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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcccaaacggtgtgctcgatccagcgcattgcttagcttcaccttgcttactagtacaacgattggaggactaatatattccctaaatttgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA

Basic information

species Zea mays
transcript GRMZM2G146677_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146677_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g14110.1 (Oryza sativa), 3'ss of exon 2
--tgcccaaacggtgtgctcgatccagcgcattgcttagcttcaccttgcttactagtacaacgattggaggactaatatattccctaaatttgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA
     |  ||   |||  |  |      ||    | |   ||     ||     | | |    |  |  ||  ||||| |   | |||| |||| ||| ||||||||||||||| |||||||| ||  | |||||||||||||||||||| |||||||| || || || |||||||| |||||||||||||||||||| || 
taaagcataatactgtcttgcagttgatgctacacctgttttagtgctggaccgttggaggttgccttaagttctaattt--ccactaattttgtaaaacagGGAGTACCTTCCAATGGGAGGAAGTATAAAGATGATTGAAGAGTCACTAAAGCTGGCATATGGTGAGGATTCTGATTTCATCAAAGATAAGAGGATTGCT

upper sequence: GRMZM2G146677_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv12s0028g01820.t01 (Vitis vinifera), 3'ss of exon 2
---tgcccaaacggtgtgctcgatccagcgcattgcttagcttcaccttgcttactagtacaacgattggaggactaatatattccctaaatttgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA
   |     | |  ||||    ||| |   ||||  ||   |     ||  |   | |   ||  |||| | | |   | | ||       |||      |||||| || ||||| |||||||| || || || ||| |||||||  |||||||| |||| || |||||  | ||||| ||||||||||||||| |||| |||
aaatattttagc--tgtgacatatctaattcatttgttgtttctttgtttttggattgatgaagtattgtatg-catttttctttttgccttttttcttccagGGAATATCTTCCCATGGGAGGAAGTGTGAACATGGTTGAAGAAACACTGAAGTTGGCATATGGAGAGAACTCTGAATTCATCAAAGATAAGCGGATTGCA
















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|71305863|gb|DR789057.1|DR789057
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGG-AGGCAGCGTCAAGATGATTGAAGAGTCACTGA
EST: gi|67018941|gb|CO447690.1|CO447690
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|50328434|gb|CO523560.1|CO523560
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31353240|gb|CD437597.1|CD437597
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|67017765|gb|CO446514.1|CO446514
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|211379177|gb|FL376874.1|FL376874
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|211278553|gb|FL373301.1|FL373301
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31351617|gb|CD435974.1|CD435974
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|211413669|gb|FL415008.1|FL415008
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|211284792|gb|FL428462.1|FL428462
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31361066|gb|CD445423.1|CD445423
EST:     GCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: GCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|148933542|gb|EC877395.2|EC877395
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|149010059|gb|EE041864.2|EE041864
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|148957409|gb|EC903466.2|EC903466
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|67016435|gb|CO445184.1|CO445184
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|149105256|gb|EE290747.2|EE290747
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31349528|gb|CD433885.1|CD433885
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|67016081|gb|CO444830.1|CO444830
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31356230|gb|CD440587.1|CD440587
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|67028302|gb|CO457051.1|CO457051
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31361600|gb|CD445957.1|CD445957
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|50323492|gb|CO518618.1|CO518618
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|149080001|gb|EE169021.2|EE169021
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31355562|gb|CD439919.1|CD439919
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGATTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|148932842|gb|EE285571.2|EE285571
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|50324322|gb|CO519448.1|CO519448
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|78110052|gb|DV528467.1|DV528467
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|71444529|gb|DR825579.1|DR825579
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|67010595|gb|CO439344.1|CO439344
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|149012758|gb|EE042647.2|EE042647
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31349323|gb|CD433680.1|CD433680
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31360383|gb|CD444740.1|CD444740
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31353745|gb|CD438102.1|CD438102
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|211388047|gb|FL420206.1|FL420206
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31356425|gb|CD440782.1|CD440782
EST:     CTCATCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|149113112|gb|EE295876.2|EE295876
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|31354884|gb|CD439241.1|CD439241
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|148962545|gb|EE013420.2|EE013420
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|149095396|gb|EE181036.2|EE181036
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
EST: gi|211292939|gb|FL425353.1|FL425353
EST:     CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACAT                         GGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA
genomic: CTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAA

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: 45 (upstream exon), 49 (downstream exon)
Score: 46

GGCGCCTACCGGGACGACAACGGCCAGCCCGTCGTGCTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 184

GGCGCCTACCGGGACGACAACGGCCAGCCCGTCGTGCTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 150

GGCGCCTACCGGGACGACAACGGCCAGCCCGTCGTGCTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 96

GGCGCCTACCGGGACGACAACGGCCAGCCCGTCGTGCTCAGCTGCGTGCGCGAGGCCGAGCGCCGGATCGCGGGCAACCTCAACATgtgagacatc ... tgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttactagtacaacgattggaggactaatatattccctaaatttgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA
                         actaatatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcccaaacggtgtgctcgatccagcgcattgcttagcttcaccttgcttactagtacaacgattggaggactaatatattccctaaatttgcaaatcagGGAGTACCTTCCGATGGGAGGCAGCGTCAAGATGATTGAAGAGTCACTGAAGCTGGCGTACGGAGAAGATTCTGACTTCATCAAAGATAAGAGGATAGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - -tgtgctc
- - - - - - - - - - - - - gcattgc
- - - - - - - - - - - - - - - - - -agcttca