Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttccatattatttggtctttgtcaggcagggtgtctgtacattatttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA

Basic information

species Zea mays
transcript GRMZM2G032505_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g07630.1 (Oryza sativa), 3'ss of exon 2
---ttccatattatttggtctttgtcaggcagggtgtctgtacattatttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
    |    |  | ||| | |||  |    |  ||| |      ||  ||       ||  |  ||      |||  |  |    ||||||||||| ||| ||||  ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||||
gctattaccagaaattgctgtttccctattaatgtgacctattgtt--ttggaacaattgcgtattgtaaccatatggtttctgcttttctcaactgttt-agATTCTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAATATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACTTCCA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G38030.1 (Glycine max), 3'ss of exon 2
---------------------------------------------ttccatattatttggtctttgtcaggcagggtgtctgtacattatttatttt---gtttctgggttactcatatacagcctgccttttt--ctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
                                             ||    | | ||   |||   ||     |  ||  || | |  | || |||     ||| |       |   ||  |   || | |  |   |       ||||||| |||||||||||||| || || |||||||| || |||||||| || |||||| | |||||||||||||| ||||| |||||||| || ||||| || |
gtacctatattgtttgtttctctgttttggatattgtattgggatttttggacttttaattctgaatcttctggaatggatggaaaaaagttgtttcttgatttttaaacatttttcattgattatgacgtgataattttttgcatttagATATTGGAAATGAACCCGGAAGACGAAGCTGAAGAAGATGGTGCCAATATTGATCTTGACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G29250.1 (Glycine max), 3'ss of exon 2
----------------------------------------------ttccatattatttggtctttgtcaggcagggtgtctgtaca--------ttatttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
                                              ||      | |    |||   ||  |  |  ||  || | |        || || ||||| | ||   |||  |    ||   | ||     || |    |   |||||| |||||||||||||| || || |||||||| || |||||||| || |||||| | |||||||||||||| ||||| |||||||| || ||||| || |
gtagctacattgtttgtttctctgttttggatgttgtatttgggatttttgggctttgaattctgaatcttgtggaatggatggaaaaaagttgtttcttgattttttctcattgttcttggattatgacgtgataactttttgcat---ttagATATTGGAAATGAACCCAGAAGACGAAGCTGAAGAAGATGGTGCCAATATTGATCTTGACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA03G39500.1 (Glycine max), 3'ss of exon 2
ttccatattatttggtctttgtcaggcagggtgtctgtac--attatttattttgtttctgggttactcatatac---agcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
      |||   ||  || |   |      |   |||||    | ||| | ||  ||| |   |  || || | |   |  ||| | |  | |      ||| |||| |||||||| || || || |||||||| || || |||||| | ||||||||| | ||||| ||||||||||||||||||||||| || ||||| || |
-----aattgactgacctctacaatttcaaggacctgtagtggtgattcacttgttttttcattccctaatgttccaaattctgacatgatatttttgttttcagATATTGGAAATAAATCCAGAAGATGAAGCAGAAGAAGATGGTTCCAACATTGATCTTGACTCCCAAAGGAAAGGAAAATGTGTTGTGCTAAAGACATCTA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 3'ss of exon 2
