Sequence
atgc intronic sequence ATGC exonic sequence...tgtctttgctctatatgtttgcaaaatatctatgtgctttatatgattgcagacacacaaggtgagttttagtagtaacatttggatctttgtttttcagGGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAGTACGGCTATGGGGGAATCATCCGGGGCATGCATCTTGGTTCTTCTGCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G07580.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------------------tgtctttgctctatatgtttgcaaaatat-ctatgtgctttat----atgattgcagacacacaa--ggtgagttttagtagtaacatttggat---ctttgtttt---tcagGGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAGTACGGCTATGGGGGAATCATCCGGGGCATGCATCTTGGTTCTTCTGCTC
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gtcagtaatgcctgtgtagccccaactcatgaactaacatcaaatacttttgagctttctttgatgctactattatttaactcataatgctgttattttccaatacatattttgtccattgtgagcaagaatgctactagcctactgttattcttttatgttggtttgctaacagccatggatttatgtcagGGAAGAACGGCACTTTGGGATTCCATCTTGCTTCTGTGCCATAAAATTAAGATTGTGTATGGAGGTGTTATTAGGGGCATGCATTTAGGCGCTTCAGCTT
upper sequence: Vv06s0004g03150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G15890.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------tgtc-tttgctctatatgtttgcaaa-atatctatgtgctttatatgattgcagac-----acacaaggtgagtttta---gtagtaacatttggatctttg--tttttcagGGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAGTACGGCTATGGGGGAATCATCCGGGGCATGCATCTTGGTTCTTCTGCTC
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gtcagtaatgcctgtatagcttcatgttatgaactgacatcaaatacttttgagccttctttattatttaacccacattccaatacatatcatagtgtacattgtgagcaagcaggctactagcctactgttattttttcatgttggtttgctaacagctatggatttgtcagGGAAGAACGGCACTTTGGGATTCCATCTTGCTTCTGTGCCATAAAATTAAGATCGGGTATGGAGGTGTTATTAGGGGCATGCATTTAGGCGCTTCAGCTTMapped 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|110705324|gb|EE082069.1|EE082069EST: CTCCAATCTTTGCCTTGTACTGGGATAAGAAGCTGCAGTTCTCTCTTCAG GGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAG
genomic: CTCCAATCTTTGCCTTGTACTGGGATAAGAAGCTGCAGTTCTCTCTTCAGgtaggtggtg ... tgtttttcagGGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAG
EST:
gi|110423638|gb|EC989986.1|EC989986EST: CTCCAATCTTTGCCTTGTACTGGGATAAGAAGCTGCAGTTCTCTCTTCAG GGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAG
genomic: CTCCAATCTTTGCCTTGTACTGGGATAAGAAGCTGCAGTTCTCTCTTCAGgtaggtggtg ... tgtttttcagGGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgcagacacacaaggtgagttttagtagtaacatttggatctttgtttttcagGGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAGTACGGCTATGGGGGAATCATCCGGGGCATGCATCTTGGTTCTTCTGCTC
tagtaac putative branch site (score: 1)
tctttgtttttc putative PPT
tttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtctttgctctatatgtttgcaaaatatctatgtgctttatatgattgcagacacacaaggtgagttttagtagtaacatttggatctttgtttttcagGGAAGAACTGCACTATGGGATTCCATCTTAATTCTGTGCCACAGGATTAAGTACGGCTATGGGGGAATCATCCGGGGCATGCATCTTGGTTCTTCTGCTC
- - - - - - - - - - -caaaata
- - - - - - - - - - - - - - - tatgtgc
- - - - - - - - - - - - - - - - - - - - - -tgattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - acacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agtaaca