Sequence
atgc intronic sequence ATGC exonic sequence...aacttacaaattatttttgtttttagttatttccttggaagatatgtttgtaagtttataagttttagaagtaatcttcttttttgcttctgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACATATGCAGATTTCTGCCAGTTTTGTGGTTCATTCATTCAACACATGTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0125g00250.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G00770.1 (Glycine max), 3'ss of exon 1
aacttacaaattatttttgtttttagttatttccttggaagata-tgtttgtaagtttataagttttagaagtaatcttcttttttgcttctgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACATATGCAGATTTCTGCCAGTTTTGTGGTTCATTCATTCAACACATGTTGG------------
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-----gtatgctccttctattcttc----ttccatcgatatattctccttttacacatgataattaatgaatgaatcaagcttctatccttttat---taa--tgaatggaagCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAACACATGCTAGAGATGCGCATAG
upper sequence: Vv00s0125g00250.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G00770.2 (Glycine max), 3'ss of exon 1
aacttacaaattatttttgtttttagttatttccttggaagata-tgtttgtaagtttataagttttagaagtaatcttcttttttgcttctgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACATATGCAGATTTCTGCCAGTTTTGTGGTTCATTCATTCAACACATGTTGG
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-------gtatcctccttctattc--ttcttccatcgatatattctgcttttacgcatgataattaatgaatgaatcaagtttcgt---tttggtg-ttagGTTGGACGGAAGCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAGCACATGCTAG
upper sequence: Vv00s0125g00250.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G26000.2 (Arabidopsis thaliana), 3'ss of exon 2
aacttacaaattatttttgtttttagttatttccttggaagatatg---tttgtaagtttataagttttagaagtaatcttcttttttgcttctgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACATATGCAGATTTCTGCCAGTTTTGTGGTTCATTCATTCAACACATGTTGG
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gtaatattcctctcctctatgattcattcttccgcttgattgcatcgatttctttttttcactggaattatatgtttgaatctggaataattttgtt--ttagATTGGAAGGAACCCTCTCGTTTGCGTTCTTGGGGTGCCCAACCACATGACATATGCAGATTTTTGCCAGTTCTGCGGCTCCTTCATTCAGCACATACTGGMapped 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|110724679|gb|EE100720.1|EE100720EST: TCATGCATCTCTACCGTGACGACATCTCCCTTTCGTCTTCTGATCTTCCT GTTGGAAGGAATGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACA
genomic: TCATGCATCTCTACCGTGACGACATCTCCCTTTCGTCTTCTGATCTTCCTgtaagcggag ... tgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgtaagtttataagttttagaagtaatcttcttttttgcttctgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACATATGCAGATTTCTGCCAGTTTTGTGGTTCATTCATTCAACACATGTTGG
ttctgat putative branch site (score: 3)
tcttcttttttgcttc CT-rich tract
tttataagttttagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacttacaaattatttttgtttttagttatttccttggaagatatgtttgtaagtttataagttttagaagtaatcttcttttttgcttctgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACATATGCAGATTTCTGCCAGTTTTGTGGTTCATTCATTCAACACATGTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - -acaaatt
- - - - - - - - - - - - - - - ttccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaagtaa