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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAGTTTGATATGAAGCCCCACGGTGAAAACATTGAAGAGTATGGTAAATTGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttattatttaattatcccttaatgtttcttgctttctgtctatgataaataattgattatttggttcccttgattcaattggaag

Basic information

species Glycine max
transcript GLYMA06G03070.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G03070.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv18s0001g13370.t01 (Vitis vinifera), 5'ss of exon 3
TAAGTTTGATATGAAGCCCCACGGTGAAAACATTGAAGAGTATGGTAAATTGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgta-----tgtttattatttaattatcccttaatgttt---cttgctttctgtctatgataaataattg--------attatttggttcccttgattcaattggaag-
||| ||||| |||||||| |||  |||||| ||||| |||||||| ||||||||||| || |||||||| |||||||||||||| ||| ||||||| ||||||     | |   ||   |  || ||| ||  |  ||    | || || | | | |   | || |||         ||| |||  |  | || ||| | |   ||  
TAAATTTGACATGAAGCCTCACAATGAAAATATTGAGGAGTATGGCAAATTGTGCCGTGAAAGGACAAATAAATCTATGATTAAGAATAGACAAATTCAGgtagctcatctcacttgcatttttttccttttgttattacattggcattttttttgttgcatatgattataatggtcatttttttttctctttaatttattcaaaaag
















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|19935508|gb|BQ080469.1|BQ080469
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|58023918|gb|CX710659.1|CX710659
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|19935238|gb|BQ080268.1|BQ080268
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|192294408|gb|FG987337.1|FG987337
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|298182572|gb|HO031307.1|HO031307
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GATATCGATAATGATCGGGGAGTTCTAATGAGGCCTATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|208272326|gb|GE065832.1|GE065832
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|19348661|gb|BM893193.1|BM893193
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|151398032|gb|EV267910.1|EV267910
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|298193573|gb|HO040221.1|HO040221
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|213601504|gb|DB970420.1|DB970420
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|209722481|gb|BW668756.1|BW668756
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|23735091|gb|BU765812.1|BU765812
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|58024109|gb|CX710850.1|CX710850
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|298191952|gb|HO036034.1|HO036034
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGG
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGG
EST: gi|7147539|gb|AW509461.1|AW509461
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|19345950|gb|BM890830.1|BM890830
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|192300028|gb|FG991846.1|FG991846
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|209702688|gb|BW675663.1|BW675663
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCAATGCCTGGAATGATT
EST: gi|9564300|gb|BE473809.1|BE473809
EST:     TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAG                         GTTATCGATAATGATCGGNGAGTTCTAATGAAGCCA
genomic: TGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttat ... caattggaagGTTATCGATAATGATCGGGGAGTTCTAATGAGGCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAAGTTTGATATGAAGCCCCACGGTGAAAACATTGAAGAGTATGGTAAATTGTGCCGAGAGAGGACAAACAAATCTATGATTAAAAATCGACAAATACAGgtatgtttattatttaattatcccttaatgtttcttgctttctgtctatgataaataattgattatttggttcccttgattcaattggaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA