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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtagttctctgtacctgtttatgatttctgcaccgtccctcattttgtcctagttcccacgttgtcattattgtgtctgtttccctaatgtttagtataattgataaggttgattgtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATCCCCAGAATTCATGTTCTTGAGCTCTCCAACTTCAGCAAGAAGTTGAAAT

Basic information

species Glycine max
transcript GLYMA18G46830.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46830.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0046g02330.t01 (Vitis vinifera), 3'ss of exon 8
ggtagttctctgtacctgtttatgatttctgcaccgtccctcattttgtcctagttcccacgttgtcattattgtgtctgtttccctaatgtttagtataattgataaggttgattgtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATCCCCAGAATTCATGTTCTTGAGCTCTCCAACTTCAGCAAGAAGTTGAAAT-
                    ||   ||||  |||  | | || |  | |  ||      || |     ||||  |       | |||  ||| |  | |  || |   || ||  |  ||||  |||| || ||||| ||||||||||||||||||||||||||||| ||||  ||   ||| || ||  |||||||||||||  |||| || ||||||||||||| 
-------------------gtaatttttcctcactttgcttcttcctttgttaaaatt-acatgtatgttatcttcctcaacttcct--tgtctcttttcgttcaatggggtgccttgttggggcagGGAAATGGGGATACAACACCCAGAAAGAAAGAGAGGAAGCAGCTGGCATTAGCAGGATCCAACTTCTTGAGCTCTCTGACTTTAGTAAGAAGTTGAAATA
















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|58022185|gb|CX708926.1|CX708926
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|6848327|gb|AW350617.1|AW350617
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCCTAT
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTG-CTAT
EST: gi|151406125|gb|EV275940.1|EV275940
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACA-CACCCAGAAAGAA-GAGA
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGA
EST: gi|193433377|gb|FK395329.1|FK395329
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|193364528|gb|FK333569.1|FK333569
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|192315950|gb|FK008833.1|FK008833
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGGAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|209703964|gb|BW667954.1|BW667954
EST:     TCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTACC
genomic: TCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|58025369|gb|CX712110.1|CX712110
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|193360773|gb|FK326425.1|FK326425
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|20497875|gb|BQ272805.1|BQ272805
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|151411748|gb|EV281559.1|EV281559
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAA-GAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|192331285|gb|FK023782.1|FK023782
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|6725773|gb|AW310172.1|AW310172
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|58022451|gb|CX709192.1|CX709192
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|58017891|gb|CX704633.1|CX704633
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
EST: gi|57575865|gb|CX548836.1|CX548836
EST:     TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTT                         GGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC
genomic: TAAAAAATGTCATCAAAGAGCCTGAGTTAGACCAATGGAATTTGTATCTTggtagttctc ... gtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgtctgtttccctaatgtttagtataattgataaggttgattgtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATCCCCAGAATTCATGTTCTTGAGCTCTCCAACTTCAGCAAGAAGTTGAAAT
               taatgtttagtataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtagttctctgtacctgtttatgatttctgcaccgtccctcattttgtcctagttcccacgttgtcattattgtgtctgtttccctaatgtttagtataattgataaggttgattgtttggatcaGGTAATTGGGGTTACAACACCCAGAAAGAAAGAGAGGAAGCTGCTGCTATCCCCAGAATTCATGTTCTTGAGCTCTCCAACTTCAGCAAGAAGTTGAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT