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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttcgccacctaaagtttgaatcttttctgtgtttcctcatccgggtcctgatccctttctcggatgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGTGATTTGAAAGGGAAGAGGGTGTTCGTGAGGGTCGATCTGAACGTGCCTT

Basic information

species Glycine max
transcript GLYMA08G17600.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G17600.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g07260.1 (Oryza sativa), 3'ss of exon 1
-------------------------gtgagtttcgccacctaaagtttgaatcttttctgtgt-ttcctca----tccgggtcctgatccctttctcggatgcg-tgcagGTTTGCG-AAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGTGATTTGAAAGGGAAGAGGGTGTTCGTGAGGGTCGATCTGAACGTGCCTT
                          |   | | |   ||    ||  | |   || ||||||  | | |       ||  |   | || |     |||||  | ||||||   | | ||| ||||||||| |||||||||||||| ||| ||  |||||  ||| |||  ||||||| |||||||||| ||| ||| || ||||||||  
gtgagttccctcctccgatcgcgcgctcgatcttggatccgcgggtgcggaggattgctgtgtgcttcgcgggatctcgtttgacgctcgcggggccggatttggtgcagGGGAGGGGAAGCAATGGCGACGAAGAGGAGCGTGGGGACGCTGGGGGAGGCGGATCTGAGGGGGAAGAAGGTGTTCGTGCGGGCCGACCTCAACGTGCCG-
















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|209709349|gb|BW678893.1|BW678893
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|209714549|gb|BW662212.1|BW662212
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|298198247|gb|HO039786.1|HO039786
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|213590565|gb|DB968115.1|DB968115
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|24206138|gb|BU965391.1|BU965391
EST:     CTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: CTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|213610576|gb|DB960615.1|DB960615
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|213590392|gb|DB971540.1|DB971540
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|5606888|gb|AI900986.1|AI900986
EST:     AGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: AGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|213589598|gb|DB965814.1|DB965814
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|298165436|gb|HO011485.1|HO011485
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|151412432|gb|EV282244.1|EV282244
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|192295471|gb|FG987085.1|FG987085
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|213608836|gb|DB957200.1|DB957200
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|213610262|gb|DB962932.1|DB962932
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|8402319|gb|BE057953.1|BE057953
EST:     CACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCCAAGAAATGGCGACTAAGAGGAGCCTGGGAACGTTGAAGGAGGGT
genomic: CACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|209721583|gb|BW671724.1|BW671724
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|193315083|gb|FK279693.1|FK279693
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|21600463|gb|BQ610794.1|BQ610794
EST:     AGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: AGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|16347493|gb|BI973088.1|BI973088
EST:     CCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: CCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|298188541|gb|HO035234.1|HO035234
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
EST: gi|15661932|gb|BI699303.1|BI699303
EST:     ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTT                         GTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT
genomic: ACCAGTTGCCACACTACACCGAGATTCCCCCTAAACCCGTTTGCGTTGTTgtgagtttcg ... atgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcttttctgtgtttcctcatccgggtcctgatccctttctcggatgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGTGATTTGAAAGGGAAGAGGGTGTTCGTGAGGGTCGATCTGAACGTGCCTT
                           tcctgat  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtttcgccacctaaagtttgaatcttttctgtgtttcctcatccgggtcctgatccctttctcggatgcgtgcagGTTTGCGAAGAAATGGCGACTAAGAGGAGCGTGGGAACGTTGAAGGAGGGTGATTTGAAAGGGAAGAGGGTGTTCGTGAGGGTCGATCTGAACGTGCCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG