Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG

Basic information

species Zea mays
transcript GRMZM2G024315_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g43090.1 (Oryza sativa), 3'ss of exon 4
gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
                  |   |   |   |  |    | || ||  |  |  | |   ||   |  |    | |      |  |||   |  | | ||| || ||||||||||||||||| || ||||| ||| | | ||| |||||||| || || |||||||||| ||||||| ||||||||||||||||| ||
-----------------gtgaattccgcatcgcaggttttactaatgattgattgctc-atgcaagtaaac-tcatcgcaatccatggactccattccagGGAGTTGGGCATTGGAATTGTTCCCTACAGCCCTATCGCCCGCGGGTTTTTCGGAGGGAGAGGAGTGACAGAACAATTGTCTGCTGAATCTAATTTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G40860.1 (Glycine max), 3'ss of exon 4
----gaacaaggtcttaatac-atatgtattgttacaaatacgtaaccaaacaaagcctaccggatatta-------tcatgtattaa---------gattcttta-tgct---gtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
    |  |||| || |   ||   |  | || ||  ||  | | ||   ||    |  ||   | | ||        |  ||| ||||          ||| |||| ||||    | |  ||||| ||| | || ||||||||||||||||| ||||||||||| ||||| |||||||| || | ||||||    ||| | ||| || |  |       |||
gttagttcaagttcatggcactgcagctcttcttgaaaggagggaaaagaaagtggtttagttgttgttggctgtatttttgtgttaatgcgacttcaattttttaatgcttatattggtttcagGGAACTTGGTATTGGAATTGTACCATATAGTCCTCTTGGTCGTGGCTTTTTTGGCGGCAAAGGAGTTGTGGAAAATGTGCCTACAAATAGCTCCCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G27130.1 (Glycine max), 3'ss of exon 5
gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
                     ||    |||  |  |  |||   ||   |   | |  | || |  | | |  |||   | |||||    ||   | ||| ||  | |||||||||||||||||||| || |||||||| || || |||||||                                            
---------------------gttaaattaagagaaattaaattaaattaaaatgcacgttacttac-tttggtaaagctttttat----tga--tacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTG--------------------------------------------

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G40680.1 (Glycine max), 3'ss of exon 4
-gaacaaggtcttaata--catatgtattgttacaaatacgtaa--ccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
  |     || |  |    ||  |   |||||      || ||   |    | | | |   ||   ||  ||||  ||   || | |  | ||     ||||||| ||| | || |||||||| ||||||||||| || ||||||||||| ||||||||||| |  |  ||   ||||    |  ||||  |   |  ||||
ttatttgtgtatacacgaccaagttctttgttttcctgacctagtgcttttccatgtccttcgtgaatcttcattaat---gactttggaagcaac--acttcagGGAACTTGGAATTGGAATAGTACCATACAGCCCCCTTGGCCGTGGATTTTTTGGTGGCAAGGCTGTCGTAGAAAGTATACCTGCAAACAGTTTTCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G40860.4 (Glycine max), 3'ss of exon 4
----gaacaaggtcttaatac-atatgtattgttacaaatacgtaaccaaacaaagcctaccggatatta-------tcatgtattaa---------gattcttta-tgct---gtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG---
    |  |||| || |   ||   |  | || ||  ||  | | ||   ||    |  ||   | | ||        |  ||| ||||          ||| |||| ||||    | |  ||||| ||| | || ||||||||||||||||| ||||||||||| ||||| |||||||| || | ||||||    ||| | ||| || |  |       |||   
gttagttcaagttcatggcactgcagctcttcttgaaaggagggaaaagaaagtggtttagttgttgttggctgtatttttgtgttaatgcgacttcaattttttaatgcttatattggtttcagGGAACTTGGTATTGGAATTGTACCATATAGTCCTCTTGGTCGTGGCTTTTTTGGCGGCAAAGGAGTTGTGGAAAATGTGCCTACAAATAGCTCCCTGGTA

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G43360.1 (Glycine max), 3'ss of exon 4
---gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctac-cggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
    | ||  | ||  ||    |   |   | |   |   | ||  ||| |||    |   | |  |||     | |    |  |||| |  ||     | ||| ||  | |||||||||||||||||||| || |||||||| || || ||||||||||| | ||||||    |||   |||||  | |        |||
tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattga----tacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G40880.4 (Glycine max), 3'ss of exon 5
gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttat-gctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
                             | ||||  || | | |   |    |     || || | |||   | |  || || |  ||| |       |||||  | |||||||||||||||||||| || |||||||| || || ||||||||||| | ||||||    ||| |  || ||||     |    |||
-----------------------------aaaaattggttagcta--gattttttgtttatgttttaatgagatcactttgttaaaagcttttattgatagagagcttggcattggaattgtaccatatagCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAAATATGCCTGCAAGTACAGTCCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G30360.1 (Glycine max), 3'ss of exon 4
gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattcttta-tgctgtggactt---cagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
         || |  |  | ||| |  || |         |||   | |   |      | ||  |||   | |||  ||  | |  | ||   ||||   ||| ||| | || |||||||| ||||||| |||||| ||||||||||| ||||||||||| |  || || | ||||    |  |||| ||   | |||||
----tgtagctcagcaagtttgtttcattcctttcttcctacctgtccatatccttaataaatcttcactaaataattttggtgaacggtgacaacttttacagGGAACTTGGAATTGGAATAGTACCATTCAGTCCCCTTGGCCGTGGATTTTTTGGTGGTAAGGGGGTCATAGAAAGTATACCTGCAGACAGTTATCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G40880.3 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------------------gaacaaggtcttaatacatatgtattgt---tacaaatacgtaaccaaacaaa---gcctaccggatattat---catgtattaa--gattctttatgctgtggacttc-------agAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
                                                                                         |  | |  || ||| |  |    || ||| |    || ||| |||   |    |  ||| || |    |||| ||||     ||  | || |     |||        |||||  | |||||||||||||||||||| || |||||||| || || ||||||||||| | ||||||    ||| |  || ||||     |    |||
gtcagttcaacttccccaaattcatagtaatgtacagctctcataactattttttcactaataaataaataatttgaatttctgtttaattatgagccacatgaaaagagggtagaaaaataagactaaaaaaattggttagctagattttttgtttatgttttaatgagatcactttgttaaaagcttttattgatagAGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAAATATGCCTGCAAGTACAGTCCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0030g01980.t01 (Vitis vinifera), 3'ss of exon 4
-gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttc--agAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
 || |    || | |||  | || | |  |   |||  ||      ||  |   |     || || | |  ||| |      |||||  |||    ||   |||||| | || ||||| || || ||||||||||||||||| |||||||||||||| || |  |  ||  | ||| | | | ||||  |  ||   |||
agaccttaatccttata-gtctgcagttatctcaatttgtctttttacttaattt--tatatgtttttaactatgagagaattttattttgtatgttttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGCGGCAAGGTTGTTGATGAAAATGCGCCTGCAAACACTTTCCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0030g01990.t01 (Vitis vinifera), 3'ss of exon 4
-gaacaaggtcttaatacatatgtattg--ttacaaatacgtaaccaaacaaagcct----accggatatt--atcatgtattaagattct--ttatgctgtggactt-------cagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
    |    |    || | ||   ||||  || | |  |   |||     | ||       |   |||  |  ||| |  ||  ||    |  |||  ||  |||  |        || ||| | || ||||| || || |||||||||||||| ||||| |||||||||||||| |  |  |     ||| |  || ||||  |   |  ||||
gtttcgtatttcctatccttaacgattgattttctatcataaaacattctatagttcttgcattagatccttaatccttaatggaggacttggttacacttgggatatatttttatagGGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTCGGCCGCGGGTTTTTTGGTGGCAAGGCTGCAGGGGAAAATTTGCCTGCAAACAGTTTTCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0030g02020.t01 (Vitis vinifera), 3'ss of exon 4
-gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttc--agAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
 || |    || | |||  | || | |  |   |||  ||      ||  |   |     || || | |  ||| |      |||||  |||    ||   |||||| | || ||||| || || ||||||||||||||||| ||||||||||||||||| |  |  ||  | ||| | | | ||||  |  ||   |||
agaccttaatccttata-gtctgcagttatctcaatttgtctttttacttaattt--tatatgtttttaactatgagagaattttattttgtatgttttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGTTGTTGATGAAAATGCGCCTGCAAACACTTTCCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0030g01970.t01 (Vitis vinifera), 3'ss of exon 4
gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagccta---ccggatattatcatgtattaagattctttatgctgtggacttc--agAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
     |  | |   | | | ||   | || |  ||  ||            |  |       || || | |  ||| |      | ||| ||||    ||   |||||| | || ||||| || || ||||||||||||||||| ||||||||||||||||| |  |  ||  | ||| | ||  ||||  |   |   |||
-----atttatcttttcctctgctgtatttccgatttgtcttttcttttcactcaattttatatgtttttaactatgagagacttatattctgtatgttttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGCTGTTGATGAAAATGTTCCTGCAAACAGTTTCCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0030g02050.t01 (Vitis vinifera), 3'ss of exon 4
gaacaaggtcttaatacatatgtattgttacaaatacgtaac-caaacaaagcctaccggatat-tatcatgtatt-aagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
   | || | |    |  | | | ||  || || | |  |       |      ||    || | | | |  |||  |||||   ||  | | ||   |  || ||| | || ||||| || || ||||||||||||||||| ||||||||||||||||| |  |  || |  ||| | ||| ||||  |   |   |||
--tccagctgtctgcatctgtct-ttactataatttcaaattgttctctgtttttattcaatctcttttaactatagaagatgtctttgggtatgttttatagGGAACTTGGGATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGCTGTTAGTGAAAATGTGCCTGCAAACAGTTTGCTG

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
---gaacaaggtcttaatacatat---gtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
   ||  |    ||| |||| | |   |||| | ||||| |   |  |         | ||      | ||| |  |  |    |  |||||  |      | ||| ||  | ||||||||||| || |||||| |||||||||| ||||| ||||||||||| || |||||    |||    || ||||  | |        
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctct----cttaattataaatatgacatgctgttttcatttat--ttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG------

upper sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0030g02060.t01 (Vitis vinifera), 3'ss of exon 4
-------------------gaacaa--ggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatatt--atcatgtattaagattc-tttatgctgtggactt-cagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
                    ||| |  | | ||    ||||     |  || |  |     |  | |       | |   ||  |  ||   | | |  | | |  ||  | | |    ||  || ||| | || ||||| || || |||||||||||||| ||||| |||||||||||||| |  |  |     ||| |  || ||||  |   |  ||||
gtttcatatttcctatccttaacgattgattttctatcataaaacattctatagttcttgcattagatccttaatccttaatccttaatggaggactcggttacacttgggatatatttttatagGGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTCGGCCGCGGGTTTTTTGGTGGCAAGGCTGCAGGGGAAAATTTGCCTGCAAACAGTTTTCTG

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|71773863|gb|DR971754.1|DR971754
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGNNNNN
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|14244154|gb|BG842002.2|BG842002
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         ATAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|91878930|gb|EB408887.1|EB408887
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|93011652|gb|EB637172.1|EB637172
EST:     GCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: GCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|76014741|gb|DT941911.1|DT941911
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|78090110|gb|DV518484.1|DV518484
EST:     CCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: CCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|71327902|gb|DR800585.1|DR800585
EST:     AAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: AAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|148966879|gb|EE017999.2|EE017999
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|148929206|gb|EC874773.2|EC874773
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|71438898|gb|DR819948.1|DR819948
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|60399433|gb|DN232245.1|DN232245
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|211508458|gb|FL138869.1|FL138869
EST:     AAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGTCGTGGGTTTTT
genomic: AAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|211043426|gb|FL323571.1|FL323571
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAAT-GGGCATTGGAATTGTAC-ATACAGTCCTCTTGGTCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|71430218|gb|DR811268.1|DR811268
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|71438372|gb|DR819422.1|DR819422
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|211482867|gb|FL313329.1|FL313329
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCT-GGNCCGTGGGTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGG-CCGTGGGTTTT
EST: gi|71327903|gb|DR800586.1|DR800586
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGGCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|149014830|gb|EE044532.2|EE044532
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|149014829|gb|EE044531.2|EE044531
EST:     ATTGTG-CGCTCTGCAG                         AGAATGGGGCATTGGAATTGTCCCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: ATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|148931634|gb|EC874774.2|EC874774
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|14204195|gb|BG837872.1|BG837872
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
EST: gi|78090111|gb|DV518485.1|DV518485
EST:     TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAG                         AGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT
genomic: TGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTT

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: 46 (upstream exon), 48 (downstream exon)
Score: 24

CCATCAGGCGTGCACATGCTGTGCACCCGATCACCGCGGTGCAGATGGAGTGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 246

CCATCAGGCGTGCACATGCTGTGCACCCGATCACCGCGGTGCAGATGGAGTGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 210

CCATCAGGCGTGCACATGCTGTGCACCCGATCACCGCGGTGCAGATGGAGTGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG


Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 49

CCATCAGGCGTGCACATGCTGTGCACCCGATCACCGCGGTGCAGATGGAGTGGTCTCTCTGGTCTCGCGACATTGAGCCCGAAATTGTGCCGCTCTGCAGgtgattcatg ... tggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaagcctaccggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
              atattatcatgtatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
gaacaag
- - - - - - - - -atatgta
- - - - - - - - - - - - - - - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtat