Sequence
atgc intronic sequence ATGC exonic sequence...taatcataatcctttatgaagaaacaacatccaatgatatttatattcatgagatgaaattgattatgcattgtttcctttcctgggggtgtaattgcagTTCTTCAGAAGCAGTCAATAGGATATATGAGATCAAAGGCCGCAAACATACAAGCCCTCTTGCAATTTGTGTTGGGGATGTATTGGACATACAGCGCTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g10450.1 (Oryza sativa), 3'ss of exon 2
------taatcataat---cctttatgaagaaacaacatccaatgatatttatattcatgagatgaaattgattatgcattgtttcctttcctgggggtgtaattgcagTTCTTCAGAAGCAGTCAATAGGATATATGAGATCAAAGGCCGCAAACATACAAGCCCTCTTGCAATTTGTGTTGGGGATGTATTGGACATACAGCGCTTT
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tcattttaagctaggtttacttttttggagattctctgactggt--tggctgcattcatccattgg--ttatttttaaaatgggtctctcaat-----cttcatgacagCTCTGCAGAAGCAGTTAATCGTATATATGAGATCAAAGGACGCGTACAGACACGGCCTCTTGCAATCTGTGTTGCTGATGTCCCAGACATATCACGGTTT
upper sequence: Vv06s0004g02920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G055217_T01 (Zea mays), 3'ss of exon 2
taatcataatcctttatgaaga-aacaacatccaatgatatttatattcatgagatgaaattgattatgcattgtttcctttcctggggg---tgtaattgcagTTCTTCAGAAGCAGTCAATAGGATATATGAGATCAAAGGCCGCAAACATACAAGCCCTCTTGCAATTTGTGTTGGGGATGTATTGGACATACAGCGCTTT
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---acttatccattgaagatgagaatttcatttaggggtttctttgggtgtttcattttttgtattct-tattggcttggtccttaaaacactcttcatgacagCTCTGCAGGAGCAGTTAATCGTATTTATGAGATCAAAGGACGCATACAAACAAGGCCTCTGGCAATTTGTGTTGGTGATGTCTCAGACATATCACGGTTT
upper sequence: Vv06s0004g02920.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G07280.1 (Glycine max), 3'ss of exon 2
taatcataatcctttatgaagaaacaacatccaatgatatttatattcatgagatgaa--attgattatgcattgtttcctttcctgggggtgtaattgcagTTCTTCAGAAGCAGTCAATAGGATATATGAGATCAAAGGCCGCAAACATACAAGCCCTCTTGCAATTTGTGTTGGGGATGTATTGGACATACAGCGCTTT
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cactccagtctccacatatttagacc-taccttgtgtctctcccaattgcataccgaatgattgatgattacctgttaccttctttgtgg-catgttggcagCTCATTGGAAGCAGTTAACAGAATTTACGAGATTAAAGGCCGTAGACATACAAGCCCTCTGGCTATTTGTGTTGGTGACGTATCAGATATAGCCCGTTTTMapped 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|71857800|gb|DT006855.1|DT006855EST: GTCATTGCCGTGCCCACTGATACCCTCTATGGATTCGCTTGTGATGCTTG TTCTTCAGAAGCAGTCAATAGGATATATGAGATCAAAGGCCGCAAACATAC
genomic: GTCATTGCCGTGCCCACTGATACCCTCTATGGATTCGCTTGTGATGCTTGgtaaattttt ... gtaattgcagTTCTTCAGAAGCAGTCAATAGGATATATGAGATCAAAGGCCGCAAACATAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcatgagatgaaattgattatgcattgtttcctttcctgggggtgtaattgcagTTCTTCAGAAGCAGTCAATAGGATATATGAGATCAAAGGCCGCAAACATACAAGCCCTCTTGCAATTTGTGTTGGGGATGTATTGGACATACAGCGCTTT
aattgat putative branch site (score: 4)
atgaaattgattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatcataatcctttatgaagaaacaacatccaatgatatttatattcatgagatgaaattgattatgcattgtttcctttcctgggggtgtaattgcagTTCTTCAGAAGCAGTCAATAGGATATATGAGATCAAAGGCCGCAAACATACAAGCCCTCTTGCAATTTGTGTTGGGGATGTATTGGACATACAGCGCTTT
- - - - - - - - -gaagaaa
- - - - - - - - - - - - - acatcca
- - - - - - - - - - - - - - - - - - - - - - - -catgaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattga