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'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtatatattttctaattttgcagttttttgcatggccatgaaaattatcaacatgcatgttgtatttgaacaaatattgaccctcaatcgccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGATATAGAAAAGCAGATTAATGCTTTTGCAAAGAAGGCAAATGATGGAACTT

Basic information

species Glycine max
transcript GLYMA14G02530.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G02530.2 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM5G807639_T03 (Zea mays), 3'ss of exon 11
tgtatatattttctaattttgcagttttttgcatggccatgaaaattatcaacatgcatgttgtatttgaacaaatattg-----accctcaatcg---ccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGATATAGAAAAGCAGATTAATGCTTTTGCAAAGAAGGCAAATGATGGAACTT
        | | ||||   |   ||   | | |  ||||  | |   | || | |  |  |||   | |   |  || |      | |    |  |   |   ||||||||||||| || || ||||||||  ||||||||||||||||||||||||| || || ||   ||| ||     ||||||||||||||||||| ||  |  
--------tatcctaaagctattgtacctagaaaagccaaaacacaaaacagcctatagtttgggatggtgtatttactatgtatatcactgactgaaacttctccagGGCCTTGTGGTGCCTGTTATCCGAGATGCTGATACCATGAACTTTGCTGACATTGAGAAAGGGATAAACAACCTTGCAAAGAAGGCAAATGAGGGGGCGC

upper sequence: GLYMA14G02530.2 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G079538_T01 (Zea mays), 3'ss of exon 10
-------------------------------tgtatatattttctaattttgcagttttttgcatggccatgaaaattatcaacatgcatgttgtatttgaacaa------atattgaccctcaatcgccat----tccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGATATAGAAAAGCAGATTAATGCTTTTGCAAAGAAGGCAAATGATGGAACTT
                                  || |||  |||  | ||| |  |      |        |||||   | | | |  ||  ||  |   |  |      || |  | |   ||| |  ||    | ||||||||||| || || ||||||||  ||||||||||||||||||||||||| || || ||   ||| ||     |||||||||| |||| ||| ||  |  
gtaccatattgcttacttgctactctggtgactgatgtatcatctt-tcttgtacctagaactagaaaagccaaaatggcctata-gtttggggtggtcagagtatttactatgtatatcactaattgtaatatttttcagGGCCTTGTGGTTCCTGTTATCCGAGATGCTGATACCATGAACTTTGCTGACATTGAGAAAGGGATAAACAACCTTGCAAAGAAAGCAACTGAGGGGGCGC
















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|58018648|gb|CX705390.1|CX705390
EST:     TTATATACAGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAG                         GGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
genomic: TTATATACAGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAGgtttttatca ... gccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
EST: gi|15589596|gb|BI674212.1|BI674212
EST:     TTATATACAGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAG                         GGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
genomic: TTATATACAGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAGgtttttatca ... gccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
EST: gi|16283623|gb|BI945649.1|BI945649
EST:     GCTGTTGGTACTTCGAAG                         GGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
genomic: GCTGTTGGTACTTCGAAGgtttttatca ... gccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
EST: gi|15589589|gb|BI674205.1|BI674205
EST:     CAGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAG                         GGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
genomic: CAGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAGgtttttatca ... gccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
EST: gi|7588263|gb|AW704062.1|AW704062
EST:     TTATATACAGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAG                         GGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
genomic: TTATATACAGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAGgtttttatca ... gccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
EST: gi|192309688|gb|FG999901.1|FG999901
EST:     AGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAG                         GGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT
genomic: AGAGATTATATAGATATCAGCATAGCTGTTGGTACTTCGAAGgtttttatca ... gccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcaacatgcatgttgtatttgaacaaatattgaccctcaatcgccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGATATAGAAAAGCAGATTAATGCTTTTGCAAAGAAGGCAAATGATGGAACTT
                              tattgac  putative branch site (score: 2)
                                              ccattcc  putative PPT
                  tatttgaacaaatatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtatatattttctaattttgcagttttttgcatggccatgaaaattatcaacatgcatgttgtatttgaacaaatattgaccctcaatcgccattccagGGCCTTGTTGTACCGGTTATCCGCAATGCTGATACCATGAACTTTGCTGATATAGAAAAGCAGATTAATGCTTTTGCAAAGAAGGCAAATGATGGAACTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - -tgcagtt
- - - - - - - - - - - - - - - gcatggc
- - - - - - - - - - - - - - - - - - -catgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgta