Sequence
atgc intronic sequence ATGC exonic sequence...tatttgtgggaatactctcataacatttttagcatgtactgtgtggtattaaaattttaacaccattgcttttttttttttgattatgcccttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0036g00750.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G104254_T02 (Zea mays), 3'ss of exon 3
tatttgtgggaatactctcataacatttttagcatgtactgtgtggtattaaaattttaacaccatt-----gcttttttttttttgattatgcccttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
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---cggattacatttgttcacgctgttttctttatatagtct-taacagtattctttgtataatgtttgccaaattgataatcttggctcgtgatctgat-gcagATACTTCTCATATGAGCACTTTTATGTGATCTATTGCAAATTCTGGGAGCTGGATGCAGACCACGATTTTTTGATTGATAAGGAGAACCTCATCAAATAT
upper sequence: Vv14s0036g00750.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EDP08306 (Chlamydomonas reinhardtii), 3'ss of exon 3
---------tatttgtgggaata--ctctcataacatttttagcatgtactgtgtggtattaaaattttaacaccattgcttttttttttttgattatgcccttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
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caccaagccgagcagcggctgcggcttcccctcacgcctgcagcccac-ccacccagcctcacccgctcgcctccct--ccctccggcctaccaatgcatcagATCCTCAAGTTCTTCTCCTACGAGCACTTCTACGTCATCTACTGCAAGTTCTGGGAGCTGGACCAGGACCACGACTTCCAGCTGGACAAGACAGACCTGG--------
upper sequence: Vv14s0036g00750.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S7_163V6.1 (Physcomitrella patens), 3'ss of exon 7
tatttgtgggaatactctcataacatttttagcatgtactgtgtggtattaaaattttaacaccattgcttttttttttttgat-tatgcccttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
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tatcagtttgccctcacgaaaagtaattatgatac-cacgacgtgagcttaagtttctgatcatgtgcccttaggctaaatattgtaagcgcttcgtgcagTTACTTCTCATATGAACATTTTTATGTCATATATTGCAAGTTCTGGGAGCTGGATTCAGATCACGATTTTTTAATAGACAAAGATGATCTCCTTCGATAT
upper sequence: Vv14s0036g00750.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S147_62V6.2 (Physcomitrella patens), 3'ss of exon 7
tatttgtgggaatactctcataacatttt--tagcatgtactg-tgtggtattaaaattttaacaccattgcttttttttttttgat-tatgcccttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
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----tattggcatgccctcaatagaagacagtatggtacattgatgtgaatttaggtttctacttgtgtatctgtaggctcatccacgtaatcgcttcgtgcagGTACTTCTCATATGAACATTTTTATGTCATATATTGCAAATTCTGGGAGCTGGATTCAGATCACGACTTTTTGATAGACAAAGATGACCTTCTTCGATAT
upper sequence: Vv14s0036g00750.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S68_31V6.1 (Physcomitrella patens), 3'ss of exon 7
tatttgtgggaatactctcataacatttttagcatgtact-gtgtggtattaaaattttaacaccattgcttttttttttttgat-tatgccct---taccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
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---gcgagggatgagagcttggatctttttgtcatattccagtttagtatgctaaca--aagactataataattgacctttggatacatgtggtgtgcgacgcagCTATTTTTCATATGAACATTTCTATGTTATTTACTGCAAGTTTTGGGAGTTGGACTCGGATCACGACTTTGTGATTGACAAGGATGACCTATTGCGATACMapped 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|110403756|gb|EC969496.1|EC969496EST: GCTGCAATGCAACATGCAGATGACGAGGAGGACATCAATAAAGTGTTGAG GTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCT
genomic: GCTGCAATGCAACATGCAGATGACGAGGAGGACATCAATAAAGTGTTGAGgtaaacgacc ... cttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattaaaattttaacaccattgcttttttttttttgattatgcccttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
cccttacc CT-rich tract
attgcttttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttgtgggaatactctcataacatttttagcatgtactgtgtggtattaaaattttaacaccattgcttttttttttttgattatgcccttaccatagGTACTTCTCTTATGAACACTTCTATGTTATATACTGCAAGTTCTGGGAGCTGGATACCGACCATGATTTTTTGATTGATAAAGAGAACCTAATCAGATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- -ttgtggg
- - - - - - -actctca
- - - - - - - - - - - - - - - -gcatgta
- - - - - - - - - - - - - - - - - - - -tgtgtgg
- - - - - - - - - - - - - - - - - - - - - - - -attaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttatgcc