Sequence
atgc intronic sequence ATGC exonic sequence...atggtcttaatcattctcccaaatgtcatggtaaatggatttatgaaaaggatatccatctagacttataatcatgtgtttttcatgacacatattgcagGTTTAGCTGCCTATATTTTCACAAAAAACCTACAACGATCTTGGCGTGTCTCTGAAGTTCTTGAATATGGACTTGTTGGTGTCAGTGAAGGATTAATTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0085g00870.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 3'ss of exon 17
atggtcttaatcattctcccaaatgtcatggtaaatggatt-tatgaaaaggatatccatctagacttataatcatgtgtttttcatgacacata-ttgcagGTTTAGCTGCCTATATTTTCACAAAAAACCTACAACGATCTTGGCGTGTCTCTGAAGTTCTTGAATATGGACTTGTTGGTGTCAGTGAAGGATTAATTCC
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--tgtagaaatgcatcccctattgctagctgtacaaacatgacatgtttcccttgttccttccaatccctcaagaattatcttcttcaatgattaattgcagGCTTAGCTGCATATATCTTCACAAAGAGCATACCTCGTTCATGGCGCGTTTCGGAAGCTCTTGAATATGGACTAGTCGGTGTGAACGAGGGGATCATCTC
upper sequence: Vv19s0085g00870.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 17
--------------------------------------------atggtcttaatcattctcccaaat-gtcatggtaaatggatttatgaaaaggatatccatctagacttataatcatgtgttttt----catgacac-------atat-tgcagGTTTAGCTGCCTATATTTTCACAAAAAACCTACAACGATCTTGGCGTGTCTCTGAAGTTCTTGAATATGGACTTGTTGGTGTCAGTGAAGGATTAATTCC
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gtagttcgtttggttcttctttatacagccttgaagaatggtttttgccctccctccccctcctatacagcctaggttaatagttttgtcatatttg-gtcactcttggtttaatgttgtgaaactttggaacatggaactgcctgtacatatgaagGTTTGGGTTCATATGTATTTACAAACAGTATCCAACGATCATGGCGTGTTGCTGAGGCTCTTGAATATGGACTAGTGGGTGTTAATGAAGGAGTAATTTC
upper sequence: Vv19s0085g00870.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA15G41690.1 (Glycine max), 3'ss of exon 17
-----------------------------------------------------------------atggtcttaatcattctcccaaatgtcatg-gtaaatggatttatgaaaaggatatccatctagacttataatcatgtgttttt----catg-----acacatat---tgcagGTTTAGCTGCCTATATTTTCACAAAAAACCTACAACGATCTTGGCGTGTCTCTGAAGTTCTTGAATATGGACTTGTTGGTGTCAGTGAAGGATTAATTCC
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gtagttcttgtggctctagtttcaagtttgattcttctttatacagccttgaagaatagtttttgccctcccccctccccctcctatacagcctatgttaatagttttgtcatatcta-gtcactcttggtttaacgttgtcaaactttggaccatggatctacctgtacatatgaagGTTTGGGTTCATACATATTTACAAACAGTATCCAACGATCATGGCGTGTTGCTGAGGCTCTAGAATATGGACTTGTGGGTGTTAATGAAGGAGTAATTTCMapped 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|110361758|gb|EC925254.1|EC925254EST: TTTTAAAACCGAGGAGGAAGCCATCTGCATTGCAAATGACACTGATGAAG GTTTAGCTGCCTATATTTTCACAAAAAACCTACAACGATCTTGGCGTGTCT
genomic: TTTTAAAACCGAGGAGGAAGCCATCTGCATTGCAAATGACACTGATGAAGgtttctttta ... catattgcagGTTTAGCTGCCTATATTTTCACAAAAAACCTACAACGATCTTGGCGTGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaggatatccatctagacttataatcatgtgtttttcatgacacatattgcagGTTTAGCTGCCTATATTTTCACAAAAAACCTACAACGATCTTGGCGTGTCTCTGAAGTTCTTGAATATGGACTTGTTGGTGTCAGTGAAGGATTAATTCC
ttataatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggtcttaatcattctcccaaatgtcatggtaaatggatttatgaaaaggatatccatctagacttataatcatgtgtttttcatgacacatattgcagGTTTAGCTGCCTATATTTTCACAAAAAACCTACAACGATCTTGGCGTGTCTCTGAAGTTCTTGAATATGGACTTGTTGGTGTCAGTGAAGGATTAATTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - -ttctccc
- - - - - - - - - - - - gtcatgg
- - - - - - - - - - - - - - - - aaatgga
- - - - - - - - - - - - - - - - - - - - - - -aaaagga
- - - - - - - - - - - - - - - - - - - - - - - - - - -atccatc