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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG

Basic information

species Zea mays
transcript GRMZM5G879882_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g53680.1 (Oryza sativa), 3'ss of exon 8
gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
||||||| ||   ||      || || |       || |||| ||| || ||     ||   || |||||   | | | | |       | |   |||||    |   | | |||| ||  |   | |||||||||||||||| ||||||||||||| |||||||||||| ||||||||||||||| ||||||||||||| || |||||||||||||| ||||||||||
gtaatttatgattacaagcgtttattttt------gcctgcaaagaagcatt----acaactcttttgatactgcacaatttttctattaaagaagtactgattt---tttctgtacattaaaactcagGTTATAGACAAGTCCTTTGGTTTTGATAGTGCTGTAGAAGAGGCCCAGCGTGCCATTGATGCAGCTCATGTTGAGGCTTCAAGTGCTGAGAATGGAATAG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA07G01710.1 (Glycine max), 3'ss of exon 7
gtaatttttggccacttctacttgttctcttttcagcttgca-tagatgct--tttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
       |  ||    |  | |||  |   |     ||| || |||| |||  ||||||| |         || |  ||     |       | ||    ||     | |  || | | ||  |    | ||||||| || ||||||||||||||||| |||||||| ||||| || || || ||||| ||||| ||||||||||||||   |||  |||| ||||| || |
------gtgagcatgcttgaattggacatctgaagccttacaatagaagctactttgctgaa--------aatataaaaaggatttacttttaaactgtcacctaattaaccatgt-tgtacctg-aatcagGTTATTGATAAGTCATTTGGTTTTGACACTGCTGTTGAAGAGGCACAACGAGCCATAAATGCTGCTCATGTGGAAGCAGAAAGCACTGAGAATGGTATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 8
--gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacct-gtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
   |  || ||  | |  ||   || || | | | |      |    ||  | |   |  |       |||  ||  ||       ||  || || |  |  | | | |||| | |   | | | |  ||||||||| ||||| || ||||||||||||||||| || || || || || ||||||||||||||||||||||| ||||||  ||||  ||| ||||| || |
gtatgcttgttcacaatgtcatatttttgtttctccctggaactctaatcttatcattaaaatatatctgaagtgttagttctctatgaggaaacttcatcatgttcggattgtct---tctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGTATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G42990.1 (Glycine max), 3'ss of exon 8
gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctg-catacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatgg-ttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
|||||  |     | || ||    |     | | |   |   || |   || ||||  |||||  |         | || |  ||   | ||   |||    |  | | | |   | | ||| ||  ||||||||| ||||||||| ||||||| || |||||||| ||||| || || || || || ||| | ||||||||||||||   ||| ||||| |||||||| |
gtaatgatgctttagttgtaaaattgtatatgtgaaaattgttatacttttatgctatcatactccaaaggaaaaaggatttgagattaaag---tgtcacctatttaatgtcattctgtatttgaattagGTTATTGACAAGTCAATTGGTTTCGACACTGCTGTTGAAGAGGCACAACGAGCAATCAATTCTGCTCATGTGGAAGCAGAAAGCGCTGAGAATGGAATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G21370.1 (Glycine max), 3'ss of exon 7
gtaatttttggccacttctacttgttctcttttcagcttgca-tagatgct--tttgctgcatacctcttgatttgga-agactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
       |  ||    |  | |||  |         ||| || |||| |||  |||| ||   |  |    |    || | ||| |    |||  ||||         | |  || | | ||  |    | ||||||| || |||||||| |||||||| |||||||| ||||| || || || ||||| ||||| ||||||||||||||   |||  |||| ||||| || |
------gtaagcatgcttgaattggacatccgaagccttacaatagaagctactttgatgagaatgtaaaaacaacgatatacttttaaacagtcaccta------attaaccatgt-tgtacctg-aatcagGTTATCGATAAGTCATTCGGTTTTGACACTGCTGTTGAAGAGGCACAACGAGCCATAAATGCTGCTCATGTGGAAGCAGAAAGCACTGAGAATGGTATCG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G02400.1 (Glycine max), 3'ss of exon 8
gtaatttttggccacttctacttgt-tctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcaga--gacctgtactatgctgattatttgtatatatatggtt-agGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
|||||  |     | || ||    | | | | |  |  ||||    || |||||    |||    || ||   | || |  | | |  ||    |  |||    |  | | | |   | | ||| || || ||||||| ||||| ||| ||||||| || |||||||| ||||| || || || || || ||| | ||||||||||||||   ||| || || |||||||| |
gtaatgatgctttagttgtaaaattgtatatgtggaaattgct---atacttttatgccatcgtactcgaaaggaaaaaaagaatttgagtttaaagtgtcacctatttaatgtcattctgtatttgatttagGTTATTGACAAATCAATTGGTTTCGACACTGCTGTTGAAGAGGCACAACGAGCAATCAATTCTGCTCATGTGGAAGCAGAAAGCGCGGAGAATGGAATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 7
--gtaatttttggccacttc-tacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
   |  || ||  | |  || || || || |   | |      |    ||  | |   |  |   |  ||||  ||   |       || ||| || |    | | | ||||   |   | | | |  ||||||||| ||||| || ||||||||||||||||| || || || || || ||||||||||||||||||||||| ||||||  ||||  ||| ||||| || |
gtatgcttgttcacaatgtcatattttttgttcctccctggaactctaatcttatcattaaaatacatttgaagtgttggttatctatgaagaaacttc--atgttcggattgcct---tctttttctttagGTTATTGACAAATCTTTTGGTTTTGATACTGCGGTTGAGGAGGCTCAACGTGCCATTAATGCAGCTCATGTTGAAGCTGAAAGTATTGAGAATGGCATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT4G32840.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatttttggccacttctac-ttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
          |  | | |||  || |  |  ||  ||  ||||         ||    |    ||| |  | |||     |     |||   | ||  | | || ||||  | | | |         ||||| || |||||||| ||||| ||||||||||| || || || || || ||||| ||||||||||| ||||| |||||  | ||||  ||||| || || |
----------gtaagtcctagattatcattattgtagtctgcactctcaaccttaac-ctcctctcctattctggttagtt----cgcaagaagct-caatttgatgatagtatctctg-----atctagGTCATTGACAAGTCCTTTGGATTTGATACTGCGGTTGAGGAGGCTCAACGTGCTATTAATGCAGCGCATGTTGAAGCGACCAGTGTGGAAAACGGCATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT4G26270.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
                                      |   ||  |  || | |||| |      |   | | |   ||||| | |  |       |   ||   | |     | | ||| ||   |||| |||||||| || ||||| ||||| |||||||||||||| || || || || ||||||||||| |||||||||||    |||   || ||||| || |
-------------------------------------gtatgtatctctttctactgctttgtctcta--tagaagagctgtatttcttatgtggagaaattgagaacttgacttttgtatttgtgcagGTGATAGACAAATCTTTTGGGTTTGACACTGCTGTAGAAGAGGCTCAACGAGCTATTAATGCAGCACATGTGGAAGCCGAGAGTATAGAGAATGGTATCG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 8
-------------------------gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatt-----tgtatatatatggt-tagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
                          | ||| | || |   |    |  | | | |      ||||||||||   |    |  | | |  ||  |||   |   | || ||   |   || |  |  | ||||| ||      |  |||   ||||  ||||||| |||||||| ||||| ||||| |||||||| || || ||||| ||||| ||||||||||| ||||| ||| ||  ||||   || ||| | || |
gtacatctctttgtttccttaattgctgattataggaccggttggatattacacctgatttattgcatagata--taaattcaaaaacaatttttttcctattttttattgaccaattctctttttagttgatttttacctccgactattgctggtacagGTTATTGACAAGTCCTTTGGCTTTGACACTGCTGTTGAGGAGGCCCAACGTGCTATTAATGCAGCACATGTTGAATCTGAAAGTATCGAGAATTGTATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 8
gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
||| || ||| | | | |  ||   |   ||||   |||   |  || ||||| |   | ||||     |     || ||||| ||       ||  ||  |   || |   |   | | |    | ||||||| ||||| || |||||||||||||||||||| |||||||| ||||||||||||||||| || ||||| ||| ||  ||||  ||| ||||| || |
gtacttcttgcctattgcacctgaattaattttgttcttttctccat-ctttttcaataaaccttgcatt-----agcctgtaatgt----gtcttcacctta--gactgcct---tctcttgattcagGTTATTGACAAATCGTTTGGTTTTGATACTGCTGTTGAAGAAGCACAGCGTGCCATTAATGCGGCACATGTTGAATCTGAAAGTATTGAGAATGGTATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: PP1S282_45V6.1 (Physcomitrella patens), 3'ss of exon 8
gtaa-tttttggccacttct---acttgttctcttttcagcttgcatagatgct---tttgctgcatacctcttgatttgga--agactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
|||  ||| || | | | ||      || | |   | || ||  |  |         ||   ||   |  |||| ||| |||  ||||| | |||  || |   | | |         |||||       || |  ||||||||||||| || ||||| |||||||| ||||| |||||||| ||||| || || ||||| || ||||||||||||   |||  | | ||||| || |
gtaggtttctgacaaatccttgagtctgatattcgtgcaactctcgaaagaatcgaattgtatgatcaagtcttaattgggaccagact-ttgtgaggaaagacgaattg--------atttgacctggaattggcagGTTATAGACAAATCGTTTGGGTTTGATACAGCTGTTGAAGAAGCACAGCGCGCAATCAATGCTGCCCATGTGGAAGCTGAGAGTATTCACAATGGCATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: PP1S131_40V6.1 (Physcomitrella patens), 3'ss of exon 8
---------------------------------------------------------------------gtaatttttggccacttctacttgttctcttt-tcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
                                                                      |||| |||||  || | |    |       |  ||| |  |||   |  || ||     |   ||||||  |  |||  ||          |    || | ||  || | |  |||| |        |||| ||||| |||||||| || |||||||| || || |||||||| |||||||| || |||||||||||||||||||||   |||| | | |||||  | |
gtacgtcactgtcttttgatatacacttggtaggattacgtgcggtagaagtaactaagtttcaggaagctaatatttggatacgtgtgtgcgcaaagactaccagatgacatgattaattatgtattgt-tttcttgaagtccaagtgtgccaccgtctaatgcatatt-tgtcgaatgtg-gtatttgaggtaacagGTCATAGATAAGTCATTCGGATTTGATACAGCAGTGGAAGAAGCTCAGCGTGCAATCAATGCAGCTCATGTGGAAGCTGAGAGTGTTCAGAATGGTCTTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: PP1S81_165V6.4 (Physcomitrella patens), 3'ss of exon 9
gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctgcat--acctcttgatttggaagactgtagtgcag---agacctgtactatgctgattatttg-tatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
|||  |||| | |||    | |      |      |  | |   | |  |||   || ||  |  | |     |    || |||||   |    | ||  |  ||     ||  || || |  |  | |||  |||| |||||||| ||||||||||||||||| || || |||||||| |||||||| |||||||| || || |||||||||   |||| | | ||||| || |
gtacgttttagacacggaaattcaacaacacgatggaattctctgtt--tttcaatggattgaattgtgtgggtttctgattgtaggttaagcaacacaagagctgaatggaaaatatggtgcacgtttggc-agGTCATAGACAAATCATTTGGTTTTGATACCGCAGTTGAAGAAGCACAGCGTGCAATTAATGCTGCGCACGTGGAAGCTGAGAGTGTTCATAATGGCATTG

upper sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 8
lower sequence: PP1S327_30V6.1 (Physcomitrella patens), 3'ss of exon 8
--gtaatttttggccacttctacttgttctcttttcagcttgcatagatgctt-ttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
     ||   |   | || ||||    |  |        |  |||   ||||| || |  |||    | ||| ||       ||| | |    ||| ||| || |  ||   |||||| |  ||  |   || | || || ||||| ||||| ||||| |||||||| |||||||| || || || || ||||||||||||||||||||   |||| || | |||||  | |
gtactatacatcatccctactacacagtgacgcgctttttcacatgtgtgcttatttccacatgttgcctgaattcattcg-tgt-gcgttctgacttgttctcttttggg-atttgtttcaat--gaacagATAATTGATAAGTCCTTTGGATTTGACACTGCTGTGGAAGAAGCACAACGAGCAATCAATGCAGCTCATGTGGAAGCAGAAAGTACTCATAATGGTGTTG

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|87153557|gb|DY398346.1|DY398346
EST:     TACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCG                         GTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGT
genomic: TACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCGgtaatttttg ... atatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGT
EST: gi|19351112|gb|BM895644.1|BM895644
EST:     TACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCG                         GTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGT
genomic: TACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCGgtaatttttg ... atatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGT
EST: gi|22491553|gb|BU051476.1|BU051476
EST:     TACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCG                         GTTATAGACAAGTCATTTGGTTTTGATCCTGCTGTAGAAGAAGCCCAGCGT
genomic: TACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCGgtaatttttg ... atatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGT
EST: gi|33942634|gb|CF349234.1|CF349234
EST:     TACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCG                         GTTATAGACAAGTCATTTGGTTTTGATAGTGCTGTAGAAGAAGCCCAGCGT
genomic: TACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCGgtaatttttg ... atatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGT

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), 48 (downstream exon)
Score: 140

GAAATCCGGAGACGTGGTCTACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCGgtaatttttg ... atatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 150

GAAATCCGGAGACGTGGTCTACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCGgtaatttttg ... atatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 180

GAAATCCGGAGACGTGGTCTACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCGgtaatttttg ... atatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 122

GAAATCCGGAGACGTGGTCTACAAGTAGCTGTTGCTGGTATTCCCAAGACTATTGATAATGATATAGCGgtaatttttg ... atatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG
                           tgctgat  putative branch site (score: 122)
                                attatttgtatatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttttggccacttctacttgttctcttttcagcttgcatagatgcttttgctgcatacctcttgatttggaagactgtagtgcagagacctgtactatgctgattatttgtatatatatggttagGTTATAGACAAGTCATTTGGTTTTGATACTGCTGTAGAAGAAGCCCAGCGTGCCATTAATGCAGCTCATGTGGAAGCTTCAAGTGCTGAAAATGGAATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG