Sequence
atgc intronic sequence ATGC exonic sequence...ttttatgcttatgtattttctagatgttggattctattggtgtcttacagactcttgaattgaatggtatacaatttattccttctttatcttgttacagTTAGCAGATGCAAAGGATGTTATGGAAGCAGTTCGGAATTTGGAGGGTGCTAGATTACCTGTGCTGACACCTAATTTAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G175071_T01 (Zea mays), 3'ss of exon 3
--ttttatgcttatgtattttctagatgttggattctattggtgtcttacagactcttgaattgaatggt--atacaatttattccttctttatcttgttacagTTAGCAGATGCAAAGGATGTTATGGAAGCAGTTCGGAATTTGGAGGGTGCTAGATTACCTGTGCTGACACCTAATTTAAAA
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cttcttaagttcttatgtttcactaaaattacctttctttt---tcttgcctgc-catgtaatgaccagttaatctcaataatactatttttttattattgtagTTAGCTGATGCGAAGGATGTTATGGAAGCAGTTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G08360.1 (Glycine max), 3'ss of exon 5
-----ttttatgcttatgtattttctagatgttggattctattggtgtcttacagactcttgaattgaatggtatacaatttattccttctttatcttgttacagTTAGCAGATGCAAAGGATGTTATGGAAGCAGTTCGGAATTTGGAGGGTGCTAGATTACCTGTGCTGACACCTAATTTAAAA
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acaactatagtactagttgatatcct---ttctagacta-acttatttacagtgtgatctgaattttacctgcttgaataccattctgtttctgtatcttt-cagTTGGCAGATGCAAAGGATGTAATGCAAGCAGTTCATAACCTGGGAGGCATTAGATTGCCAGTTCTGACTCCTAATTTAAAG
upper sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G36340.1 (Glycine max), 3'ss of exon 3
-----ttttatgcttatgtattttctagatgttggattctattggtgtcttacagactcttgaattgaatggtatacaatttattccttctttatcttgttacagTTAGCAGATGCAAAGGATGTTATGGAAGCAGTTCGGAATTTGGAGGGTGCTAGATTACCTGTGCTGACACCTAATTTAAAA
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gcaactatagtactagttgatatccta----tctgaacttacttatttacagtgtgatctgagttttatctgcttgaataccattctgtttctgtatcttt-cagTTGGCAGATGCAAAGGATGTAATGCAAGCAGTTCATAACCTGGGAGGCATTAGATTGCCAGTTCTGACTCCTAATTTAAAGMapped 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|110703203|gb|EE079843.1|EE079843EST: TGCCTGTTGTTGAGGCTACAAGTTTTGTGTCGCCAAAATGGGTACCTCAG TTAGCAGATGCAAAGGATGTAATGGAAGCAGTTCGGAATTTGGAGGGTGCT
genomic: TGCCTGTTGTTGAGGCTACAAGTTTTGTGTCGCCAAAATGGGTACCTCAGgtaattcaga ... cttgttacagTTAGCAGATGCAAAGGATGTTATGGAAGCAGTTCGGAATTTGGAGGGTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacagactcttgaattgaatggtatacaatttattccttctttatcttgttacagTTAGCAGATGCAAAGGATGTTATGGAAGCAGTTCGGAATTTGGAGGGTGCTAGATTACCTGTGCTGACACCTAATTTAAAA
gtcttac putative branch site (score: 3)
tttattccttctttat putative PPT
tatacaatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttatgcttatgtattttctagatgttggattctattggtgtcttacagactcttgaattgaatggtatacaatttattccttctttatcttgttacagTTAGCAGATGCAAAGGATGTTATGGAAGCAGTTCGGAATTTGGAGGGTGCTAGATTACCTGTGCTGACACCTAATTTAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - gcttatg
- - - - - - - - - - - - tgttgga
- - - - - - - - - - - - - - - - - - -tggtgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaatgg