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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtatctaagtttttgaatttctcttttgccacattctgacctttctccatgacgagtgctaaacagatacctgcatgaaaaacttttcag

Basic information

species Zea mays
transcript GRMZM5G824831_T03
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g42320.4 (Oryza sativa), 5'ss of exon 3
CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtatc-taagtttt-----tgaatttctcttttgccacattctgacct-ttctccatgacgagtgctaaacagatacctgcatgaaaaacttttcag------
|||| ||||||||||| || ||||||||||||||  |||||||||||||||| ||||||||||||||| || || | | | | ||     |||||| |||||||      ||  ||| |  | | | |     ||     | |   ||    |   |    | | ||       
CTGCTAATGGTGTAGTTATCGCCACTGAGAAGAAATTGCCTTCTATTTTAGTCGATGAAACATCTgtaagtctaacatcactcttaatgctgaattcctcttttagtgagttgcgacatgctattcgttgtttgtttctcagaagcactaatacatagttatatgcaaattcag

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 4
lower sequence: AT1G16470.1 (Arabidopsis thaliana), 5'ss of exon 4
CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtatctaagtttttgaatttctcttttgccacattctgacctttctccatgacgagtgct--aaacagatacctgcatgaaaaacttt----tcag----------------------
|| | ||||| || |||||||| ||||| |||||| ||||||||||| | || |||||| |||||||| ||  ||  |       |||| |   | |    ||  | |  || | |||  ||| |  | ||   |     ||  |   | || | || |    | ||                      
CTTCTAATGGAGTTGTCATTGCAACTGAAAAGAAGTTGCCTTCTATTCTGGTTGATGAAGCATCTgtaagttgata-atcaacaagaatattcgtatcattaccatatagccatgctctgtgatgctttcttcgattgtgtaatttagtcaacatctctgacattagttttctcttttgcctgtttcag

upper sequence: GRMZM5G824831_T03 (Zea mays), 5'ss of exon 4
lower sequence: Vv01s0011g01960.t01 (Vitis vinifera), 5'ss of exon 3
CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat------ctaagtttttga--atttctcttttgccacattctgacctttctccatgacgagtgctaaacagatacctgcatgaaaaacttttcag
||||||||||||| || ||||| ||||||||||| || |||||||| || ||||||||  |||| ||  ||  ||      ||||||||||||  |||| | | ||      |       |||||   |      |  |  |   ||  |  | |  |  ||||     
CTGCCAATGGTGTTGTTATTGCAACTGAGAAGAAACTACCTTCTATCTTGGTGGATGAGGCATCGgtgagtcaattgtggactaagtttttgatgatttgtatatttttttttctcactttttctgggtataactttttggatgaatggcgtcct--agcacttcat--

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|211252211|gb|FK953392.1|FK953392
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTSGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|71445140|gb|DR826190.1|DR826190
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211252219|gb|FK953400.1|FK953400
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211156519|gb|FL164233.1|FL164233
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211264908|gb|FL208724.1|FL208724
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCA
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCA
EST: gi|33098530|gb|CF058490.1|CF058490
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211156514|gb|FL164228.1|FL164228
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211153314|gb|FL164202.1|FL164202
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211252212|gb|FK953393.1|FK953393
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|74241051|gb|DT648965.1|DT648965
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|6952542|gb|AW424610.1|AW424610
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211264911|gb|FL208727.1|FL208727
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGT
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGT
EST: gi|148956338|gb|EC902144.2|EC902144
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211264912|gb|FL208728.1|FL208728
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAAATATTGGAGTTGTCTATAGTGG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAA-TATTGGAGTTGTCTATAGTGG
EST: gi|113698232|gb|DW851196.1|DW851196
EST:     CCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTG-CTAATAGTGG
genomic: CCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTA-TAGTGG
EST: gi|148931204|gb|EC873960.2|EC873960
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211264909|gb|FL208725.1|FL208725
EST:     TCATTGCCACTGAGA-GAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|148952476|gb|EC898302.2|EC898302
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211156522|gb|FL164236.1|FL164236
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGNGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211264913|gb|FL208729.1|FL208729
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAGTGGG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAGTGGG
EST: gi|211264914|gb|FL208730.1|FL208730
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|149076954|gb|EE165611.2|EE165611
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|78112697|gb|DV531091.1|DV531091
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211252214|gb|FK953395.1|FK953395
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211154915|gb|FL164213.1|FL164213
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211149323|gb|FL312581.1|FL312581
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211252217|gb|FK953398.1|FK953398
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|148987620|gb|EE031494.2|EE031494
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211154922|gb|FL164220.1|FL164220
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211252215|gb|FK953396.1|FK953396
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211156520|gb|FL164234.1|FL164234
EST:     TCATTGCCNCTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GNGCAAAAGATTCAGGGACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|6194486|gb|AW146590.1|AW146590
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|33094853|gb|CF054847.1|CF054847
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCGCTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|32926059|gb|CF030871.1|CF030871
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|91875485|gb|EB405442.1|EB405442
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|71447361|gb|DR828411.1|DR828411
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211158115|gb|FL164244.1|FL164244
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211252210|gb|FK953391.1|FK953391
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|32795340|gb|CD947576.1|CD947576
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211321302|gb|FL273340.1|FL273340
EST:     TCATTGCCACTGAAAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211153313|gb|FL164201.1|FL164201
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
EST: gi|211153309|gb|FL164197.1|FL164197
EST:     TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT                         GTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG
genomic: TCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG

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: 1051

CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 780

CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 736

CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 552

CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtat ... aacttttcagGTGCAAAAGATTCAGGCACTAACACCTAATATTGGAGTTGTCTATAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCTgtatgtgtatctaagtttttgaatttctcttttgccacattctgacctttctccatgacgagtgctaaacagatacctgcatgaaaaacttttcag

- - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA