Sequence
atgc intronic sequence ATGC exonic sequence...actctttctgatgcttgtgttcttatactgcaatgtttttcttgaatttctcattgttatggagcactgatcattggaagtcttgattgttaaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G35280.1 (Glycine max), 3'ss of exon 10
-------------------------------------------------------------------actctttc-tgatgcttgtgtt--cttatactgcaa---tgtttt----tcttgaatttc--tcattgttatggagcactgatca---ttggaagtcttgattgttaaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT
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gtaatttggttataccctgctgctggatatctttttctgttggcaagcattagtttggccattataaattttttggcaatgcatacttctatttaaaaggaaaaactgatttgtgatcgtaagttctaatcagtcttccccccccccaacccccctttgttttccttggtgttaaatttcagGAGTTTGAGCCTTTAATACAAAAGCCTTTTTCTATTGTCTACTTCCACTCTGCTGCATCTTTGCAGAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G06730.1 (Glycine max), 3'ss of exon 11
-----actctttctgatgcttgtgttcttatactgcaatgtttttcttgaatttctcattgttatggagcactgatcattggaagtcttgattgttaaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT
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ttgaaacttatttatgaccataagttttaatccttatccttttggcttacgctgttcactttttgaatatactcaaaatcg----tcttggt-gttaaatttcagGAGTTTGAGCCTATAATGCAGAAGCCTTATACTATTGTATACTTTCACTCTGCTTCATCTTTGCAGAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 10
-----------------------------------------------------------------actctttctgatgcttgtgttcttat---actgcaatgtttttcttgaatttctca-ttgttatggagcactgatcattggaagtcttgattg---ttaaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT
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gtaatttggttataccctgctgctggatatctttttctgttggcaagcattagttggccattataatttttttagcaatgcatacttctatttgaaagtaaaaactgatttgtgttcataagttctaatctttcttttttcccccgttgttttccttggtgttaaatttcagGAGTTTGAGCCGTTAATACAGAAGCCTTTTTCTATTGTCTACTTCCACTCTGCTGCATCTTTGCAGGT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G12670.1 (Glycine max), 3'ss of exon 10
-------------------------------------------------------------------------------------------actctttctga----tgcttgtgttcttatactgcaat-gtttttcttgaatttctcattgttatggagcactgatcattggaa---gtcttgattgttaaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT
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gtgattcagttatatccttcagcttgacatttcctgctgacaagcacaagttcagctattataaacttcatcttaaatgttgggaatgcttacttctcatgaaactcatttatgaccataagttttaatcgttatccttttggcttacgctgtttacttttttaatttactgaaaattgtcttggt-gttaaatttcagGAGTTCGAACTTATAATGCAGAAGCCTTACACTATTGTATACTTTCACTCTGCTTCATCTCTGCAGAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 10
actctttctgatgcttgtgttcttatactgcaatgtttttcttgaatttctcattgttatggagcactgatcattggaagtcttgattgttaaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT
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--------gtaagcacacaatcacatacctcgatggttctct--aactcactgcagttctgt----ctcaaaactaacatac---ggtgcaaatgtacagGAATTTGAACCTGTGATACAAAAGCCTTATTCGATTGTCTACTTTCATTCTGCAGCATCGTTACAAGTMapped 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|77580521|gb|DV219155.1|DV219155EST: TTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCATGTAGTAAAG GAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCA
genomic: TTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCATGTAGTAAAGgtaaaaagat ... taaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCA
EST:
gi|45368236|gb|CK906595.1|CK906595EST: TTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCATGTAGTAAAG GAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCA
genomic: TTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCATGTAGTAAAGgtaaaaagat ... taaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttctcattgttatggagcactgatcattggaagtcttgattgttaaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT
ttgattgttaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actctttctgatgcttgtgttcttatactgcaatgtttttcttgaatttctcattgttatggagcactgatcattggaagtcttgattgttaaatttcagGAGTTTGAGCCTGTGATACAGAAGCCTTATACTATTGTTTACTTCCACTCAGCAGCATCGTTGCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- -ctttctg
- - - - - - gcttgtg
- - - - - - - - - - - - - -ctgcaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggagca