Sequence
atgc intronic sequence ATGC exonic sequencegtataattcaaatcaaattgggctacctaagccgttaccccttatctgttgtgttgctctgttgatcagaactgaactgaaaatgcagGTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATATAAAATCGAGCAACATTTTACTTGATAAGCAGTGGAATCCCAAGGTTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g34430.1 (Oryza sativa), 3'ss of exon 3
--gtataattcaaatcaaattgggctacctaagccgttaccccttatctgttgtgttgctctgttgatcagaactgaactgaaaatgcagGTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATATAAAATCGAGCAACATTTTACTTGATAAGCAGTGGAATCCCAAGGTTTCA
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gtctgtgccttgtatctcattg--ttgc--ggcccagtgaatcttg-ctgccattcta-tctgtttacataaattctgctgttc-tgtagGTTAATGTATTTGCATGAGGGACTTGAGCCGAAGGTGGTTCACCGTGATGTCAAGTCGAGCAACATCCTCCTTGATAAGCACTGGAATGCTAAGCTCTCT
upper sequence: Vv07s0031g00480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G050861_T01 (Zea mays), 3'ss of exon 3
gtataattcaaatcaaattgggctacctaagccgttaccccttatctgttgtgttgctctgttgatcagaactgaactgaaaatgcagGTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATATAAAATCGAGCAACATTTTACTTGATAAGCAGTGGAATCCCAAGGTTTCA
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-----gtatgcactttgctgacttattactgtagtcttgtttt-tttgctgtcactatctgcttacattattttacctaattgtgaagGTTAATGTATTTGCACGAGGGACTTGAGCCAAAGGTTGTTCACCGTGATGTCAAGTCGAGCAATATTCTTCTTGACAAGCATTGGAATGCAAAGCTTTCT
upper sequence: Vv07s0031g00480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G39420.1 (Glycine max), 3'ss of exon 4
----------------------------------------------gtataattcaaatcaaattgggctacctaagccgttaccccttatctgttgtgttgctctgttgatcagaa-------ctgaactgaaaatg---------------cagGTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATATAAAATCGAGCAACATTTTACTTGATAAGCAGTGGAATCCCAAGGTTTCA
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gtaaacacttccaagctctgcttcactttctcttctcatcttattattaccttccttttaaatttcatcgattccttcagtttccaatttattagtttattgttccgttgggaaagatgcttttccgggttgtaactgttgtttgcttttcaacagGTTAACTTATCTTCATGAGGGGTTGGAACCAAAAGTTGTTCACCGTGATATTAAATCAAGCAACATTTTGCTTAGTAAGCAGTGGAATGCGAAGGTGTCA
upper sequence: Vv07s0031g00480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G05830.1 (Glycine max), 3'ss of exon 3
----------gtataattcaaatcaaattgggctacctaagccgttacccc-ttatctgttgtgttgctctgttgatcagaactgaactgaaaat----gcagGTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATATAAAATCGAGCAACATTTTACTTGATAAGCAGTGGAATCCCAAGGTTTCA
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gtaaacacttcaacactaaacaaccaattaatatagtttttttattgttccgttgggaaatatgctttttttggggttgtaactgttgtttgcttttcaacagATTAACTTATCTTCACGAGGGGTTAGAACCAAAAGTTGTTCACCGTGATATTAAATCAAGCAACATTTTGCTCAGTAAGAAGTGGAATGCGAAGGTTTCAMapped 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|294965685|gb|GW839140.1|GW839140EST: CCTCTTACTTGGGAGATTCGAATGAATATAATCCTGGGAACTGCAAAAGG GTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATAT
genomic: CCTCTTACTTGGGAGATTCGAATGAATATAATCCTGGGAACTGCAAAAGGgtataattca ... gaaaatgcagGTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaccccttatctgttgtgttgctctgttgatcagaactgaactgaaaatgcagGTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATATAAAATCGAGCAACATTTTACTTGATAAGCAGTGGAATCCCAAGGTTTCA
tgttgat putative branch site (score: 4)
tgaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataattcaaatcaaattgggctacctaagccgttaccccttatctgttgtgttgctctgttgatcagaactgaactgaaaatgcagGTTAACTTATCTTCATGAGGGACTTGAACCCAAAGTTGTTCACCGTGATATAAAATCGAGCAACATTTTACTTGATAAGCAGTGGAATCCCAAGGTTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA