Sequence
atgc intronic sequence ATGC exonic sequence...tttctgtccttttggaattggctttgatataaaatgagtgaagttgatcctgatagattatggttttatacacattaacaatcagttctatccaatgcagTGTGCAGGTGAAGCAATTGCAAAATCCTGACATAGTTTTTGAAACAATTATTGGTCTTGTTGTTCATCTGGCAGAACATGGCCTTATTCATTGTGACTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G472991_T01 (Zea mays), 3'ss of exon 8
-----tttctgtccttttggaattggctttgatataaaatgagt--gaagttgatcctgatagattatggttttatacacattaacaatcagttctatccaatgcagTGTGCAGGTGAAGCAATTGCAAAATCCTGACATAGTTTTTGAAACAATTATTGGTCTTGTTGTTCATCTGGCAGAACATGGCCTTATTCATTGTGACTTC
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gtaagcatatatctgtgatcaatcaactgtggattcatattagtcgaaagtatgttctgtcaagc-agatcctgatacaagtt--------gctttatgctctgtagTGTTCAAGTGAAAGAGTTACAAAATCCAGATGACGTTTTTGACACAATTCTTGGTCTTATTGTTCGTTTGGCAGAGCATGGACTGATACATTGTGACTTT
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G33320.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------tttctgtccttttggaattggctttgatataaaatgagtgaagttgatcctgatag---attatggtt----ttatacacattaacaatcagttctatccaatgcagTGTGCAGGTGAAGCAATTGCAAAATCCTGACATAGTTTTTGAAACAATTATTGGTCTTGTTGTTCATCTGGCAGAACATGGCCTTATTCATTGTGACTTC
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gtaagtttccttctttaattttgctaacttttaaagttttctccttttatccgttattctcaaactggctttcttgtttgtagtattcctttcaccttttttgctggttttggtaacaatttcctgatctgtccatttggtttttcgaatgcagTGTTCAGGTTAAGCAGTTACAGAATCCAGAGACAGTTTTTGAGGCAATTCTTGGTCAGGTTGTTCGGTTGGCAGAACATGGTCTCATTCATTGTGATTTC
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G51270.2 (Arabidopsis thaliana), 3'ss of exon 7
tttctgtccttttggaattggctttgatataaaatgagtgaagttgatcctgatagattatggttttatacacattaacaatcagttctatccaatgcagTGTGCAGGTGAAGCAATTGCAAAATCCTGACATAGTTTTTGAAACAATTATTGGTCTTGTTGTTCATCTGGCAGAACATGGCCTTATTCATTGTGACTTC
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tttctaagaaagctaaaccatttgcttcactcactcactaagaaacagttacaccctttctgctgtgaatcacatcttttcacatttttcatttatgcagGGTTCAGGTGAAGCAATTACAGAACCCTGAGACAATTTTCGAGAAGATCATTGGTATTGTTGTTCGTTTGGCTGAGCATGGTCTAATTCATTGTGACTTCMapped 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|110427485|gb|EC993924.1|EC993924EST: GACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT TGTGCAGGTGAAGCAATTGCAAAATCCTGACATAGTTTTTGAAACAATTAT
genomic: GACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACTgtaaggattc ... tccaatgcagTGTGCAGGTGAAGCAATTGCAAAATCCTGACATAGTTTTTGAAACAATTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcctgatagattatggttttatacacattaacaatcagttctatccaatgcagTGTGCAGGTGAAGCAATTGCAAAATCCTGACATAGTTTTTGAAACAATTATTGGTCTTGTTGTTCATCTGGCAGAACATGGCCTTATTCATTGTGACTTC
cattaac putative branch site (score: 2)
ttctatcc putative PPT
ttttatacacattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttctgtccttttggaattggctttgatataaaatgagtgaagttgatcctgatagattatggttttatacacattaacaatcagttctatccaatgcagTGTGCAGGTGAAGCAATTGCAAAATCCTGACATAGTTTTTGAAACAATTATTGGTCTTGTTGTTCATCTGGCAGAACATGGCCTTATTCATTGTGACTTC
-ttctgtc
- - - - cttttgg
- - - - - - - - - tggcttt
- - - - - - - - - - - - - - - aaaatga
- - - - - - - - - - - - - - - - - - - - - - - - cctgata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaatca