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

AACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgtggttaaacaacttggccagttacgcctagtatttccaagttttaatagccaagttttcacgtgtgaaagtggttgaaacacttggatatt...

Basic information

species Glycine max
transcript GLYMA02G47460.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G47460.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G163437_T01 (Zea mays), 5'ss of exon 7
AACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt--ggttaaacaacttggccagttacgcctagtatttccaagttttaatagccaagttttcacgtgtgaaagtggttgaaacacttggatatt
|||||||| || ||||||||||| ||||| || || ||||||||||| |||||||| || || || ||||| ||| ||||||| || || || || |||||||  || |     |  |||     |||| |  |  | ||      ||    ||      |   |||||  |                             
AACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAAGGTGCTATCATAGAGGACACTTTACTAATGGGTGCGGACTACTATGAGgtaaatatatacaagtgtacactgctgccaat-gcaacaagagagctcacaccttggcgttcttcttttccag-----------------------------

upper sequence: GLYMA02G47460.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G068506_T03 (Zea mays), 5'ss of exon 7
AACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgtggttaaacaacttggccagttacgcctagtatttccaagttttaatagccaagttttcacgtgtgaaagtggttgaaacacttggatatt
|||||||| ||  |||||||||| ||||| || |||||||||||||| |||||||| || || || ||||  ||| ||||||| || || || || |||||||  || |   || | |   |   | | |     |   |      || |   | |||   ||| |    |   |                        
AACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAAGGTGCTATCATAGAGGACAGTTTACTAATGGGTGCGGACTACTATGAGgtaaatatatacgtaca-agtatatactgctgtcaatgcaacaatagagctcacacagctgtgttctttttttccag-----------------------

upper sequence: GLYMA02G47460.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 5'ss of exon 7
AACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgtggttaaacaacttggccagttacgcctagtatttccaagt---tttaatagccaagttttcacgtgtgaaagtggttgaaacacttggatatt-
||||| ||||| || ||||||||||| ||||| ||||||||||||||||| ||||||||||| ||||| ||  |||| ||||| ||||||||||| |||||| || |  |   ||||      |    ||||   | |   ||   | |   | || |   ||   |||||    |   |||  |  |     ||   |||| 
AACTGTAAAATCCATCATTCTGTGGTAGGGCTCCGATCTTGCATATCAGAGGGTGCAATTATAGAAGATACACTATTGATGGGAGCAGATTATTATGAGgtagtactaagagaaaaccggcaagtt--ttactttttgaccttttgaatgtttctattgctcagaatttcataccttgtagttat--atttggttccttatta

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|31471544|gb|CD413572.1|CD413572
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|22929719|gb|BU546858.1|BU546858
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|31465216|gb|CD407244.1|CD407244
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|9902053|gb|BE611021.1|BE611021
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|12489873|gb|BG043394.1|BG043394
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|51338121|gb|CO981987.1|CO981987
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|15589858|gb|BI674474.1|BI674474
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|27424381|gb|CA935901.1|CA935901
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|20498182|gb|BQ273112.1|BQ273112
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|192316610|gb|FK006817.1|FK006817
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|6070729|gb|AW100116.1|AW100116
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTATCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|21637686|gb|BM107841.1|BM107841
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTNTGGCTGCTAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|20811566|gb|BQ296044.1|BQ296044
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|16278915|gb|BI943160.1|BI943160
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|13266691|gb|BG370154.1|BG370154
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|23728098|gb|BU762095.1|BU762095
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|15589806|gb|BI674422.1|BI674422
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT
EST: gi|15814292|gb|BI786567.1|BI786567
EST:     AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG                         ACGGAGGCTGATAAGAGGTTTCTGGCTGCCAAAGGCAGTGTTCCAATTGGT
genomic: AAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgt ... tgtgttccagACGGAGGCTGATAAGAGGTTTCTGGCTGCTAAAGGCAGTGTTCCAATTGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAGgtaataatgtggttaaacaacttggccagttacgcctagtatttccaagttttaatagccaagttttcacgtgtgaaagtggttgaaacacttggatatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT