Sequence
atgc intronic sequence ATGC exonic sequence...agggtttaatacttaatgtttctctttatttatttggtctattgtatgtctttattctttcttgactttgaattgattacctactttgtgtaaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAAAATTTTATGCATCCTGCTACCAACTTACTTAAAGAAAAGCACCATGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g07090.1 (Oryza sativa), 3'ss of exon 3
agggtttaatacttaatgtttctctttatttatttggtctattgtatgtctttattctttcttgact-ttgaattgattac-ctactttgtgtaaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAAAATTTTATGCATCCTGCTACCAACTTACTTAAAGAAAAGCACCATGGAG
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-tcgtttcaccctgcaaaggtgtcttgcctttgttgtttt-tggttctgaaatacttgaggtgaattgtcatactaattgtacaggtttggctgttttgtagGCTGCCTTATGCTCTATAAGGATCGTACGGAAGGTTCCAGATTTGGCAGAGAACTTCATGGGCTCTGCTGTTTCACTACTGAAGGAAAAACATCACGGGG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G054210_T01 (Zea mays), 3'ss of exon 3
agggtttaatacttaatgtttctctttatttatttggt-ctattg-tatgtctttattctttcttgactttgaattgattacctactt-tgtgtaaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAAAATTTTATGCATCCTGCTACCAACTTACTTAAAGAAAAGCACCATGGAG
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---ctaccaaattcagtctccttgtgaatgttttcatcacaactgctgcatgcgtatttttggatgcaatttaattcatggtatacttctacttctttattagGCTGCTTTGTGCTCTATAAGGATTGTCAGGAAAGTGCCAGATTTGGCAGAGAACTTCATGGGCCTGGCTGCATCATTGTTGAAGGAGAAACACCATGGGG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G03800.1 (Glycine max), 3'ss of exon 2
agggtttaatacttaa--tgtttctctttatttatttggtctattgtatgtctttattctttcttgactttgaattgattacctactttgtgtaaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAAAATTTTATGCATCCTGCTACCAACTTACTTAAAGAAAAGCACCATGGAG
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-tgagttattaataaaactgttcccatttaactgcatgaatgatgagtgatgactaatcattatttattctca-taaattaactgtgctcactgctatatagGCAGCATTATGCTCTATAAGGATCATAAAGAAAGTTCCAGACTTGGCAGAAAATTTTATCAATCCTGCTACTTCCTTACTCAGAGAGAAGCATCATGGGG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G03890.1 (Glycine max), 3'ss of exon 3
--agggtttaatacttaatgtttctctttatttatttggtctattgtatgtct-ttattctttcttgactttgaattgattacctactttgtgtaaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAAAATTTTATGCATCCTGCTACCAACTTACTTAAAGAAAAGCACCATGGAG
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taatgtttgggttattaataaaactgctc--ccatttaactgcatgaatgacgactaatcattatttattctca-taaattaactgtgctcactgttatatagGCAGCATTATGCTCTATAAGGATCATAAAGAAAGTTCCCGACTTGGCAGAAAATTTTATCAACCCTGCTACTTCCTTACTCAGGGAGAAGCATCATGGGG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G39930.1 (Glycine max), 3'ss of exon 3
-agggtttaatacttaatgtttctctttatttatttggtctattgtatgtctttattctttcttgac--tttgaattgattacctactttgtgtaaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAAAATTTTATGCATCCTGCTACCAACTTACTTAAAGAAAAGCACCATGGAG
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tcgtgttgagtacttga-gttattcgcaaaaccttt--tccatttaacgtttttatttgttattgttcattctgataagctgactatacttactgttatatagGCAGCATTGTGCTCTGCAAGAATCATAAAGAAAGTTCCAGACTTGGCTGAAAATTTTGTCAATCCTGCTACTGCCTTACTAAGGGAGAAGCATCATGGAGMapped 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|161718068|gb|FC068577.1|FC068577EST: CTGAAGTGGAGAGATTGATGCAATTTCGAGATCCAAATATTCGGAAAAAA GCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAA
genomic: CTGAAGTGGAGAGATTGATGCAATTTCGAGATCCAAATATTCGGAAAAAAgtaagcattc ... taaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAA
EST:
gi|110720727|gb|EE096900.1|EE096900EST: CTGAAGTGGAGAGATTGATGCCATTTCGAGATCCAA-TATTCG-AAAAAA GCAGCTTTATGCTCTATAAGGAATATAAGGGAAAGTTCC-GATCTGGCCGA
genomic: CTGAAGTGGAGAGATTGATGCAATTTCGAGATCCAAATATTCGGAAAAAAgtaagcattc ... taaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGG-AAAGTTCCAGATCTGGCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtctttattctttcttgactttgaattgattacctactttgtgtaaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAAAATTTTATGCATCCTGCTACCAACTTACTTAAAGAAAAGCACCATGGAG
tttgtgtaaaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agggtttaatacttaatgtttctctttatttatttggtctattgtatgtctttattctttcttgactttgaattgattacctactttgtgtaaaaaatagGCAGCATTATGCTCTATAAGGATTATAAGGAAAGTTCCAGATCTGGCAGAAAATTTTATGCATCCTGCTACCAACTTACTTAAAGAAAAGCACCATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctactt