AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene060076


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060076.t1 MTR_7g029015 99.351 154 1 0 1 154 436 589 5.54e-105 311
MS.gene060076.t1 MTR_3g099150 45.395 152 77 2 1 147 409 559 6.49e-34 124
MS.gene060076.t1 MTR_5g022380 38.667 150 74 1 1 150 289 420 1.15e-26 103
MS.gene060076.t1 MTR_5g022380 38.667 150 74 1 1 150 399 530 2.63e-26 103
MS.gene060076.t1 MTR_4g073690 37.241 145 73 1 1 145 411 537 1.47e-25 101
MS.gene060076.t1 MTR_5g090570 33.766 154 78 2 1 154 403 532 4.46e-24 97.4
MS.gene060076.t1 MTR_2g450710 39.073 151 79 3 1 151 425 562 3.46e-22 92.0
MS.gene060076.t1 MTR_4g116210 36.424 151 83 2 1 151 431 568 4.74e-22 91.7
MS.gene060076.t1 MTR_2g100400 35.252 139 69 1 3 141 411 528 5.95e-22 91.3
MS.gene060076.t1 MTR_1g111530 36.879 141 76 2 3 141 423 552 1.62e-21 90.1
MS.gene060076.t1 MTR_1g111510 36.879 141 76 2 3 141 427 556 5.58e-21 88.6
MS.gene060076.t1 MTR_2g104250 36.296 135 64 2 17 151 186 298 1.09e-20 86.3
MS.gene060076.t1 MTR_1g050550 33.562 146 87 2 3 147 434 570 1.50e-20 87.4
MS.gene060076.t1 MTR_1g111540 35.971 139 80 1 3 141 427 556 4.55e-20 85.9
MS.gene060076.t1 MTR_7g102880 33.108 148 85 3 3 147 439 575 5.67e-19 82.8
MS.gene060076.t1 MTR_1g059080 33.103 145 87 2 4 147 426 561 1.16e-17 79.0
MS.gene060076.t1 MTR_1g111550 33.813 139 83 2 3 141 425 554 1.98e-16 75.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene060076.t1 AT5G14120 65.541 148 40 1 1 148 441 577 9.76e-63 202
MS.gene060076.t1 AT3G01930 64.189 148 42 1 1 148 333 469 1.09e-62 199
MS.gene060076.t1 AT3G01930 64.189 148 42 1 1 148 446 582 1.22e-61 199
MS.gene060076.t1 AT5G50520 44.295 149 70 2 1 149 403 538 2.07e-37 134
MS.gene060076.t1 AT5G50630 44.295 149 70 2 1 149 403 538 2.07e-37 134
MS.gene060076.t1 AT4G34950 34.211 152 82 1 1 152 428 561 3.69e-25 100
MS.gene060076.t1 AT1G74780 34.014 147 76 1 1 147 403 528 9.60e-24 96.3
MS.gene060076.t1 AT1G18940 32.653 147 78 1 1 147 396 521 1.91e-23 95.5
MS.gene060076.t1 AT2G16660 33.793 145 78 1 1 145 407 533 8.27e-23 94.0
MS.gene060076.t1 AT2G39210 34.868 152 75 3 4 147 427 562 9.30e-22 90.9
MS.gene060076.t1 AT2G34350 31.126 151 83 1 1 151 396 525 9.91e-22 90.9
MS.gene060076.t1 AT2G34350 31.126 151 83 1 1 151 396 525 9.91e-22 90.9
MS.gene060076.t1 AT1G80530 37.086 151 74 2 1 151 424 553 1.29e-21 90.5
MS.gene060076.t1 AT2G34355 29.801 151 85 1 1 151 244 373 6.63e-21 87.8
MS.gene060076.t1 AT2G34355 29.801 151 85 1 1 151 394 523 1.48e-20 87.4
MS.gene060076.t1 AT2G28120 33.333 147 84 3 4 147 418 553 7.05e-17 77.0

Find 35 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTACAGCCTCTGAATTATT+TGG 0.203666 7.2:-70571355 MS.gene060076:CDS
ATGATGCTATATTCAGGTTT+TGG 0.278330 7.2:+70571206 None:intergenic
ATTGTTTATGCTAGCTTGTA+TGG 0.317743 7.2:-70571046 MS.gene060076:CDS
GACTTGGTTACGGTGCTCAT+TGG 0.360347 7.2:-70571390 MS.gene060076:CDS
ATACGAATGATGCTATATTC+AGG 0.390473 7.2:+70571200 None:intergenic
TACGTTGGCACTTTACTAGT+TGG 0.411740 7.2:-70571412 MS.gene060076:CDS
TTCATTGGCATGGGATGGCC+AGG 0.416629 7.2:-70571442 MS.gene060076:CDS
TTACTAGTTGGACTTGGTTA+CGG 0.418091 7.2:-70571400 MS.gene060076:CDS
TTATTTGGTTTAAGAAACTT+TGG 0.428476 7.2:-70571340 MS.gene060076:CDS
GAGAAGACAAGAGTTCCAAC+AGG 0.434937 7.2:+70571286 None:intergenic
CATATGGAACCTTCGCACTT+TGG 0.443970 7.2:+70571151 None:intergenic
GGATTATGCATTGTTGCGGC+AGG 0.460540 7.2:-70571100 MS.gene060076:CDS
ACTTGGTTACGGTGCTCATT+GGG 0.463235 7.2:-70571389 MS.gene060076:CDS
CTGCCATGATAGTGGATGTC+AGG 0.467856 7.2:+70571122 None:intergenic
GCATAATCCTGCCATGATAG+TGG 0.474193 7.2:+70571114 None:intergenic
TAGCATAAACAATCCTTGTT+CGG 0.485537 7.2:+70571056 None:intergenic
TCTCTAGTCTCATTGCTAGT+AGG 0.486798 7.2:-70571267 MS.gene060076:CDS
AATAATTCAGAGGCTGTAGC+TGG 0.491533 7.2:+70571358 None:intergenic
GGATGTCAGGAAGAAGCATA+TGG 0.506273 7.2:+70571135 None:intergenic
TGTTTCTCGTGTTCCGAACA+AGG 0.516891 7.2:-70571069 MS.gene060076:CDS
CTTCCTGACATCCACTATCA+TGG 0.528499 7.2:-70571125 MS.gene060076:CDS
ATCACTCTAGCAAACCCTGT+TGG 0.532002 7.2:-70571301 MS.gene060076:CDS
GTATCTAGTGCGCTTAATGT+TGG 0.537346 7.2:-70571181 MS.gene060076:CDS
GGCACTTTACTAGTTGGACT+TGG 0.541785 7.2:-70571406 MS.gene060076:CDS
CTGACATCCACTATCATGGC+AGG 0.565999 7.2:-70571121 MS.gene060076:CDS
GGCAGGATTATGCATTGTTG+CGG 0.574036 7.2:-70571104 MS.gene060076:CDS
TTTCAACTAGCTATGACTGT+TGG 0.574245 7.2:-70571472 None:intergenic
TCTTAAACCAAATAATTCAG+AGG 0.585066 7.2:+70571348 None:intergenic
GTGCCAACGTACATTGAACC+TGG 0.605966 7.2:+70571424 None:intergenic
GGTGACGCGCCAAAGTGCGA+AGG 0.621883 7.2:-70571160 MS.gene060076:CDS
GATTATGCATTGTTGCGGCA+GGG 0.630180 7.2:-70571099 MS.gene060076:CDS
GAAGCAGAGAAACAAGCTCA+TGG 0.639621 7.2:-70571232 MS.gene060076:CDS
AGAAGACAAGAGTTCCAACA+GGG 0.668994 7.2:+70571287 None:intergenic
TGGCCAGGTTCAATGTACGT+TGG 0.706240 7.2:-70571427 MS.gene060076:CDS
GCAGAGAAACAAGCTCATGG+TGG 0.726436 7.2:-70571229 MS.gene060076:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTATTTGGTTTAAGAAACTT+TGG - chr7.2:70571138-70571157 MS.gene060076:CDS 20.0%
! TCTTAAACCAAATAATTCAG+AGG + chr7.2:70571133-70571152 None:intergenic 25.0%
ATACGAATGATGCTATATTC+AGG + chr7.2:70571281-70571300 None:intergenic 30.0%
TAGCATAAACAATCCTTGTT+CGG + chr7.2:70571425-70571444 None:intergenic 30.0%
! ATTGTTTATGCTAGCTTGTA+TGG - chr7.2:70571432-70571451 MS.gene060076:CDS 30.0%
!! ATGATGCTATATTCAGGTTT+TGG + chr7.2:70571275-70571294 None:intergenic 30.0%
! ACTGTTGGTCATCTTTTCAT+TGG - chr7.2:70571021-70571040 MS.gene060076:CDS 35.0%
! TTACTAGTTGGACTTGGTTA+CGG - chr7.2:70571078-70571097 MS.gene060076:CDS 35.0%
AATAATTCAGAGGCTGTAGC+TGG + chr7.2:70571123-70571142 None:intergenic 40.0%
AGAAGACAAGAGTTCCAACA+GGG + chr7.2:70571194-70571213 None:intergenic 40.0%
GCTACAGCCTCTGAATTATT+TGG - chr7.2:70571123-70571142 MS.gene060076:CDS 40.0%
GTATCTAGTGCGCTTAATGT+TGG - chr7.2:70571297-70571316 MS.gene060076:CDS 40.0%
TACGTTGGCACTTTACTAGT+TGG - chr7.2:70571066-70571085 MS.gene060076:CDS 40.0%
TCTCTAGTCTCATTGCTAGT+AGG - chr7.2:70571211-70571230 MS.gene060076:CDS 40.0%
! ATCTTTTCATTGGCATGGGA+TGG - chr7.2:70571031-70571050 MS.gene060076:CDS 40.0%
! GGTCATCTTTTCATTGGCAT+GGG - chr7.2:70571027-70571046 MS.gene060076:CDS 40.0%
! TGGTCATCTTTTCATTGGCA+TGG - chr7.2:70571026-70571045 MS.gene060076:CDS 40.0%
ACTTGGTTACGGTGCTCATT+GGG - chr7.2:70571089-70571108 MS.gene060076:CDS 45.0%
ATCACTCTAGCAAACCCTGT+TGG - chr7.2:70571177-70571196 MS.gene060076:CDS 45.0%
CATATGGAACCTTCGCACTT+TGG + chr7.2:70571330-70571349 None:intergenic 45.0%
CTTCCTGACATCCACTATCA+TGG - chr7.2:70571353-70571372 MS.gene060076:CDS 45.0%
GAAGCAGAGAAACAAGCTCA+TGG - chr7.2:70571246-70571265 MS.gene060076:CDS 45.0%
GAGAAGACAAGAGTTCCAAC+AGG + chr7.2:70571195-70571214 None:intergenic 45.0%
GATTATGCATTGTTGCGGCA+GGG - chr7.2:70571379-70571398 MS.gene060076:CDS 45.0%
GCATAATCCTGCCATGATAG+TGG + chr7.2:70571367-70571386 None:intergenic 45.0%
GGCACTTTACTAGTTGGACT+TGG - chr7.2:70571072-70571091 MS.gene060076:CDS 45.0%
GGCAGGATTATGCATTGTTG+CGG - chr7.2:70571374-70571393 MS.gene060076:CDS 45.0%
TGTTTCTCGTGTTCCGAACA+AGG - chr7.2:70571409-70571428 MS.gene060076:CDS 45.0%
! GGATGTCAGGAAGAAGCATA+TGG + chr7.2:70571346-70571365 None:intergenic 45.0%
CTGACATCCACTATCATGGC+AGG - chr7.2:70571357-70571376 MS.gene060076:CDS 50.0%
GCAGAGAAACAAGCTCATGG+TGG - chr7.2:70571249-70571268 MS.gene060076:CDS 50.0%
GGATTATGCATTGTTGCGGC+AGG - chr7.2:70571378-70571397 MS.gene060076:CDS 50.0%
GTGCCAACGTACATTGAACC+TGG + chr7.2:70571057-70571076 None:intergenic 50.0%
TGGCCAGGTTCAATGTACGT+TGG - chr7.2:70571051-70571070 MS.gene060076:CDS 50.0%
! GACTTGGTTACGGTGCTCAT+TGG - chr7.2:70571088-70571107 MS.gene060076:CDS 50.0%
!! CTGCCATGATAGTGGATGTC+AGG + chr7.2:70571359-70571378 None:intergenic 50.0%
TTCATTGGCATGGGATGGCC+AGG - chr7.2:70571036-70571055 MS.gene060076:CDS 55.0%
GGTGACGCGCCAAAGTGCGA+AGG - chr7.2:70571318-70571337 MS.gene060076:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 70571018 70571482 70571018 ID=MS.gene060076
chr7.2 mRNA 70571018 70571482 70571018 ID=MS.gene060076.t1;Parent=MS.gene060076
chr7.2 exon 70571018 70571482 70571018 ID=MS.gene060076.t1.exon1;Parent=MS.gene060076.t1
chr7.2 CDS 70571018 70571482 70571018 ID=cds.MS.gene060076.t1;Parent=MS.gene060076.t1
Gene Sequence

>MS.gene060076

ATGACTGTTGGTCATCTTTTCATTGGCATGGGATGGCCAGGTTCAATGTACGTTGGCACTTTACTAGTTGGACTTGGTTACGGTGCTCATTGGGCAGTTGTTCCAGCTACAGCCTCTGAATTATTTGGTTTAAGAAACTTTGGTGCATTATACAATTTCATCACTCTAGCAAACCCTGTTGGAACTCTTGTCTTCTCTAGTCTCATTGCTAGTAGGATCTATGATTATGAAGCAGAGAAACAAGCTCATGGTGGCCAAAACCTGAATATAGCATCATTCGTATCTAGTGCGCTTAATGTTGGTGACGCGCCAAAGTGCGAAGGTTCCATATGCTTCTTCCTGACATCCACTATCATGGCAGGATTATGCATTGTTGCGGCAGGGTTAAGCATGTTTCTCGTGTTCCGAACAAGGATTGTTTATGCTAGCTTGTATGGAAAATCTTCTATGCGAAGCCTTCGATGA

Protein sequence

>MS.gene060076.t1

MTVGHLFIGMGWPGSMYVGTLLVGLGYGAHWAVVPATASELFGLRNFGALYNFITLANPVGTLVFSSLIASRIYDYEAEKQAHGGQNLNIASFVSSALNVGDAPKCEGSICFFLTSTIMAGLCIVAAGLSMFLVFRTRIVYASLYGKSSMRSLR