-ttccatattatttggtctttgtcaggcagggtgtctgtacattatttattttgtttctgggtt-actcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
 |     | || ||    | | | |     ||| | |    |     | ||   | | ||  || | |  ||       ||      | |||    | |||||| ||||| ||||| || || ||||| |||||||| |||||||| || |||||| | ||||| ||| |||||||||||||||||||  |||| || || |
gtattcaactagttttcttatcttatttttggtattttcctacagagtcttacctatttgatttgaattctaactgttgtgttaccatatcatgc-tattagATTTTGGAGATGAATCCAGAAGATGATGCTGAGGAAGATGGTGCAAATATTGATCTTGACTCGCAACGGAAAGGAAAATGTGTTGTGTTGAAAACGTCTA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 3'ss of exon 2
ttccatattatttggtctttgt-caggcagggt---gtctgtacattatttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
    |||  | |||||   ||  |||||    |     ||| |  |    ||  ||| ||||   |   |  | |     ||   || |  | ||   ||||||||||||||||||||||| |||||||| || ||||| |||||||| || |||||| | ||||| || ||||| ||||||||||||||| |||| || || |
----ataggaattggtgagtgaacaggcttaattgaagctgaagttctagtaacttggttctcactacatttttttttttcttttttctggttaatgtttttagATCTTGGAAATGAACCCAGAGGATGACGCAGAGGAAGATGGTGCAAATATTGATCTTGACTCTCAGAGGAAGGGAAAATGTGTTGTTTTGAAAACATCTA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv05s0020g01180.t01 (Vitis vinifera), 3'ss of exon 3
-----ttccatattatttggtctttgtcaggcagggtgtctgtacattatttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
      |   |  ||||   |  ||  ||  ||| || | |||  ||  |||||||| | | |  | ||   || ||    || |  |||  |    | |||||||| |||||||||||||| || ||||||||||| || ||||| |||||| ||||| | ||||| ||||| |||||||||||||| ||  |||| ||||| |
ctcctgttgctgctattgctttattaacacccagcgtatttgtttatattttattttttatttttggtaaatattta---actacagtttgttgg--tgttttagATTTTGGAAATGAACCCAGAAGATGAAGCTGAAGAAGATGGCGCTAACGTTGATCTTGACTCCCAAAGAAAAGGAAAATGTGTCGTGTTGAAAACCTCTA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S340_7V6.1 (Physcomitrella patens), 3'ss of exon 2
ttccatatta--tttggtctttgtcaggcagggtgtctgtacattatttattttgtttctgggttactcatatacagcctgcctttttctcaactattt-tagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
    | | ||  | | || ||| |    ||  |  |   | | |  |||   |||   | || |   ||| |||     |   ||  | ||       |  |||| |||||  | || || || ||||||||||| ||||||||||||||  ||||||| ||||| ||||||| |||||| ||||| ||  ||||||| ||||
cgagaaagtagctctcgtgtttttattccacagc-ttaattcctgtttttcgttgcaaccggttg--tcagatattttttaagttgatttcggtgccctgcagATATTGGACGTCAATCCAGAAGATGAAGCTGAAGAGGATGGTGCTAATGTTGATTTGGACTCTCAAAGGAGAGGAAAGTGTGTCGTCTTGAAGACATCCA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ15061 (Selaginella moellendorffii), 3'ss of exon 2
ttccatattatttggtctttgtcaggcagggtgtctgtacattatttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
                                    |||  | |    | || | ||||  ||  | | | |      | ||| |  ||      | |||||||||||  | || |||||||||||||||||||| || ||||| ||  | ||| | || || ||||| ||||||||||| || || || ||||||||||
------------------------------------gtatgtcaagagtgttttctctgcatttttgagagat--ttcgtcttatcttccgtg--tctagATCTTGGATGTAAATCCTGAGGATGAAGCTGAGGAAGACGGTGCCAATGTCGATCTCGATTCTCAAAGAAAAGGAAAATGCGTCGTGCTCAAGACCTCCA

upper sequence: GRMZM2G032505_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ37626 (Selaginella moellendorffii), 3'ss of exon 2
ttccatattatttggtctttgtcaggcagggtgtctgtacattatttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
                                    |||  | |      || | ||||  ||  |   | |      | ||| |  ||      | |||||||||||  | || |||||||||||||||||||| || ||||| ||  | ||| | || || ||||| ||||||||||| || || || ||||||||||
------------------------------------gtatgtcaagagagttttctctgcatttttgggagat--ttcgtcttatcttccgtg--tctagATCTTGGATGTAAATCCTGAGGATGAAGCTGAGGAAGACGGTGCCAATGTCGATCTCGATTCTCAAAGAAAAGGAAAATGCGTCGTGCTCAAGACCTCCA

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:     AATTNAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATG
genomic: AATT-AAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATG
EST: gi|211289939|gb|FL259220.1|FL259220
EST:     AAATTAAGCTCAACAAGCAGCTGCYCTACCTCGTTGGCAACATCGTTKAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287803|gb|FL259212.1|FL259212
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211294220|gb|FL259249.1|FL259249
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTA-CATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211140326|gb|FL259193.1|FL259193
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTATCATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211140332|gb|FL259199.1|FL259199
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211292090|gb|FL259247.1|FL259247
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211140327|gb|FL259194.1|FL259194
EST:     AAATTA-GCTCAACAAGCAGCTGCMCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211289937|gb|FL259218.1|FL259218
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTATCATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211140321|gb|FL259188.1|FL259188
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211292086|gb|FL259243.1|FL259243
EST:     AATTAAGCTCAACAAGCAGCTGGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATNGTGCTAACATT
genomic: AATTAAGCTCAACAAGCAGCTG-CCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211289942|gb|FL259223.1|FL259223
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211289949|gb|FL259230.1|FL259230
EST:     AAATTAAGCTCAACAAGCAGCTGCNCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287805|gb|FL259214.1|FL259214
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287799|gb|FL259208.1|FL259208
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287800|gb|FL259209.1|FL259209
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTATCATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211140324|gb|FL259191.1|FL259191
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGMAGCTGAGGAGGATGGTGCTATCATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287794|gb|FL259203.1|FL259203
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211139383|gb|FL259176.1|FL259176
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211292078|gb|FL259235.1|FL259235
EST:     AAATTAAGCTCAACAAGCAGCTGCMCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211292082|gb|FL259239.1|FL259239
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211294221|gb|FL259250.1|FL259250
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211139391|gb|FL259184.1|FL259184
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211289944|gb|FL259225.1|FL259225
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211139386|gb|FL259179.1|FL259179
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTATCATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211294219|gb|FL259248.1|FL259248
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211139389|gb|FL259182.1|FL259182
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287798|gb|FL259207.1|FL259207
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211139387|gb|FL259180.1|FL259180
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211068785|gb|FK950313.1|FK950313
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211294222|gb|FL259251.1|FL259251
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211289950|gb|FL259231.1|FL259231
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTATCATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287806|gb|FL259215.1|FL259215
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287801|gb|FL259210.1|FL259210
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211294224|gb|FL259253.1|FL259253
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211139392|gb|FL259185.1|FL259185
EST:     AAATTA-GCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTATCATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211292077|gb|FL259234.1|FL259234
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211140325|gb|FL259192.1|FL259192
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGASGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211287802|gb|FL259211.1|FL259211
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACA
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACA
EST: gi|211139390|gb|FL259183.1|FL259183
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|149027738|gb|EE286068.2|EE286068
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211292085|gb|FL259242.1|FL259242
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATT
EST: gi|211140334|gb|FL259201.1|FL259201
EST:     AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAA
genomic: AAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAA
EST: gi|211289940|gb|FL259221.1|FL259221
EST:     AATTAAGCTCAACAAGCAGCTGCCCTACACTCGTTGGCAACATCGTTGAG                         ATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTA
genomic: AATTAAGCTCAACAAGCAGCTGCCCTAC-CTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTA

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: 48 (upstream exon), 48 (downstream exon)
Score: 273

GAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 258

GAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 238

GAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 234

GAACCTGGAGTTGGAGTCGTTCAAGGAGAAGATTAAGGAAAACCAAGAGAAAATTAAGCTCAACAAGCAGCTGCCCTACCTCGTTGGCAACATCGTTGAGgttcattttc ... actattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA
                                  cctttttctcaact  CT-rich tract
                                            aactatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttccatattatttggtctttgtcaggcagggtgtctgtacattatttattttgtttctgggttactcatatacagcctgcctttttctcaactattttagATCTTGGAAATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - caggcag
- - - - - - - - - - - - - - - - - ctgtaca
- - - - - - - - - - - - - - - - - - - - - - - - - -tgtttct