Sequence
atgc intronic sequence ATGC exonic sequencegtaagacttctggttctttccttgtagagttcacgtaaactgatatgtcttctgaaattatccatgtctgccaaatgtaatgctcgattcatggtgatttgatccacagGAACAAGCCCAAGAAGAAGGCAGAGAAAAGGCAAAGAGAGCCACGGTTCGCCTTCATGACTAAGAGTGAGGTCGATCATCTAGAGGATGGATATAGATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g02810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g43650.1 (Oryza sativa), 3'ss of exon 1
gtaagacttctggttctttccttgtagagttcacgtaaactgatatgtcttctgaaattatccatgtctgccaaatgtaatgctcgattcatggtgatttg-atc--cacagGAACAAGCCCAAGAAGAAGGCAGAGAAAAGGCAAAGAGAGCCACGGTTCGCCTTCATGACTAAGAGTGAGGTCGATCATCTAGAGGATGGATATAGATGG
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gcagaaatatcaactgatcttctg---aatccatatcatct--------ctctgtttctagcta-atccacctgaccttatttttgatattttgtaccatgcatctacacagGAACAAGCCCAAGAAGAAAGCTGAGAAGAGGCAGCGGCAGCCTCGCGTGGCGTTCCTCACCAAGAGCGAGGTTGATCACCTCGAGGACGGCTACCGGTGG
upper sequence: Vv10s0003g02810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G453571_T01 (Zea mays), 3'ss of exon 1
gtaagacttctggttctttccttgtagagttcacgtaaactgatatgtcttctgaaattatccatgtctgccaaatgtaatgctcgattcatggtgat--ttgatccacagG------AACAAGCCCAAGAAGAAGGCAGAGAAAAGGCAAAGAGAGCCACGGTTCGCCTTCATGACTAAGAGTGAGGTCGATCATCTAGAGGATGGATATAGATGG
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----------tgtacgtgtgttcgaaagttttgaatagacgattgattgaccaataataatgcatgt-tggcatgtgtgtgtgtgtatgcatgtgggtcgtctgcacgcagGGCGGCCAACAAGGGGAAGGTGAAGGGCGAGAAGCGGCCGCGGCAGCCACGGTTCGCGTTCATGACCAAGAGCGAGGTCGATCACCTCGAGGACGGCTAC------Mapped 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|71859662|gb|DT008717.1|DT008717EST: CGGCAGGCCAAAGTGTCTGAATTAGACGGAGGGGATGGCTCTAAGAAAGT GAACAAGCCCAAGAAGAAGGCTGAGAAAAGGCAAAGAGAGCCGCGGTTCGC
genomic: CGGCAGGCCAAAGTGTCTGAATTAGACGGAGGGGATGGCTCAAAGAAAGTgtaagacttc ... tgatccacagGAACAAGCCCAAGAAGAAGGCAGAGAAAAGGCAAAGAGAGCCACGGTTCGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattatccatgtctgccaaatgtaatgctcgattcatggtgatttgatccacagGAACAAGCCCAAGAAGAAGGCAGAGAAAAGGCAAAGAGAGCCACGGTTCGCCTTCATGACTAAGAGTGAGGTCGATCATCTAGAGGATGGATATAGATGG
atttgat putative branch site (score: 5)
aaatgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagacttctggttctttccttgtagagttcacgtaaactgatatgtcttctgaaattatccatgtctgccaaatgtaatgctcgattcatggtgatttgatccacagGAACAAGCCCAAGAAGAAGGCAGAGAAAAGGCAAAGAGAGCCACGGTTCGCCTTCATGACTAAGAGTGAGGTCGATCATCTAGAGGATGGATATAGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA