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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaatctcgcttctgctttatttctctttctgagtttgaatagagaggtgaagtagtagtattatgatcagaacattaaatcctttaaccagag...

Basic information

species Glycine max
transcript GLYMA14G02180.4
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G02180.4 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os06g20370.1 (Oryza sativa), 5'ss of exon 7
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtact-taaaatctcgcttctgct-----------ttatttctctttctgagtt-tgaatagagaggtgaagtagtagtattatgatca-gaacattaaatcctttaaccagag-----------
|||||| ||||||||  | ||   |||||| ||||| ||||| ||||| | ||||||||| || ||||| ||||| || ||||||||||| ||||||||||||   | | || | | |   ||            |||  ||| ||  |   |  ||| |  || | |        | |||| || |    || |    ||| |  |   | |            
AGCAAAGGAAGAAGCATTGAGTAGAAAAGAAATATTAGACAAAGTTGAAAGATGGATGTCTGCTTGTGAAGAAGAAAGCTGGCTTGAAGATTATAACCGGgtaagatgatattttgttgtagcaaatcaaaagtattacatcttttattctttcatgatttaagtgatattaccaaattattctgtttttaaatagcctatcatgaattgaaaatccttctgcag

upper sequence: GLYMA14G02180.4 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os06g40840.1 (Oryza sativa), 5'ss of exon 7
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaatctcgcttctgctttatttctctttctgagtttgaatagagaggtgaagtagtagtattatgatcagaacattaa-atcctt-taaccagag
|||||||||||| ||  |||||  ||| || ||  |||| |||||||| |  |||||||||||||| || |||||||| |||||||||||||||| || |||| | ||||    |  |    | | |  ||  |||   ||||||    |         ||  |||  ||  |||   ||||| | || ||  |||    ||
AGCAAAAGAAGAGGCACTAAGCAGAAAGGACATTCTGGAGAAGGTTGAAAGGTGGATGTCAGCATGCGAAGAAGAGAGCTGGCTTGAAGACTATAGCCAGgtaataaaaa----gtatacagtatgtaacttcttcattgtttgatctcat--------taacagtcatac-atctttacattgatattctgataatggcag

upper sequence: GLYMA14G02180.4 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G101874_T01 (Zea mays), 5'ss of exon 8
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaatctcgcttctgct-----ttatttctctttctgagtt---tgaatagagaggtga-agtagtagtattatgatcagaacattaaatcctttaaccagag--------------------
|||||| ||||||||  | ||   |||||| ||  | || || || || | ||||||||| || ||||| |||||||| ||||||||||| ||||||||||||    ||   | | ||| ||        ||| ||  || ||  |    |||  |     | || | ||  |     ||| |           | | |||||||| |                     
AGCAAAGGAAGAAGCATTGAGTAGAAAAGACATCCTTGATAAAGTAGAAAGATGGATGTCTGCGTGTGAAGAAGAGAGCTGGCTTGAAGATTATAACCGGgtatgacaataattggttcggcaagtcaaaattactgcttatgtatcctgtgatcatttgtgcgataataccaaagccatgctggctgtgcagcagcttttaaccacaaaattaaaataccttctgcag

upper sequence: GLYMA14G02180.4 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G112337_T04 (Zea mays), 5'ss of exon 7
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaa---aatctcgcttctgctttatttctctttctgagtttgaatagagaggtgaagtagtagta-ttatgatcagaacattaaatccttta-accagag---------------------------------------------------------------
|||||| || ||  |  |||||  ||| || |||||||| | |||||| |  ||||||||||||||||| ||||| || |||||||||||||| | |||||||        | ||    || || ||| | |||| |      |   ||     |  | |  |  | | | || |    |   |||||  |  | || ||  |                                                                 
AGCAAATGAGGAGTCCTTAAGCAGAAAGGACATATTGGAGAGGGTTGATAGGTGGATGTCAGCATGTGAAGAAGAAAGCTGGCTTGAAGACTACAGCCGGgtatgctgcttattcatttttgtgatttgtgtctcatggaagatgccaagccgtactttagctcctggcaattcttgaaattgcattattttttatatacttgctgttgtcttcacttcgtgtcctatcacaaggttctgacgtctatgctatcttaattaaccgcag

upper sequence: GLYMA14G02180.4 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G465169_T01 (Zea mays), 5'ss of exon 7
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaatctcgcttctgct--ttatttctctttctgagt-----ttgaatagagaggtgaagtagtagtattatg-atcagaacattaaat--cctttaaccagag--------------------
|||||| ||||||||  | ||   |||||||||  | || || || || | ||||||||| || ||||| ||||| || ||||||||||| ||||||||||||    ||   | | ||| ||   | |    |  | |||  |      || |   |    ||   || ||  |      | | |    |  | |  | |||||||| |                     
AGCAAAGGAAGAAGCATTGAGTAGAAAAGATATCCTTGATAAAGTAGAAAGATGGATGTCTGCGTGTGAAGAAGAAAGCTGGCTTGAAGATTATAACCGGgtatggcaataattggttcggcaagtcaaagttactgctgcatgtatcctgtaaccatttatgcgataataccaacgcatagctggctgtggagtagcttttaaccacaaaactaaaataccttctgcag

upper sequence: GLYMA14G02180.4 (Glycine max), 5'ss of exon 7
lower sequence: AT5G55230.2 (Arabidopsis thaliana), 5'ss of exon 6
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaatctcgcttctgctttatttctctttctgagtttgaatagagaggtgaagtagtagtatta---tgatcagaacattaaatcctttaaccagag
 || || ||||||||  | ||   ||||||||||||||||   || ||||||||||||||||| ||||| |||||||| ||||| |||||||| || |||||| |  | |  |    || |             |      |   | |   |  | || | | |   | |   |  |||     ||   | ||   | |||  
GGCTAAGGAAGAAGCATTTAGTAGAAAAGATATATTGGACCGAGTCGAGAAATGGATGTCAGCTTGTGAGGAAGAGAGCTGGCTAGAAGACTACAATCGGgtaatgcataatttctctcagtcactcactatgatacatcataagacattaactttaaattggatcttgagctttttcatggttttgttttctgagagcag--

upper sequence: GLYMA14G02180.4 (Glycine max), 5'ss of exon 7
lower sequence: AT4G26760.1 (Arabidopsis thaliana), 5'ss of exon 7
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaatctcgcttctgctttatttctctttctgagtttgaatagagaggtgaagtagtagtattatgatcagaacattaaatcctttaaccagag
 || || || |||||  | ||   |||||| || || |||   || ||||||||||||||||| ||||| |||||||| ||||| ||||| || || || |||    ||   | |||       ||      || || |  || |  | |||| | || |  |  |  |    |  |    ||   | ||  ||  | ||
GGCCAAGGAGGAAGCCTTTAGTAGAAAAGAAATTTTAGACCGTGTAGAGAAATGGATGTCAGCTTGTGAGGAAGAGAGCTGGCTCGAAGATTACAATCGAgtatgctaacattggctatgttaataaacacattactta--ttaagcatagagttcaattgatgattct----tttgggt-ttttgttctggaaaaacag

upper sequence: GLYMA14G02180.4 (Glycine max), 5'ss of exon 7
lower sequence: Vv19s0090g01230.t01 (Vitis vinifera), 5'ss of exon 6
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaatctcgcttctgctttatttctctttctgagtttgaatagagaggtgaagtagtagtattatgatcagaacattaaatcctttaaccagag--
|||||| ||||| ||| | |||  ||| |||||||| |||||||||||||||||||||||||| ||||| ||||||||||||||||||||||| || ||||||       |||| ||    ||     || ||  |||  || |  |   ||   ||   |     |||| ||   |  ||||    |  |   | |     
AGCAAAGGAAGAGGCTTTCAGCAGAAAGGATATATTAGACAAGGTTGAGAAATGGATGTCAGCTTGTGAAGAAGAGAGTTGGCTTGAAGACTACAATCGGgtatcctctctctctctctctctccccctccctccctggattcgt-tgtggattagatccaccttgattaggaat-gctcatttgtgctctctgcaatgttg

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|193598481|gb|FK554577.1|FK554577
EST:     AATGGATGTCAGCATGTGAAGAAGAGAGTTGGCTTGAAGACTATAACCGG                         GATGAGAACAGGTATAATGCAAG
genomic: AATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaa ... tgtaaaacagGATGAGAACAGGTATAATGCAAG
EST: gi|38193636|gb|CF922842.1|CF922842
EST:     AATGGATGTCAGCATGTGAAGAAGAGAGTTGGCTTGAAGACTATAACCGG                         GATGAGAACAGGTATAATGCAAGCAGAGGTGCGCACATAAACCTCAAACGT
genomic: AATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaa ... tgtaaaacagGATGAGAACAGGTATAATGCAAGCAGAGGTGCACACATAAACCTCAAACGT
EST: gi|192314484|gb|FK008426.1|FK008426
EST:     AATGGATGTCAGCATGTGAAGAAGAGAGTTGGCTTGAAGACTATAACCGG                         GATGAGAACAG-TATAATGCAAGCAGAG-TGCACACATAAACCTCAAACGT
genomic: AATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaa ... tgtaaaacagGATGAGAACAGGTATAATGCAAGCAGAGGTGCACACATAAACCTCAAACGT
EST: gi|9258416|gb|BE346563.1|BE346563
EST:     AATGGATGTCAGCATGTGAAGAAGAGAGTTGGCTTGAAGACTATAACCGG                         GATGAGAACAGGTATAATGCAAGCAGAGGTGCACACATAAACCTCAAACGT
genomic: AATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaa ... tgtaaaacagGATGAGAACAGGTATAATGCAAGCAGAGGTGCACACATAAACCTCAAACGT
EST: gi|192314483|gb|FK008425.1|FK008425
EST:     AATGGATGTCAGCATGTGAAGAAGAGAGTTGGCTTGA-GACTATAACCGG                         GATGAGAACAG-TATAATGCAAGCAGAG-TGCACACATAAACCTCAAACGT
genomic: AATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaa ... tgtaaaacagGATGAGAACAGGTATAATGCAAGCAGAGGTGCACACATAAACCTCAAACGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCAAAAGAAGAAGCTGTAAGCCAAAAAGATATATTGGACAAGGTTGAGAAATGGATGTCAGCATGTGATGAAGAGAGTTGGCTTGAAGACTATAACCGGgtacttaaaatctcgcttctgctttatttctctttctgagtttgaatagagaggtgaagtagtagtattatgatcagaacattaaatcctttaaccagag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA