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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt...

Basic information

species Zea mays
transcript GRMZM2G110983_T03
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g08960.2 (Oryza sativa), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtaca----accatacaagaaatcttttatttcttacaagagattat--tgttt-ttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt
||||||||||||| ||||||||||||||||| || || || |||||||| || ||||||||||||||||| |||||||| || ||||||||| |     || |    |      ||    | | |  |     | |  ||||| || ||| |||| |   |  || || | || |     | |   | ||||    
TTTATGCTGATGGGAGCATATGCTTAGATATACTACAAAACCAGTGGAGCCCCATATATGATGTAGCTGCTATACTCACATCCATCCAGgtagatgatgccttttttgggggtattagcatgtcatgatgtcctgtcatgtttgttgcaatattt-tgtatcatgtttataattcgt--gcttctgattttg----

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G40860.1 (Glycine max), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgta-caaccatacaagaaatcttttatttcttacaagagattattgtttttccaaca-----tttgtaac-ttttgcttgttatacagtaacattcaactttgcagt
||||||| ||||| || |||||||| || ||  | || ||||||||||| || ||||||||||||||||| || || || ||||||||||||      || ||   ||| ||| |    |      |||  ||  || | | || |     ||| |    || ||       |  | ||| || ||| |       
TTTATGCGGATGGCAGTATATGCTTGGACATTTTACAAAATCAGTGGAGCCCTATATATGATGTAGCTGCAATTCTTACCTCAATCCAGgtaattgtgattcacttaatatttcagaattgcattaagaccatacttatgctaaaaatgattttattgtattctgtccacagtttattaaaatacaatt-------

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA18G16160.1 (Glycine max), 5'ss of exon 6
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgta-caaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt
||||||| ||||| || |||||||| || ||  | |||||||||||||| || || ||||| |||||||| || || || ||||||||||||      || ||   ||| ||| |    |      |||  ||  || | | || | |  |     |||  |  | ||||  |    |  |   | |  |
TTTATGCGGATGGCAGTATATGCTTGGACATTTTACAGAATCAGTGGAGCCCTATTTATGACGTAGCTGCAATTCTTACCTCAATCCAGgtaattgtgattcacttaatatttcagaattgcattaagaccatacttatgctaaaaatgatt-tgattgtatcctgtacataatttatttaaaatactat

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA02G02400.1 (Glycine max), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgt-acaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt--
||||||| |||||||||||||| || || ||  | || ||||| ||||| ||||| |||||||| || |||||||| || ||||| ||||| | |   || |   | ||  |||  |  |  |   ||| ||||  | |    ||   | | | | |  |   |   | | |    |  | ||||    |  
TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGCCCGATTTATGATGTTGCGGCGATACTTACCTCAATTCAGgtcatagtgattctctatat--tttggtattgccttaagactattaatgtgaacactaatttgattgtatcccatcccaaaatc-tgtgtacctttcttttga

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA05G01270.1 (Glycine max), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaaga---aatcttttatttcttacaagagattattgtttttccaacat-ttgtaacttttgcttgttatacagtaacattcaactttgcagt-
||||||| |||||||| || || || |||||  | || || ||||||||||| ||||||||||||||||| |||||||| || |||||||||  | | |  |      | ||    |||    | |     | |||  || |  |  || ||  || |   | | || || ||    |||  |  ||| ||   
TTTATGCGGATGGAAGTATTTGTTTGGATATATTACAAAACCAGTGGAGTCCTATATATGATGTAGCTGCTATACTCACTTCTATCCAGgtattatcttgtatagtatagtcaacaattctacatatcttttcattccttctttagtatattacaaatgaagatagt-atgca----catatatttttacataa

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA06G20310.1 (Glycine max), 5'ss of exon 4
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt---
|||||||||||||||| || || || |||||  | || |||||||||||||| || |||||||| ||||| |||||||| || |||||||||  | |    |    || || ||| | ||||||  ||     |     |  | |||| ||  |  |      ||| |  ||  |||    |||||  |   
TTTATGCTGATGGAAGTATTTGTTTGGATATATTACAAAATCAGTGGAGTCCTATTTATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtatttcat-ttgtatattttacaaatgaaccaagcaag-cagatatttttacatcattaaatctatccc-tagaatttccatttgctttcaa

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA18G16160.3 (Glycine max), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgta-caaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatt--tgtaacttttgcttgttatacagtaacattcaactttgcagt
 |||||| ||||| || |||||||| || ||  | |||||||||||||| || || ||||| |||||||| || || || ||||||||||||      || ||   ||| ||| |    |      |||  ||  || | | || | |  | | | | |  | ||| | | | |   ||| ||  |   | |
-TTATGCGGATGGCAGTATATGCTTGGACATTTTACAGAATCAGTGGAGCCCTATTTATGACGTAGCTGCAATTCTTACCTCAATCCAGGtaattgtgattcacttaatatttcagaattgcattaagaccatacttatgctaaaaatgatttgattgtatcctgt-acataatt-tatttaaaatactatt

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA17G10640.2 (Glycine max), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgt-tatacagtaacat--tcaactttgcagt
||||||| |||||||| || || || |||||  | || || ||||||||||| ||||||||||||||||| |||||||| || |||||||||  | | |  |    ||  | ||    |  | | |  | ||  ||  |  |  |    | |   | || ||   ||| |   ||||  | |||| | ||  
TTTATGCGGATGGAAGTATTTGTTTGGATATATTACAAAACCAGTGGAGTCCTATATATGATGTAGCTGCTATACTCACTTCTATCCAGgtattatcttgtatagtatagtctacaatt--ctacatttcatctttagtatattacaaatgaagatagcatgcacatatatctacataattaactctacac-

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G34170.2 (Glycine max), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt--
|||||||||||||||| || || || ||||| || || |||||||||||||| ||||||||||| ||||| |||||||| || |||||||||  | |    |    || || ||| | ||||||  ||   |       |  | ||||   || |       |    || ||| |||    ||| |  |  
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttat-ttgtatattttacaaatgaac-taagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA01G05080.1 (Glycine max), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgt-acaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt--
||||||| |||||||||||||| || || ||  | || ||||| ||||||||||| |||||||| ||||| ||||| || ||||| ||||| |||   || |   | || ||    ||  |  ||||   ||||  | ||   ||   | | | | |  |   |   | | |    |  | ||||    |  
TTTATGCAGATGGAAGCATATGTTTGGACATTTTACAAAATCAATGGAGTCCGATTTATGATGTTGCTGCAATACTTACCTCAATTCAGgtcacagtgattctctatattttggcattgctttaaga--ctattaatgttaacactaatttgattgtatcccatcccaaaatc-tgtgtacctttcttttga

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: AT5G62540.1 (Arabidopsis thaliana), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatt-tgtaacttttgcttg--ttatacagtaacattcaactttgcagt
||||||||||||||||||| ||||| |||||| |||| || |||||||| || || || || || |||||  | ||||| ||||| |||||     | |      |||  || ||||                || | |    |||| || |  || ||| ||   || ||    || ||    ||| ||| 
TTTATGCTGATGGAAGCATTTGCTTGGATATCTTGCAAAACCAGTGGAGCCCCATCTACGACGTTGCTGCAGTTCTCACATCAATTCAGgttttgacttctg---aattcttcattt----------------gtatcttttgcattgtggaggttatgcatgaactaaaccaagaccttttgttttacag-

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: Vv01s0026g01770.t01 (Vitis vinifera), 5'ss of exon 6
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt-
||||||| ||||||||||| |||||||| || || || |||||||||||||| || |||||||||||||| ||||| || || |||||||||     |||     |   | || |||       |     | ||        | ||||  ||| |       |  |    | || |     |||||  | 
TTTATGCGGATGGAAGCATTTGCTTAGACATTCTACAAAATCAGTGGAGTCCAATTTATGATGTAGCTGCCATACTTACATCCATCCAGgtattgg-atatgttcatattattgtttggatgttgcatcaactgagaacatgatatttaaaacatgaaagaatgctgatttgacctatgtttttgccttt

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: Vv17s0000g05820.t01 (Vitis vinifera), 5'ss of exon 5
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgttttt--ccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt-
| ||||| |||||||| || ||  | ||||| || || |||||||||||||| |||||||||||||| || ||||| ||||| || ||||||    || | |   ||| | |||| |     | |     |||||||||    |||| |||||       |||    ||||  || ||   ||  | ||   
TCTATGCAGATGGAAGTATTTGTCTCGATATTCTACAAAATCAGTGGAGTCCTATATATGATGTAGCAGCTATACTTACGTCTATTCAGgtattgtca-atatacaat-tattatgtggataatgttgccattgtttttagttaacaattgtatgagggacttaac-tacaagaaaatgtgaccattcatat

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: Vv14s0108g00140.t01 (Vitis vinifera), 5'ss of exon 6
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt------
| ||||| ||||||||||| || || ||||| || ||||| ||||||||||| ||||||||||| ||||| || || || || |||||||||      ||   |   | ||| |||    |       |||||   ||   || || |  || || || || ||  |     |  | | |  || |  |      
TATATGCCGATGGAAGCATCTGTTTGGATATTCTACAGAACCAGTGGAGTCCCATATATGATGTTGCTGCTATTCTTACTTCTATCCAGgtat-----tatggggtttgtttgattgtcgattgctttttatttaattagtaaaatatccaatttctgttt-ttggatgaatatttaccatgttactatgatata

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: Vv08s0032g00310.t01 (Vitis vinifera), 5'ss of exon 4
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt---
||||||| |||||||| || ||||| |||||  | ||||||||||||||||| ||||||||||| || || |||||||| || ||||||||  |||| | | | |||   || |||| |||   |  || |  |||||  |   ||   ||| ||          |   || |  ||   |||    |    
TTTATGCAGATGGAAGTATTTGCTTGGATATTTTACAGAATCAGTGGAGTCCTATATATGATGTGGCAGCTATACTCACTTCCATCCAGgtg-aacctttccacaaaaaattaattttttat--ggaataaacgttttgtcctgataaataatttactgacaccttgatgttatgttttgcttaattgaaat

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: PP1S91_87V6.1 (Physcomitrella patens), 5'ss of exon 4
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgta--caaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaa----ctttgcagt
| ||||| || || ||||| ||||||||||||||||| ||||||||||| ||||| || || || || |||||  | || || || |||||     | | |  | |  | |   | |   | |||    |     |||  | |     |||  || |     ||  |  ||| ||| |   |      ||| |  
TATATGCGGACGGTAGCATCTGCTTAGATATCCTGCAAAATCAGTGGAGCCCGATCTACGACGTGGCAGCGATTTTGACTTCGATTCAGgtgagtgatcgtg-atgccagcaggtgtccgtgacattgtaagtcggttgattcgg---ttgagacgtagtggtgcgac-caggaacgtgagaggggtgttggaa-

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: PP1S91_88V6.1 (Physcomitrella patens), 5'ss of exon 4
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgt-----acaaccatacaagaaatcttttatttc-ttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt
| ||||| || || ||||| ||||||||||||||||| ||||||||||| ||||| || || || || |||||  | || || || |||||     |     || | || |    |   |  | ||  |||    | |  ||      | |  |     |    |  |  |      |  |||| |  |      
TATATGCGGACGGTAGCATCTGCTTAGATATCCTGCAAAATCAGTGGAGCCCGATCTACGACGTGGCAGCGATTTTGACTTCGATTCAGgtgagtgatcgtgatgccagcaggtgtccgtgacattgtaagtcggt-tgattcggttgagacgtagtggtgcgaccaggaacgtgagagtattcgaagta-----

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: EFJ23951 (Selaginella moellendorffii), 5'ss of exon 4
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaaga-aatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt
||||||| ||||||||||| ||  | || ||||| || ||||||||||| ||||| |||||||| || || ||||| || || ||||||||        |   |   | || | |   || ||   |  || || |||||       ||||   |   |                               
TTTATGCCGATGGAAGCATTTGTCTCGACATCCTCCAAAATCAGTGGAGCCCGATTTATGATGTTGCCGCAATACTGACATCGATCCAGgtttgcttggaagtgttgagctgtgaacactgactccaagtttttcttttt---gttcttgttcttccag-------------------------------

upper sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
lower sequence: EFJ21576 (Selaginella moellendorffii), 5'ss of exon 4
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaaga-aatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt
||||||| ||||||||||| ||  | || ||||| || ||||||||||| ||||| |||||||| || || ||||| || || ||||||||        |   |   | ||   |   || ||   |  || || ||||        ||||   |   |                               
TTTATGCCGATGGAAGCATTTGTCTCGACATCCTCCAAAATCAGTGGAGCCCGATCTATGATGTTGCCGCAATACTGACATCGATCCAGgtttgcttgcaagtgttgagctgcgaacactgactccaagtttttcttttcgttcttcttgttcttccag-------------------------------

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|31998321|gb|CD662030.1|CD662030
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|211368006|gb|FL470437.1|FL470437
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|37400480|gb|CF637593.1|CF637593
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|50323647|gb|CO518773.1|CO518773
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|18166186|gb|BM336025.1|BM336025
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|40334943|gb|CK369013.1|CK369013
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|14244483|gb|BG842475.2|BG842475
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|37376281|gb|CF624651.1|CF624651
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|37384502|gb|CF629329.1|CF629329
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|37390719|gb|CF632593.1|CF632593
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|33104117|gb|CF064077.1|CF064077
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCACTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|149108750|gb|EE189816.2|EE189816
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|16920335|gb|BM074609.1|BM074609
EST:     CCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: CCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|37393932|gb|CF634233.1|CF634233
EST:     CACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: CACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|148995969|gb|EE035217.2|EE035217
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|18166104|gb|BM335943.1|BM335943
EST:     CCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: CCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|211248410|gb|FL329620.1|FL329620
EST:     TCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: TCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|32846308|gb|CD985989.1|CD985989
EST:     ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: ATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
EST: gi|7216375|gb|AW562497.1|AW562497
EST:     AGCTGCGATACTCACGTCAATCCAG                         TCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC
genomic: AGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCC

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: 211

TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCCCGCATGTTCAGCGAGAACAAGCGAGAGTACAACCGCAAAGTTCGGGAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 153

TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCCCGCATGTTCAGCGAGAACAAGCGAGAGTACAACCGCAAAGTTCGGGAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 102

TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCCCGCATGTTCAGCGAGAACAAGCGAGAGTACAACCGCAAAGTTCGGGAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 287

TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccat ... ccatttgcagTCATTGTTGTGCGATCCAAACCCGAATTCGCCCGCTAACTCTGAAGCCGCCCGCATGTTCAGCGAGAACAAGCGAGAGTACAACCGCAAAGTTCGGGAGG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt

- - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC