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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcgagcccagtcctagatccgatccctgcgggttcggaacttcggcgttagggtttgcttctgatctgtggggtttgtttggtttttctcttgccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG

Basic information

species Zea mays
transcript GRMZM2G032505_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G032505_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g07630.1 (Oryza sativa), 3'ss of exon 1
--------------------------------------------------gtgagcgagcccagtcctagatccgatccctgcgggttcggaacttcggcgttagggttt-----gcttctgatctg--tggggtttgtttggtttttctcttgccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG
                                                       ||||     | | || | |   | | |  |  ||    ||| |   |||||||||      | ||||||| |  |||||||| ||| | | |  | |||  || |  |||| ||| |||||||||| ||| ||||| |||| ||||||||||||||||||||||| ||||| ||||| |||||||||||||||||||| ||||||||||
gcaagcccgcctccgctctctctctctctcccctaaccctagatccccctccctccgaggtttttgccagttgcctcctccggtgaatctttgcttgga--ttagggtttccgggtcgtctgatcggtttggggttttttttggtgtgattttggtgcgc--agGATGAGCTGCAGCGGACCAACTTGGAGCTGGAATCGTTCAAGGAGAAGATTAAGGAGAACCAGGAGAAGATTAAGCTCAACAAGCAGCTTCCCTACCTCG

upper sequence: GRMZM2G032505_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G29250.1 (Glycine max), 3'ss of exon 1
-------------------------------gtgagc--gagcccagtcctagatccgatccctgcgggttcggaacttcggcgttagggtttgcttctgatctgtggggtttgtttggtttttctcttgccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG
                               || | |   | || | |||||      |  |   |   || |   |||| |  ||         ||  | | | ||   |||  |||  || | | | |  ||    |||| ||||||||| |||| ||  |||||||||| |||| |||||| ||||| ||||| || || ||||| ||||||||||| |||||| ||||||||||||
gtacaatctttttgttttttcttctgcttctgtaaccctaaccctaatcctatcgattacactatcttttttgctgcttccgtcttcttagcca-ttagggtttctgatttttaattgaattgtttttggtggc-tgaagGAAGAGTTGCAGAGGACCAATTTGGAGTTGGAATCGTACAAGGACAAGATCAAGGAGAATCAGGAGAAGATTAAGCTCAATAAGCAGTTGCCCTACCTCG

upper sequence: GRMZM2G032505_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA20G38030.1 (Glycine max), 3'ss of exon 1
-------------------------------------gtgagcgagcccagtcctagatccgatccctgcgggttcggaacttcggcgttagggtttgcttct-gatctgtggggtttgtttggtttttctcttgccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG
                                      |  |  | || |  ||||    ||||  |      ||     ||||  |  |    || ||   | |   |   |  |||  |||  || ||  | |   |    |||| ||||||||| |||| ||  |||| ||||| |||| |||||| ||||| ||||| || || ||||| ||||||||||| |||||| ||||||||||||
gtatactcttttctttctgtttcgtttttttccctgcttctgtaaccctaacccta---tcgattacactatcttttttccttcttccgttttcttagccattagggtttctgattttaattgaattgtccttcgtgac-tgaagGAAGAGTTGCAGAGGACCAATTTGGAATTGGAATCGTACAAGGACAAGATCAAGGAGAATCAGGAGAAGATTAAGCTCAATAAGCAGTTGCCCTACCTCG

upper sequence: GRMZM2G032505_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgagcgagcccagtcctagatccgatccctgcgggttcggaacttcggcgttagggtt-tgcttctgatctgtggggtttgtttg------gtttttctcttgccgc-acccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG
               |  |  |  |||   |     |    | || || | ||   |||     |  ||| ||| |   ||| |        |||||||| |    |  |   |||| ||   |||  | || || || || |  || || | |||||||||||||||||| || || ||||| ||||| ||||||||||||||||| ||| | |
---------------ctcaactgagattgattgaattgaaaagctacgtctttcttgttgcaaattggatatgttgaaattgctcatcttgtgtttttctttgatggggatttagGAAGACGCGCAAAGAACAAATCTAGAATGTGATTCTTACAAGGAGAAGATTAAGGAGAATCAGGAGAAGATTAAACTCAACAAGCAGCTGCCTTACTTGG

upper sequence: GRMZM2G032505_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 3'ss of exon 1
gtgagcgagcccagtcctagatccgatccctgcgggttcggaactt-cggcgttagggtttgc--ttctgatctgtggggtttgtttggtttttctcttgccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG
      |   | | ||          || ||     |  |   ||| | | | || | |||||  || ||||   ||| | | ||   | | |  | |||        |||| ||||||||| |||||||| |||||| ||| || |  ||||||||||| ||||| || || ||||| || ||||||||||||||||| |||||| | |
------gtctctattctctctctttttctctttatatatgtgtctttccgtgatatgatttgcgattttgatgaatggtggtggt---ggtatggtgttga-------agGAGGAGTTGCAGAGGACGAACATGGAGTGGGACTCCTATAAGGAGAAGATCAAGGAGAATCAGGAGAAGATCAAGCTCAACAAGCAGCTTCCCTACTTGG

upper sequence: GRMZM2G032505_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0020g01180.t01 (Vitis vinifera), 3'ss of exon 2
gtgagcgagcccagtcctagatccgatccctgcgggttcggaacttcggcgttagggtttgcttctgatctgtggggtttgtttggtttttctcttgccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG
|| ||    | ||   |    ||  || |       ||     | |  | | | |   ||| ||  ||| | |      | |||  ||||| | || |  |    |||| ||||||||| | ||||| ||||||||||| |||||||| || || || ||||| || |||||||| || ||||||||||||||||| |||||||| |
gttagatctctcaacgccttgtcaaatgctca----tttaatccattagtgattga--ttgatt--gattttttt--cctttttccttttttttttcctacttgaagGAAGAGTTGCAGAGAACGAATCTGGAGTTGGAATCGTTCAAAGAAAAAATAAAGGAGAATCAAGAGAAGATCAAGCTCAACAAGCAGCTACCCTACCTTG

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|211289941|gb|FL259222.1|FL259222
EST:     TATCATCCGGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: TATCATCC-GGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211289939|gb|FL259220.1|FL259220
EST:     TATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGAT
genomic: TATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTG-TCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGAT
EST: gi|211287803|gb|FL259212.1|FL259212
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211294220|gb|FL259249.1|FL259249
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140326|gb|FL259193.1|FL259193
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140332|gb|FL259199.1|FL259199
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCATCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211292090|gb|FL259247.1|FL259247
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140327|gb|FL259194.1|FL259194
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211289937|gb|FL259218.1|FL259218
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140321|gb|FL259188.1|FL259188
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211292086|gb|FL259243.1|FL259243
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211289942|gb|FL259223.1|FL259223
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211289949|gb|FL259230.1|FL259230
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287805|gb|FL259214.1|FL259214
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140330|gb|FL259197.1|FL259197
EST:     ATATCATCCGGGCCTCMCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287799|gb|FL259208.1|FL259208
EST:     ATATCAYCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287800|gb|FL259209.1|FL259209
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140324|gb|FL259191.1|FL259191
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287794|gb|FL259203.1|FL259203
EST:     ATATCATCCGGGCCTCCCGCSTTCTTGACAACGAGATCCGTGTCCTCRAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211139383|gb|FL259176.1|FL259176
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211292078|gb|FL259235.1|FL259235
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211292082|gb|FL259239.1|FL259239
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCMGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCTTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211294221|gb|FL259250.1|FL259250
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211139391|gb|FL259184.1|FL259184
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211289944|gb|FL259225.1|FL259225
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287807|gb|FL259216.1|FL259216
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGGAGTCGTTCAAGGAGAAGAT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGG-AGTCGTTCAAGGAGAAGAT
EST: gi|211139386|gb|FL259179.1|FL259179
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211294219|gb|FL259248.1|FL259248
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211139389|gb|FL259182.1|FL259182
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287798|gb|FL259207.1|FL259207
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211139387|gb|FL259180.1|FL259180
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211068785|gb|FK950313.1|FK950313
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211294222|gb|FL259251.1|FL259251
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140335|gb|FL259202.1|FL259202
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211139380|gb|FL259173.1|FL259173
EST:     ATATCATCCGGGCCTCCSGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGG
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGG
EST: gi|211289950|gb|FL259231.1|FL259231
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287806|gb|FL259215.1|FL259215
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287801|gb|FL259210.1|FL259210
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211294224|gb|FL259253.1|FL259253
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGWATGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGAT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAG-TTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGAT
EST: gi|211139392|gb|FL259185.1|FL259185
EST:     ATATCATCCGGGCSTCCSGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211292077|gb|FL259234.1|FL259234
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140325|gb|FL259192.1|FL259192
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211287802|gb|FL259211.1|FL259211
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211139390|gb|FL259183.1|FL259183
EST:     ATATCATCCGGGCCTCCCGMCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|149027738|gb|EE286068.2|EE286068
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211289946|gb|FL259227.1|FL259227
EST:     ATATCATCCGGGCCTCCCGCMTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAG
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAG
EST: gi|211292085|gb|FL259242.1|FL259242
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140334|gb|FL259201.1|FL259201
EST:     TATCATCCGGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: TATCATCC-GGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211289940|gb|FL259221.1|FL259221
EST:     ATATCATCCGGGCCTCMCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
EST: gi|211140329|gb|FL259196.1|FL259196
EST:     ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAG                         GACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT
genomic: ATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATT

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: 407

GGCCGTTGACGACGCGGAGGACGACCAGCTCGCCTCCATGTCCACGGAGGATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 413

GGCCGTTGACGACGCGGAGGACGACCAGCTCGCCTCCATGTCCACGGAGGATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 262

GGCCGTTGACGACGCGGAGGACGACCAGCTCGCCTCCATGTCCACGGAGGATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 348

GGCCGTTGACGACGCGGAGGACGACCAGCTCGCCTCCATGTCCACGGAGGATATCATCCGGGCCTCCCGCCTTCTTGACAACGAGATCCGTGTCCTCAAGgtgagcgagc ... ccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagggtttgcttctgatctgtggggtttgtttggtttttctcttgccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG
          ttctgat  putative branch site (score: 348)
                                  tttttctcttgccgc  putative PPT
                         tttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcgagcccagtcctagatccgatccctgcgggttcggaacttcggcgttagggtttgcttctgatctgtggggtttgtttggtttttctcttgccgcacccagGACGAGTTGCAGCGGACGAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC