492 MS.gene69928:CDS 35.0%
ATCTACCTCTAATTGAACAC+TGG + chr1.4:65949933-65949952 None:intergenic 35.0%
CCTACAAAAAAAACCTCCAA+TGG + chr1.4:65950168-65950187 None:intergenic 35.0%
GATCTTTCTTCAGCTAGATT+TGG - chr1.4:65950129-65950148 MS.gene69928:CDS 35.0%
GCAACAAAAACAGCATTCAA+AGG + chr1.4:65950273-65950292 None:intergenic 35.0%
GTCTTGAAGTTGAGGTTTAT+TGG - chr1.4:65950499-65950518 MS.gene69928:CDS 35.0%
GTGATCCTTGTCTTATAGTT+CGG - chr1.4:65950400-65950419 MS.gene69928:CDS 35.0%
GTTTACCAGTGTTCAATTAG+AGG - chr1.4:65949925-65949944 MS.gene69928:CDS 35.0%
TTTCTCTTAGAAAACACCCA+AGG + chr1.4:65950060-65950079 None:intergenic 35.0%
! AAGGTTGTGTTTTGTGACAA+TGG - chr1.4:65950333-65950352 MS.gene69928:CDS 35.0%
! GCATTTTCACCAAAACAAGA+TGG + chr1.4:65949835-65949854 None:intergenic 35.0%
! GTTTAGAACATGTTTCTCTC+AGG - chr1.4:65950572-65950591 MS.gene69928:CDS 35.0%
! TCTCACATGTTTTGTATGCT+TGG - chr1.4:65950697-65950716 MS.gene69928:CDS 35.0%
! TTCTTCTTCTTGGTGATTTG+AGG - chr1.4:65950211-65950230 MS.gene69928:CDS 35.0%
! TTTTGGTGAAAATGCAGTTC+AGG - chr1.4:65949840-65949859 MS.gene69928:CDS 35.0%
!! TGGCTTTTTGGTACATCTTT+TGG - chr1.4:65950534-65950553 MS.gene69928:CDS 35.0%
!! TGGGTGTTTTCTAAGAGAAA+GGG - chr1.4:65950060-65950079 MS.gene69928:CDS 35.0%
!! TTGGGTGTTTTCTAAGAGAA+AGG - chr1.4:65950059-65950078 MS.gene69928:CDS 35.0%
!!! CCATTGGAGGTTTTTTTTGT+AGG - chr1.4:65950165-65950184 MS.gene69928:CDS 35.0%
AAATTGCAGCAACAAGGTGT+TGG - chr1.4:65950672-65950691 MS.gene69928:CDS 40.0%
AACACCTTGTTGCTGCAATT+TGG + chr1.4:65950673-65950692 None:intergenic 40.0%
AAGCAAAACTGCTCAGAATC+TGG - chr1.4:65949894-65949913 MS.gene69928:CDS 40.0%
ACATGGAGCAAGAGTTTGAT+GGG - chr1.4:65949970-65949989 MS.gene69928:CDS 40.0%
AGGTTGAAGTGGAAGTTTAG+AGG - chr1.4:65950453-65950472 MS.gene69928:CDS 40.0%
TACATGGAGCAAGAGTTTGA+TGG - chr1.4:65949969-65949988 MS.gene69928:CDS 40.0%
TCGATCCGAACTATAAGACA+AGG + chr1.4:65950408-65950427 None:intergenic 40.0%
TTCAAGACCATCCACAAGTA+TGG + chr1.4:65950487-65950506 None:intergenic 40.0%
! CTGATGCAAATGTTTTGCAG+TGG - chr1.4:65950622-65950641 MS.gene69928:CDS 40.0%
! TCTTGGTGATTTGAGGAAAG+AGG - chr1.4:65950218-65950237 MS.gene69928:CDS 40.0%
!! ATGGGTCAAGGTTTTAGTGT+TGG - chr1.4:65949988-65950007 MS.gene69928:CDS 40.0%
!! TCTTCAGCTAGATTTGGTGT+TGG - chr1.4:65950135-65950154 MS.gene69928:CDS 40.0%
AAACTGTGATGCAGGTGAAG+AGG - chr1.4:65950433-65950452 MS.gene69928:CDS 45.0%
CGATAGCAAAACTGTGATGC+AGG - chr1.4:65950425-65950444 MS.gene69928:CDS 45.0%
GAGACCAAATTGCAGCAACA+AGG - chr1.4:65950666-65950685 MS.gene69928:CDS 45.0%
! AGCAAGAGTTTGATGGGTCA+AGG - chr1.4:65949976-65949995 MS.gene69928:CDS 45.0%
! TGTGGATGGTCTTGAAGTTG+AGG - chr1.4:65950491-65950510 MS.gene69928:CDS 45.0%
TGCAGGTGAAGAGGTTGAAG+TGG - chr1.4:65950442-65950461 MS.gene69928:CDS 50.0%
TGCAGTGGTCTTTCTCTCAG+AGG - chr1.4:65950637-65950656 MS.gene69928:CDS 50.0%
TGTTGGACCTGAACCATTGG+AGG - chr1.4:65950152-65950171 MS.gene69928:CDS 50.0%
! TGGTGTTGGACCTGAACCAT+TGG - chr1.4:65950149-65950168 MS.gene69928:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 65949820 65950731 65949820 ID=MS.gene69928
chr1.4 mRNA 65949820 65950731 65949820 ID=MS.gene69928.t1;Parent=MS.gene69928
chr1.4 exon 65949820 65950731 65949820 ID=MS.gene69928.t1.exon1;Parent=MS.gene69928.t1
chr1.4 CDS 65949820 65950731 65949820 ID=cds.MS.gene69928.t1;Parent=MS.gene69928.t1
Gene Sequence

>MS.gene69928

ATGAAGGATTTTCCATCTTGTTTTGGTGAAAATGCAGTTCAGGTAGCAGATTCATCATCATCATCTTCAAGCTCAAGCAAAACTGCTCAGAATCTGGTTATTTGTGTTTACCAGTGTTCAATTAGAGGTAGATCTTGCTTGATTACTATTACATGGAGCAAGAGTTTGATGGGTCAAGGTTTTAGTGTTGGAATCGATGATGCTTCAAATCAGTGTTTATGTAAAGTTGATATAAAACCTTGGGTGTTTTCTAAGAGAAAGGGTTGCAAGAGTTTAGAAGCTTATAGTTGTAAGATTGATGTGTATTGGGATCTTTCTTCAGCTAGATTTGGTGTTGGACCTGAACCATTGGAGGTTTTTTTTGTAGGAGTAGTAGTTGATAAACAAATGGTTCTTCTTCTTGGTGATTTGAGGAAAGAGGCTTTTAAGAAATCTAATGCAGTTCCTTTACCTTTGAATGCTGTTTTTGTTGCTAAGAAAGAACATGTTTTTGGTAAGAAGTTTTTTGGTAACAAGGTTGTGTTTTGTGACAATGGTAAAATTCATGATCTTGTTATTGAGTGTGATACTTCTGTTGCAAGTGATCCTTGTCTTATAGTTCGGATCGATAGCAAAACTGTGATGCAGGTGAAGAGGTTGAAGTGGAAGTTTAGAGGAAATCATACCATACTTGTGGATGGTCTTGAAGTTGAGGTTTATTGGGATGTTTATAATTGGCTTTTTGGTACATCTTTTGGAAATGCTGTTTTCATGTTTAGAACATGTTTCTCTCAGGATAAAATTTGGGATGCTCAACCTGTTTCTGATGCAAATGTTTTGCAGTGGTCTTTCTCTCAGAGGTTTTCTGAGACCAAATTGCAGCAACAAGGTGTTGGTTTCTCACATGTTTTGTATGCTTGGAAGAATGAATAG

Protein sequence

>MS.gene69928.t1

MKDFPSCFGENAVQVADSSSSSSSSSKTAQNLVICVYQCSIRGRSCLITITWSKSLMGQGFSVGIDDASNQCLCKVDIKPWVFSKRKGCKSLEAYSCKIDVYWDLSSARFGVGPEPLEVFFVGVVVDKQMVLLLGDLRKEAFKKSNAVPLPLNAVFVAKKEHVFGKKFFGNKVVFCDNGKIHDLVIECDTSVASDPCLIVRIDSKTVMQVKRLKWKFRGNHTILVDGLEVEVYWDVYNWLFGTSFGNAVFMFRTCFSQDKIWDAQPVSDANVLQWSFSQRFSETKLQQQGVGFSHVLYAWKNE