Sequence
atgc intronic sequence ATGC exonic sequenceATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttcatcatcagtaacatttgaactctaaatagaacttcagtttaaatgttcatctgatttattgactgttttctatcttttcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G868757_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g32800.1 (Oryza sativa), 5'ss of exon 2
ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttcatcatcagtaacatt-tgaactctaaatagaacttca--gtttaaatgttcatctgatttattgactgttttctatcttttcag-------------------------------------
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GTACCATAAGGCTTGCCAAGAATTCGCTGAATTCTATAAGAATGCTCTTCTTTATCTGGCCTACACTACTGTGGAGTCGCTCTCTGAGTCATTCAAGCTGgtat-taacaatgccaattacataacagaaaaaaaatagcatttcctcctctcattagttagtttaataacaacatactgtgcatattgtttgtattgataatttaccctttgacactgtcatgtgtcag
upper sequence: GRMZM5G868757_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g11570.1 (Oryza sativa), 5'ss of exon 2
ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttcatcatcagtaa--catttgaactctaaatagaacttcagtttaaatgttcatctgatttattgactgttttctatcttttcag---------------------
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GTACCATAAGGCTCGCCAAGAATTTGCTGAGTTCTACAAGAATGCCCTTCTGTATCTGGCTTACACTACTGTAGAGTCACTCTCTGAGTCTTTCAAACTGgtatgttctattgttaacaatgcaattacatgacaaaaaatcatttcctcctcgcattattttaataatgtatcttgcatctatgtttaccctttgatgctgtcttgtgtcag
upper sequence: GRMZM5G868757_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA01G01460.1 (Glycine max), 5'ss of exon 2
ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttcatcatcagtaacatttgaactctaaatagaacttcagtttaaatgttcatctgatttattgactgttttctatcttttcag--------------
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GTTTCATAAGACACGTCAAGAATTTGCTGAGTTCTACAAAAGTGCCCTTCTCTATTTGGCATACACATCAGTGGAATCTCTCTCTGATTCATTCAAGCTGgtatgt--catcag-aattgtcttaaatgtttttgttgattgttgccttttttgtt-gtctcaaatcatggctatttacttgtactttactctgattatggtgt
upper sequence: GRMZM5G868757_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA09G34310.1 (Glycine max), 5'ss of exon 2
ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttc----atcatcagtaacatttgaact--ctaaatagaacttcagtttaaatgttcatc-tgatttattgactgttttctatcttttcag---
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GTTTCATAAGACATGCCAAGAATTTGCTGAGTTCTACAAAAGTGCCCTTCTCTATTTGGCATACACATCAGTGGAATCTCTCTCAGATTCATTCAAGCTGgtatgtcatcagaattgtcttaaatgtttttgttgattggttccttctttattgtctcaaatcatggctatttacttacactgtactctggttatggcat
upper sequence: GRMZM5G868757_T04 (Zea mays), 5'ss of exon 3
lower sequence: Vv02s0012g02660.t01 (Vitis vinifera), 5'ss of exon 2
ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtt--tcat---catcagtaacatttgaactctaaatagaacttcagt---ttaaatgttcatctgatttattgactgttttctatcttttcag--
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GTATTATAAATCTCGTCAAGAATTCGCAGAATTCTATAAAAGTGCTCTTCTATATCTGGCATACACATCAGTGGAGTCTCTCTCTGAAACATTTAAGCTGgtatgttactcatgtgctttaattatttcaaaaaattcaagtcatttataatgattcacattatactttcacttgttaaggctgttttgacatctcatgtMapped 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|194716906|gb|FK934065.1|FK934065EST: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTA GACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
genomic: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
EST:
gi|148930110|gb|EC872431.2|EC872431EST: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTA GACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
genomic: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
EST:
gi|148948407|gb|EC893924.2|EC893924EST: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTA GACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
genomic: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
EST:
gi|148986083|gb|EE029890.2|EE029890EST: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTA GACTTGGCTTTTGATCTATCTCTA
genomic: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTA
EST:
gi|211082970|gb|FL307146.1|FL307146EST: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTA GACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
genomic: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
EST:
gi|6020572|gb|AW065605.1|AW065605EST: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTA GACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
genomic: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
EST:
gi|148965470|gb|EE016279.2|EE016279EST: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTA GACTTGGCTTTTGATCTATCTCTAG
genomic: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAG
EST:
gi|149078129|gb|EE166878.2|EE166878EST: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTA GACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
genomic: TCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTAC
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:
521ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTACAACTTTGGGGAGTTGTTAGCTCACCCGATT
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
433ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTACAACTTTGGGGAGTTGTTAGCTCACCCGATT
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
470ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTACAACTTTGGGGAGTTGTTAGCTCACCCGATT
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
412ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttca ... atcttttcagGACTTGGCTTTTGATCTATCTCTAGCAGCCTTGCTGGGTGATAACATTTACAACTTTGGGGAGTTGTTAGCTCACCCGATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATACCACAAGGCCTGCCAAGAATTTGCAGAGTTCTATAAGAATGCTCTTCTCTATCTGGCCTACACAACTGTGGAGTCTCTATCTGAGTCATTCAAGCTAgtatgtttcatcatcagtaacatttgaactctaaatagaacttcagtttaaatgttcatctgatttattgactgttttctatcttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT