Sequence
atgc intronic sequence ATGC exonic sequencegtaatgaccactttcatacttagtttaactggagttttttgggtaacattattaattgtcaatctgtgggtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTCCTGTAAATGAGGAAGTCCCACCTTTGCTTGAAGCAGGTGGAAAAATTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G180988_T01 (Zea mays), 3'ss of exon 9
gtaatgaccactttcatacttagtttaactggagttttttgggtaacattattaattgtcaatctgtgggtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTT---CTCCTGTAAATGAGGAAGTCCCACCTTTGCTTGAAGCAGGTGGAAAAATTGA
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gtatgtcattcagttatgaggatattgaaagctcccttttgtatgctgataataattttgtatct--------tttcagCTTTATTGAAGCAACAAGGTGTTGATCTCAAAGGAGCTGCAAAAAGCACCACTCCAGTAAATGAGGAAGTTCCTCCTTTGCTTGAAGGCGGTGGAAAGCT---
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G21350.2 (Glycine max), 3'ss of exon 8
----gtaatgaccactttcatacttagtttaactggagttttt---tgggtaacattattaattgtcaatctgt---gggtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTCCTGTAAATGAGGAAGTCCCACCTTTGCTTGAAGCAGGTGGAAAAATTGA
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gtgtatatcatttgttctctcttatactttgacttgccattttgtgtagccagccatactgacaagtgagctatttgatgtactgtcagCATTGCTTAAGCAACAAGGCATGGGTGTCAAAGGAATGACAAAAAGTACCCCTGTAAATGAGGAAATTCCACCTTTGCTTGAAGGAGGTGGAAAGATAGA
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 7
----gtaatgaccactttcatacttagtttaactggagttttt---tgggtaacattattaattgtcaatctgt---gggtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTCCTGTAAATGAGGAAGTCCCACCTTTGCTTGAAGCAGGTGGAAAAATTGA
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gtggatatcatttgttctctcttatactttgacttaccattttgtgtagctagccatgctgacaaatgggctatttgatgtactgtcagCATTGCTTAAGCAACAAGGCATGGGTGTCAAAGGAATGACAAAAAGTACCCCTGTAAATGAGGAAATTCCACCTTTGCTTGAAGGAGATGGGAAGATAGA
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaatg-accactttcatacttag---ttta--------actgg-agttttttgggtaacattattaattgtcaatctgtgggtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTCCTGTAAATGAGGAAGTCCCACCTTTGCTTGAAGCAGGTGGAAAAATTGA
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gtaaaacaccactatgaaactcaaatctttatagaaaacattgacggtcttgtagccctgactgactattttcaatgccccatttctc-tagCTTTACTGAAGCAACAAGGCGTTGGGCTCAAGGGCATTGCAAAAAGTGCACCAGTGAATGAGGATATTCCACCTCTGCTTGAAAGTGGTGGAAAATTGGA
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaatgaccactttcatact-tagtttaactggagttttttgggtaacattattaattgtcaatctg--tgggta--------attgt--agCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTCCTGTAAATGAGGAAGTCCCACCTTTGCTTGAAGCAGGTGGAAAAATTGA
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gtaaagattgctttgatactctaaattattaataaaacaatga--aagatctcttatccctgacttactttggtacttttcctattgtctagCATTACTTAAGCAACAAGGTGTTGGGTTAAAGGGCCTGTCAAAAAGCACACCAGTGAATGAGGATATTCCACCATTGCTTGAAGGAGGTGGAAAGTTGGAMapped 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|30133877|gb|CB919216.1|CB919216EST: ATCAGGATCAGCAGCAGGTGGTGCTGAGGAAGGAAGAGGAAAAGTAGCAG CTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTC
genomic: ATCAGGATCAGCAGCAGGTGGTGCTGAGGAAGGAAGAGGAAAAGTAGCAGgtaatgacca ... gtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTC
EST:
gi|71854972|gb|DT004027.1|DT004027EST: ATCAGGATCAGCAGCAGGTGGTGCTGAGGAAGGAAGAGGAAAAGTAGCAG CTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTC
genomic: ATCAGGATCAGCAGCAGGTGGTGCTGAGGAAGGAAGAGGAAAAGTAGCAGgtaatgacca ... gtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaactggagttttttgggtaacattattaattgtcaatctgtgggtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTCCTGTAAATGAGGAAGTCCCACCTTTGCTTGAAGCAGGTGGAAAAATTGA
tattaat putative branch site (score: 2)
taacattattaattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgaccactttcatacttagtttaactggagttttttgggtaacattattaattgtcaatctgtgggtaattgtagCTTTACTGAAGCAACAAGGTGTTGGCGTCAAAGGCATGTCAAAAGGTTCTCCTGTAAATGAGGAAGTCCCACCTTTGCTTGAAGCAGGTGGAAAAATTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA