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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagaatctctagttatggaatgttatttctgaatccgcagttcacatcatgttcagtcaagtactagcactgacggttgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG

Basic information

species Zea mays
transcript GRMZM2G163473_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G163473_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g06474.1 (Oryza sativa), 3'ss of exon 1
--cagaatctctagttatggaatgttatttctgaatccgcagttcacatcatgttcagtcaagtactagcactgacggttgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG
    |  ||| ||| | |||| |   ||   || |    | |  ||  | |  | |   || ||||| |||||||| || |  || | | |||  | |||||||||||||||||||  ||||||| ||||||||||||||| |  ||||||| ||||||||||| |||||||||
tttggtctctttagctttggacttacatgggtgcagtttctgaacaatttacctactacca-gtactggcactgacagtcgtctc-tgtctgaactttgcagAAAGCACTTGCAGGATTGAGAAGGATCAATTTAGATGGGTTGAGATGGCGTGTATTTGATGCAAAGGGTCAG

upper sequence: GRMZM2G163473_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g15370.1 (Oryza sativa), 3'ss of exon 1
cagaatctctagttatgg-aatgttatttctgaatccgca-gttcacatcatgttca-gtcaagtactagcactgacggttgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG
   | | |  | ||     |||   |||| ||||   | | |  |   ||   | || || ||| || |||||||||  ||   || |||  ||  |||||||||||||||||||||| ||||||||||||||||||||||  |  ||||||| |||||||| || ||||| |||
-ttagtttggaattgcattaatacaatttttgaacgtgaatgcactagtctactacatgtgaagcaccagcactgacacttctatcattt--gaactgtgcagAAAGCACTTGCAGGTTTGAGAAGAATCAATTTAGATGGATTGAGATGGCGTGTATTTGACGCAAAGGGCCAG

upper sequence: GRMZM2G163473_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g15360.3 (Oryza sativa), 3'ss of exon 1
cagaatctctagttatggaatgttatttctga-atccgcagttcacatcatgttcagtc--aagtactagcactgacggttgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG
               ||||||   |||  | | ||       |  || | |  | | |   ||||||| | |||||  ||    |  | |||||  || ||| |||||||||||||   ||||||||||||||||||||||  |  ||||| | |||||||| || ||||| |||
--------------ttggaattacattaataagatttttgagtttcaacctactaaatttgaagtactggtactgatagtg--ctgttgtttgaactgagcaaaaagcacttgcagACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAG

upper sequence: GRMZM2G163473_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g15360.2 (Oryza sativa), 3'ss of exon 1
cagaatctctagttatggaatgttatttctga-atccgcagttcacatcatgttcagtc--aagtactagcactgacggttgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG
     |||||   | ||||||   |||  | | ||       |  || | |  | | |   ||||||| | |||||  ||    |  | |||||  || ||| |||||||||||||   ||||||||||||||||||||||  |  ||||| | |||||||| || ||||| |||
-----tctcttagtttggaattacattaataagatttttgagtttcaacctactaaatttgaagtactggtactgatagtg--ctgttgtttgaactgagcaaaaagCACTTGCAGACTTGAGAAGAATCAATTTAGATGGTTTGAGATGGTGTGTATTTGACGCAAAGGGCCAG

upper sequence: GRMZM2G163473_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv14s0171g00250.t01 (Vitis vinifera), 3'ss of exon 1
cagaatctctagttatggaatgttatttctgaatccgcagttcacatcatgttcagtcaagtact--agcactgacggt-tgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG
  |  | | | |  ||        | |||| ||     | ||  | | || || | | |  | ||    || | |  |  |||  ||||     |   |||||||||||||||| || |||||| |||||||||| || ||  | |||||||| ||||||||||| || || |||
-gggttatttggagatcatgaaaaaattctaaagtttta-tttgcctaat-ttgatttagatgctctgtcagtaatagaatgcacccttaaatcttcatgcagAAAGCACTTGCTGGCCTGAGACGAATCAATTTGGAAGGTTTGCGATGGCGAGTATTTGATGCCAAAGGCCAG

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|211065317|gb|FL151272.1|FL151272
EST:     GCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTARATGGGCTTCGATGGCGC
genomic: GCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068078|gb|FL151284.1|FL151284
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211498775|gb|FL140826.1|FL140826
EST:     CGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|148938736|gb|EC883069.2|EC883069
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|76015937|gb|DT943107.1|DT943107
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211284264|gb|FL053254.1|FL053254
EST:     ATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: ATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068072|gb|FL151278.1|FL151278
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068080|gb|FL151286.1|FL151286
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068074|gb|FL151280.1|FL151280
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|37361133|gb|CF602422.1|CF602422
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|19822368|gb|BQ048392.1|BQ048392
EST:     ATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: ATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211065321|gb|FL151276.1|FL151276
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|148999745|gb|EE036748.2|EE036748
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|5398715|gb|AI812180.1|AI812180
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068083|gb|FL151289.1|FL151289
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|9731724|gb|BE510476.1|BE510476
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|87156387|gb|DY401176.1|DY401176
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211065316|gb|FL151271.1|FL151271
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|149071926|gb|EE160312.2|EE160312
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|148973081|gb|EE024144.2|EE024144
EST:     GGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: GGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|19770416|gb|BQ035137.1|BQ035137
EST:     CCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068084|gb|FL151290.1|FL151290
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|149083441|gb|EE172763.2|EE172763
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|32907178|gb|CF011991.1|CF011991
EST:     TCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068076|gb|FL151282.1|FL151282
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211065322|gb|FL151277.1|FL151277
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068086|gb|FL151292.1|FL151292
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068085|gb|FL151291.1|FL151291
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|22713642|gb|BU197415.1|BU197415
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|26559331|gb|CA831566.1|CA831566
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211070812|gb|FL151294.1|FL151294
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211070811|gb|FL151293.1|FL151293
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|148973082|gb|EE024145.2|EE024145
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|74237945|gb|DT645859.1|DT645859
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|32858018|gb|CD997699.1|CD997699
EST:     TCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068073|gb|FL151279.1|FL151279
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|78118041|gb|DV536428.1|DV536428
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068075|gb|FL151281.1|FL151281
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|149077054|gb|EE165710.2|EE165710
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211065315|gb|FL151270.1|FL151270
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|56382613|gb|CV985282.1|CV985282
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|76928535|gb|DV171658.1|DV171658
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|211068079|gb|FL151285.1|FL151285
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCVATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
EST: gi|78105659|gb|DV524077.1|DV524077
EST:     CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAG                         AAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC
genomic: CCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 280

CCCTTGCTCGCCCGCATCTCTCTAACCGCCGGCGCCGGCGCCGGCGCCGGCCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 193

CCCTTGCTCGCCCGCATCTCTCTAACCGCCGGCGCCGGCGCCGGCGCCGGCCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 206

CCCTTGCTCGCCCGCATCTCTCTAACCGCCGGCGCCGGCGCCGGCGCCGGCCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 115

CCCTTGCTCGCCCGCATCTCTCTAACCGCCGGCGCCGGCGCCGGCGCCGGCCATCGTTCACATGGCTGCGATGCCACCGGCCTTCACGGGCAACCTGAAGgtgagtgctt ... atatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatgttcagtcaagtactagcactgacggttgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG
                                       tttttgatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagaatctctagttatggaatgttatttctgaatccgcagttcacatcatgttcagtcaagtactagcactgacggttgcttcctttttgatatgtgcagAAAGCACTTGCAGGTCTGAGAAGAATCAATTTAGATGGGCTTCGATGGCGCGTATTTGATGCTAAGGGTCAG

- - - - - - - - - - - - - - ctgaatc
- - - - - - - - - - - - - - - - - - - - - - - -catgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcactga