AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049452


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049452.t1 MTR_3g031130 93.333 90 6 0 10 99 507 596 6.76e-54 178
MS.gene049452.t1 MTR_5g073450 67.778 90 22 1 10 92 514 603 5.94e-34 124
MS.gene049452.t1 MTR_5g073460 52.174 92 37 1 8 92 571 662 4.40e-22 90.9
MS.gene049452.t1 MTR_3g464010 48.101 79 37 1 18 92 562 640 1.31e-20 86.7
MS.gene049452.t1 MTR_5g073920 47.436 78 38 1 18 92 554 631 1.47e-19 83.6
MS.gene049452.t1 MTR_5g074130 50.000 84 33 1 18 92 564 647 2.41e-18 80.1
MS.gene049452.t1 MTR_1g117090 43.529 85 41 1 15 92 554 638 3.57e-18 79.7
MS.gene049452.t1 MTR_6g033310 47.619 84 37 2 15 91 611 694 5.64e-18 79.0
MS.gene049452.t1 MTR_5g073780 46.341 82 37 1 18 92 114 195 7.05e-18 76.6
MS.gene049452.t1 MTR_5g073620 47.561 82 36 1 18 92 959 1040 7.15e-18 79.0
MS.gene049452.t1 MTR_8g021330 39.048 105 51 2 1 92 471 575 1.72e-16 74.7
MS.gene049452.t1 MTR_7g026630 44.578 83 40 2 15 91 537 619 1.75e-16 74.7
MS.gene049452.t1 MTR_4g103540 44.186 86 41 1 13 91 565 650 4.42e-16 73.6
MS.gene049452.t1 MTR_5g073900 48.780 82 35 1 18 92 264 345 8.31e-16 72.4
MS.gene049452.t1 MTR_7g013770 39.252 107 57 1 10 108 551 657 1.06e-15 72.8
MS.gene049452.t1 MTR_5g073490 43.158 95 32 2 10 97 50 129 2.16e-15 68.6
MS.gene049452.t1 MTR_1g057560 40.217 92 42 2 13 91 503 594 2.90e-14 68.6
MS.gene049452.t1 MTR_1g090620 36.190 105 44 2 13 94 509 613 3.93e-14 68.2
MS.gene049452.t1 MTR_5g093530 44.000 75 28 1 18 92 484 544 6.27e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049452.t1 AT5G58430 64.894 94 27 1 10 97 500 593 2.68e-35 128
MS.gene049452.t1 AT1G07000 44.318 88 48 1 10 97 484 570 2.40e-20 85.9
MS.gene049452.t1 AT5G13990 49.398 83 36 2 15 91 568 650 5.28e-20 85.1
MS.gene049452.t1 AT5G13150 45.349 86 41 2 13 92 529 614 9.88e-19 81.3
MS.gene049452.t1 AT1G72470 46.237 93 40 1 10 92 499 591 1.50e-17 77.8
MS.gene049452.t1 AT1G54090 42.222 90 42 1 13 92 492 581 2.18e-17 77.4
MS.gene049452.t1 AT3G14090 44.186 86 38 1 17 92 498 583 2.50e-17 77.4
MS.gene049452.t1 AT5G52350 45.238 84 36 1 18 91 463 546 5.50e-16 73.6
MS.gene049452.t1 AT5G52340 38.889 90 44 2 13 91 503 592 8.31e-14 67.4
MS.gene049452.t1 AT5G03540 36.458 96 44 2 13 91 504 599 1.21e-13 66.6
MS.gene049452.t1 AT5G03540 36.458 96 44 2 13 91 530 625 1.65e-13 66.2
MS.gene049452.t1 AT5G03540 36.458 96 44 2 13 91 389 484 1.82e-13 66.2
MS.gene049452.t1 AT5G50380 35.789 95 44 1 13 90 545 639 8.32e-13 64.3
MS.gene049452.t1 AT5G61010 30.380 79 54 1 13 90 521 599 1.33e-11 60.8
MS.gene049452.t1 AT5G61010 30.380 79 54 1 13 90 521 599 1.33e-11 60.8

Find 0 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGTGATAAGTATATCAAGTT+TGG + 24273:1123-1142 MS.gene049452:CDS 25.0%
! TAAGTATATCAAGTTTGGAA+TGG + 24273:1128-1147 MS.gene049452:CDS 25.0%
!! AACTTCTTTGATAGTTCATA+TGG - 24273:868-887 MS.gene049452:intergenic 25.0%
TGAACTATCAAAGAAGTTCA+TGG + 24273:870-889 MS.gene049452:CDS 30.0%
! ATCTTTAGTTTCTCCTTCAT+GGG - 24273:941-960 MS.gene049452:intergenic 30.0%
!! GCATTTTGAAGAGATATGTA+GGG + 24273:970-989 MS.gene049452:CDS 30.0%
!! TGCATTTTGAAGAGATATGT+AGG + 24273:969-988 MS.gene049452:CDS 30.0%
AAGTTCATGGAACAAGTTGT+TGG + 24273:883-902 MS.gene049452:CDS 35.0%
AGTTCATGGAACAAGTTGTT+GGG + 24273:884-903 MS.gene049452:CDS 35.0%
ATCACTATTCTTAGCAAGCT+CGG - 24273:1109-1128 MS.gene049452:intergenic 35.0%
GAAAACACAGTACAAAAGTG+CGG + 24273:836-855 MS.gene049452:CDS 35.0%
! AAAACACAGTACAAAAGTGC+GGG + 24273:837-856 MS.gene049452:CDS 35.0%
! AACAATTTGTTTCAGGGAAG+TGG + 24273:1171-1190 MS.gene049452:CDS 35.0%
! CATCTTTAGTTTCTCCTTCA+TGG - 24273:942-961 MS.gene049452:intergenic 35.0%
! CGGCTTAACAATTTGTTTCA+GGG + 24273:1165-1184 MS.gene049452:CDS 35.0%
! GTATATCAAGTTTGGAATGG+AGG + 24273:1131-1150 MS.gene049452:CDS 35.0%
! TCGGCTTAACAATTTGTTTC+AGG + 24273:1164-1183 MS.gene049452:CDS 35.0%
!! CTTATGGAAGCTTTATTGGA+AGG + 24273:1071-1090 MS.gene049452:CDS 35.0%
AGCAGCTCAAGGAAGAAATA+AGG + 24273:1020-1039 MS.gene049452:CDS 40.0%
CCAATAAAGCTTCCATAAGC+AGG - 24273:1070-1089 MS.gene049452:intergenic 40.0%
GTTCATGGAACAAGTTGTTG+GGG + 24273:885-904 MS.gene049452:CDS 40.0%
TATGTAGGGTTCAATCTCAG+TGG + 24273:984-1003 MS.gene049452:CDS 40.0%
! AATTTGTTTCAGGGAAGTGG+TGG + 24273:1174-1193 MS.gene049452:CDS 40.0%
! CCTGCTTATGGAAGCTTTAT+TGG + 24273:1067-1086 MS.gene049452:CDS 40.0%
AAGCTCTTGTTGCCTGCTTA+TGG + 24273:1055-1074 MS.gene049452:CDS 45.0%
CAAGTTGTTGGGGTTTCTGA+AGG + 24273:895-914 MS.gene049452:CDS 45.0%
GAATGGAGGACATTGAAGCT+CGG + 24273:1145-1164 MS.gene049452:CDS 45.0%
TGTCTTTGATGAGCAGCTCA+AGG + 24273:1009-1028 MS.gene049452:CDS 45.0%
! GTTTCTGAAGGTGGAGACAT+TGG + 24273:907-926 MS.gene049452:CDS 45.0%
ATTGGCTGCGAAACCCATGA+AGG + 24273:925-944 MS.gene049452:CDS 50.0%
! GTTGTTGGGGTTTCTGAAGG+TGG + 24273:898-917 MS.gene049452:CDS 50.0%
!! CAGGGAAGTGGTGGATCGAA+TGG + 24273:1183-1202 MS.gene049452:CDS 55.0%


Chromosome Type Strat End Strand Name
24273 gene 824 1220 824 ID=MS.gene049452
24273 mRNA 824 1220 824 ID=MS.gene049452.t1;Parent=MS.gene049452
24273 exon 824 1220 824 ID=MS.gene049452.t1.exon1;Parent=MS.gene049452.t1
24273 CDS 824 1220 824 ID=cds.MS.gene049452.t1;Parent=MS.gene049452.t1
Gene Sequence

>MS.gene049452

ATGATTGGATCAGAAAACACAGTACAAAAGTGCGGGCAATGCCATATGAACTATCAAAGAAGTTCATGGAACAAGTTGTTGGGGTTTCTGAAGGTGGAGACATTGGCTGCGAAACCCATGAAGGAGAAACTAAAGATGTTCAATCTGCATTTTGAAGAGATATGTAGGGTTCAATCTCAGTGGTTTGTCTTTGATGAGCAGCTCAAGGAAGAAATAAGGATCTCAATCGAAAAGCTCTTGTTGCCTGCTTATGGAAGCTTTATTGGAAGGTTTCAAATTTTACCGAGCTTGCTAAGAATAGTGATAAGTATATCAAGTTTGGAATGGAGGACATTGAAGCTCGGCTTAACAATTTGTTTCAGGGAAGTGGTGGATCGAATGGTAGCCGTAAGTGAAG

Protein sequence

>MS.gene049452.t1

MIGSENTVQKCGQCHMNYQRSSWNKLLGFLKVETLAAKPMKEKLKMFNLHFEEICRVQSQWFVFDEQLKEEIRISIEKLLLPAYGSFIGRFQILPSLLRIVISISSLEWRTLKLGLTICFREVVDRMVAVSE