Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATGCCACTCAAAAAAGTCAAAAGGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcatgccattcaatgtaaaactgatgtttttcttcttatgttttgtttatattttgtttgattcaaaatttctatatgaaaattctgaattttatccatacaattgtgtaaccagtttctcctgttttttttaattcttcttacctttgtgca

Basic information

species Glycine max
transcript GLYMA18G03360.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os04g56646.1 (Oryza sativa), 5'ss of exon 5
GAATGCCACTCAAAAA-AGTCAAAAGGTGTTTGTGCATGTGCCATCAG-AGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcatgccattcaatgtaaaactgatgtttttcttcttatgttttgtttatattttgtttgattcaaaatttctatatgaaaattc-tgaattttatccatacaattgtgtaaccagtttctcctgttttttttaattcttcttacctttgtgca
 ||||| ||||||||| ||||||||||||||||| ||||| || |||| | || ||||| || || ||||||||||| ||||| ||           |||    || || | ||| | || | |        ||  ||| | |  ||   || ||  | || | | ||      ||| | |  || |  | | |||                                          
-AATGCTACTCAAAAACAGTCAAAAGGTGTTTGTTCATGTTCCTTCAGCAAATAGCTGCCCACGAGGTTGAGGAAATCGgtatgtc-----------tgt----ctcatctgtttttact-aggaaaaagggatgctttatgtattttgcaagttacagataatagttagcttgtttgagcggtaaatatat-taa------------------------------------------

upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G061745_T03 (Zea mays), 5'ss of exon 5
GAATGCCACTCAAAAAAGTCAAAAGGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcatgccattcaatgtaaaactgatgtttttcttcttatgttttgtttatattttgtttgattcaaaatttctatatgaaaattctgaattttatccatacaattgtgtaaccagtttctcctgttttttttaattcttcttacctttgtgca
 ||||| ||||| |||||||| ||||| ||||| ||||| || ||||| ||||| |||||||||||||||||||| ||||   | ||    ||    | ||            |  |  |    || | |  |||||  |    || | ||     | | |||||| |   ||  |  |  || | |   |                                            
-AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTGgtaagacttgttgatctgcatgaa---------caacaaccaaaaagttatatggattttacta---tcgagatggtattgttaaaattgtt--ttcaagtcggacgacttgct--------------------------------------------

upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 5
GAATGCCACTCAAAAAAGTCAAAAGGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcatgccattcaatgtaaaactgatgtttttcttcttatgttttgtttatattttgtttgattcaaaatttctatatgaaaattctgaattttatccatacaattgtgtaaccagtttctcctgttttttttaattcttcttacctttgtgca
 ||||| || || |||||||| ||||| ||||| ||||| || ||||| |||||||||||||||||||||||||| ||||   | ||    |  || | | ||||              |||        | |   | | ||  |   | | |||| |||    |    ||| | |||      ||| | ||  |   |||                                  
-AATGCTACACAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCTGCTCATGAAGTTGAGGAAATTGgtaagacttg----ttgatctgatactg-------------catgaacaacaaaaaggatatgtggattttactatctagatggtgttgtcaaatgtcatc------att-tataggctccttc----------------------------------

upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 5
GAATGCCACTCAAAAAAGTCAAAAGGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcatgccattcaatgtaaaactgatgtttttcttcttatgttttgtttatattttgtttgattcaaaatttctatatgaaaattctgaattttatccatacaattgtgtaaccagtttctcctgttttttttaattcttcttacctttgtgca
 ||||| ||||| ||||| || || || || || |||||| |  |||| |||||||||||||||||||||||||| ||||| ||         || | ||||| |      ||||| | ||| |||  | ||  |  |||   ||  |||     | |||    || ||| | || |    |  ||| | | || | || |    ||  || ||  |  |    |          
-AATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaa------aagggaaaacag------ttcttttgatgatttcatcat-ctcggttgagttttaaag----aaatgtgttttgtgattgttctgaggaagattttctgac-acttacctgcgtcattcttgttcttgtacag---------

upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 5
GAATGCCACTCAAAAAAGTCAAAAGGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcatgccattcaatgtaaaactgatgtttttcttcttatgttttgtttatattttgtttgattcaaaatttctatatgaaaattctgaattttatccatacaattgtgtaacc-------agtttctcctgttttttttaattc---ttcttacctttgtgca-
 ||||| || || ||||| ||| |||| ||||| || |||||  |||| ||||| |||||||||||||||||||| ||||| ||      | ||  |  ||||  ||      | | | ||  |||| || |  ||  ||     || ||     ||  |  |||| |   |||| |  || |    | | || |       |||   || || ||   |||   |   |  ||    |||  || 
-AATGCTACCCAGAAAAGCCAACAGGTTTTTGTACACGTGCCTACAGAAATTGCAGCTCATGAAGTTGAGGAAATTGgtatgtc------tacatggggaaacaaat------cctttgatagtttgatt-tccttatttcagagcataagaatgatgagggaatttttttttttgtaaatgcttccgaggaaactcaatggagtccttcttgcttcgcttacgccagttggttggtcttgaacag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|208208309|gb|GE004702.1|GE004702
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|207798891|gb|GD770942.1|GD770942
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGA
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGA
EST: gi|208125210|gb|GD921010.1|GD921010
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|208210642|gb|GE011717.1|GE011717
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|208122353|gb|GD920818.1|GD920818
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|207716296|gb|GD697574.1|GD697574
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|193390906|gb|FK353690.1|FK353690
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCA
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCA
EST: gi|8284769|gb|BE022328.1|BE022328
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGAT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGAT
EST: gi|193359721|gb|FK324141.1|FK324141
EST:     GTTTGTGCATGTGCCATCAGAGATTGCTGCTACATGAAGTTGAGGAAATA                         GGAGTGGAACA
genomic: GTTTGTGCATGTGCCATCAGAGATTGCTGCT-CATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACA
EST: gi|208065097|gb|GD862117.1|GD862117
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAG
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAG
EST: gi|207747114|gb|GD718335.1|GD718335
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|193357719|gb|FK320565.1|FK320565
EST:     TTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCCATTAGCACCCT
genomic: TTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAA-CCATTAGCACCCT
EST: gi|207761835|gb|GD734136.1|GD734136
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|193425604|gb|FK391691.1|FK391691
EST:     AGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: AGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|193324025|gb|FK291773.1|FK291773
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATATGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
EST: gi|193708925|gb|FK644603.1|FK644603
EST:     TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATA                         GGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT
genomic: TGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcat ... cctttgtgcaGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATTAGCACCCTT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATGCCACTCAAAAAAGTCAAAAGGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcatgccattcaatgtaaaactgatgtttttcttcttatgttttgtttatattttgtttgattcaaaatttctatatgaaaattctgaattttatccatacaattgtgtaaccagtttctcctgttttttttaattcttcttacctttgtgca

- - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT