Sequence
atgc intronic sequence ATGC exonic sequence...aagtttggctttttcattatataatgatttaagttaattttgaattgcgaaaactgcaatttaagaatctatttgccatgttttctttatctatttgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os01g54119.1 (Oryza sativa), 3'ss of exon 13
aagtttggctttttcattatataatgatttaagttaattttgaattgcg-aaaactgcaatttaagaa-tctatttgccatgttt-tctttatctatt-tgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG
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----gatattatattacaatatatttattatacatggcatagtaatatataatgctttaccttaagaaacttgttcattttactaatttatgtttgtaatgtagGCTGAGTTACAGAAGATGAGAGTTGAAATGGCTGGAATGAAACGAGATGCAGAGCATTATTCCAGACAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G055219_T01 (Zea mays), 3'ss of exon 13
--------------------------------------------------------------------aagtttggctt---tttcattatata------atgatttaagttaattttga-----------attgcgaaaactgcaatttaagaatctatt---tgccatgttttctttatct--att--tgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG
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gtgacattaatttcatcactcaaccaaagattcagcattttcttcaaaattgtgctgtactgctggatgtgcttggcttcattttcaatttgtagctgagactatcaaagtttattttcatgatcagctttgttaagggtattgttttgtaattacgcattgcatgttactgcacccttgttttcattggtgcagGCAGAGTTGCAGAAAATGAGAGTTGAAATGGCTGGAATGAGAAGAGATGCAGAGCATTATTCTAGACAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA01G01230.1 (Glycine max), 3'ss of exon 15
--aagtttggctttttcatt--atataatg---atttaagttaattttgaattgcgaaaactgcaatttaagaatctatt--tgccatgttttctttatctatttgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG
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gcaagattcatttttttttttcttgtgaagtttatttgagataatcacctctcttgcaggtca-agttgcacattccattattgatatgtttggtttcactgttt-cagGCTGAAATGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAGAGGGATGCTGAGCATTACTCACGTCAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA16G08430.1 (Glycine max), 3'ss of exon 13
---------------aagtttggctttttcattatataatgatttaagttaattttgaattgcg--aaaactgcaatttaagaatctatt--tgccatgttttctttatctatttgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG
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gcaagattgattttttatttttattttttcttatgaagtttatttgagataatcgcctcctgtcttgcaggtcaagttgcacatcccattattgatatgtttggtttcactgttt-cagGCTGAAATGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAGAGGGATGCTGAGCATTACTCACGTCAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT2G19950.2 (Arabidopsis thaliana), 3'ss of exon 13
aagtttggctttttcattatataatgatttaagttaattttgaattgcgaaaactgcaatttaagaatctatttgc-catgttttctttatctatttgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG
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------------------gtatgcttgtt--acttaccttggaattctttataacatgattttgg---ttatttacacatgatctgtttgattgtt-atagGCTGAAATGCAAAAGTTAAGGGTTGAAATGGCAGCCATGAAGAGGGATGCAGAACATTACTCACGCCAGMapped 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|33404538|gb|CF210165.1|CF210165EST: CAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG GCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCA
genomic: CAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAGgcaagtttat ... ctatttgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcgaaaactgcaatttaagaatctatttgccatgttttctttatctatttgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG
ttttctttatctattt CT-rich tract
aatttaagaatctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtttggctttttcattatataatgatttaagttaattttgaattgcgaaaactgcaatttaagaatctatttgccatgttttctttatctatttgcagGCTGAATTGCAAAAAATGAGAGTTGAAATGGCTGCCATGAAAAGAGATGCAGAGCATTATTCACGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - -tggcttt
- - - - - - - - - - - - - - - - - - - - - - - -cgaaaac