Sequence
atgc intronic sequence ATGC exonic sequence...ttttttctacttttcttctttattttctttcttttgtattttccctcaaattttctgggatctaatataaccttggctactaaaattttatgtgctttagGCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTATCGGTCTTTTTTCATCCCATATCTCTGGGAGCGTAGGAATGTTTTTGGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G34570.1 (Glycine max), 3'ss of exon 9
ttttttctacttttcttctttattttctttcttttgtattttccctcaaattttctgggatctaatataaccttggctactaaaattttatgtgctttagGCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTATCGGTCTTTTTTCATCCCATATCTCTGGGAGCGTAGGAATGTTTTTGGCA
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-----------------gtaaaagtcattcttgaagtttctcatattgaatt--ctaatatttaattttaa-ttgtttg--gatattttttgtatttcagCCTATTGCTGCATTGCCTTATCTGGACAGGGAGCTTTCACCGGCACTGTATAGGTCCTTTTTCATTCCTTACCTTTGGCAAGAGAAGAATGTTTTTGGAA
upper sequence: Vv19s0014g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G35830.1 (Glycine max), 3'ss of exon 6
ttttttctacttttcttctttattttctttcttttgtattttccctcaaattttctgggatctaatataaccttggctactaaaattttatgtgctttagGCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTATCGGTCTTTTTTCATCCCATATCTCTGGGAGCGTAGGAATGTTTTTGGCA
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-----------------gtaaaagtagtgcttgaagtttctcaatttgaatt--ctaatatttgcttttaa-ttgtttg--gatattgtttgtatttcagCCTATTGCTGCATTGCCTTATCTGGACAGGGAGCTTTCACCAGCACTGTATAGGTCCTTTTTCATTCCTTACCTTTGGCAAGAGAAGAATGTTTTTGGCA
upper sequence: Vv19s0014g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G16900.1 (Arabidopsis thaliana), 3'ss of exon 9
ttttttctacttttcttctttattttctttcttttgtattttccctcaaattttctgggatctaatataaccttggctactaaaattttatgtgctttagGCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTATCGGTCTTTTTTCATCCCATATCTCTGGGAGCGTAGGAATGTTTTTGGCA
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----gtataggaatcaaacc-atcttcctgaaacagaatccatctttgatttcacttcacttc--ttcaa--ttggttgttttgacccttt---tttcagGCTATTGCGGTGTTGCCTTATTTGGACAGAGAGCTGTCGCCAGCTAAGTATAGATCGTTCTTCATCCCGCACATGTGGCAGGAGAAAAATGTGTTTGGCAMapped 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|34546475|gb|CF514707.1|CF514707EST: AGCTTCAACGACCCTACCCTTCCCGTGGAAGTGACTTATCAACTTGGGAG GCTGTTGCGGTGTTCCCTTATCTGGACAGGGAGCTTTCCCCTGCAACTTAT
genomic: AGCTTCAACGACCCTACCCTTCCCGTGGAAGTGACTTATCAACTTGGGAGgtaaaactat ... tgtgctttagGCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTAT
EST:
gi|34546390|gb|CF514622.1|CF514622EST: AGCTTCAACGACCCTACCCTTCCCGTGGAAGTGACTTATCAACTTGGGAG GCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTAT
genomic: AGCTTCAACGACCCTACCCTTCCCGTGGAAGTGACTTATCAACTTGGGAGgtaaaactat ... tgtgctttagGCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaattttctgggatctaatataaccttggctactaaaattttatgtgctttagGCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTATCGGTCTTTTTTCATCCCATATCTCTGGGAGCGTAGGAATGTTTTTGGCA
tactaaa putative branch site (score: 1)
tactaaaattttatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttttctacttttcttctttattttctttcttttgtattttccctcaaattttctgggatctaatataaccttggctactaaaattttatgtgctttagGCTGTTGCGGTGTTGCCTTATCTGGACAGGGAGCTTTCACCTGCAACTTATCGGTCTTTTTTCATCCCATATCTCTGGGAGCGTAGGAATGTTTTTGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - -tttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actaaaa