Sequence
atgc intronic sequence ATGC exonic sequence...agtccacataaaatgctcattctgtagttattcaatttatatgacctgattctaagtaaagcatttctcatcattcctatgtcgttttcatttcatacagCCGGAGCCAGAGTTTCGACCTCCAATGTCTGAAGTTGTGCAAGCACTGGTTCGGTTAGTACAAAGAGCAAGTGTGGTCAAGCGGCGCTCAAGTGATGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA09G00970.1 (Glycine max), 3'ss of exon 15
agtccacataaaatgctcattctgtagttattcaatttatatgacctgattctaagtaaagcatttctcatcattcctatgtcgttttcatttcat--acagCCGGAGCCAGAGTTTCGACCTCCAATGTCTGAAGTTGTGCAAGCACTGGTTCGGTTAGTACAAAGAGCAAGTGTGGTCAAGCGGCGCTCAAGTGATGAAT
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-ggcattgttgaccaaatggtgcacgtaaacttagttggtgttgttgcaatcatcataattcttcaaaagatgttacta-atgattttgattgtgtgcacagCCGGAACCCGAATTTCGACCTCCGATGTCTGAGGTGGTGCAAGCATTGGTTCGGTTAGTGCAAAGAGCAAGTGTGGTTAAAAGACGACCAAGTGAGGAAT
upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA15G11820.1 (Glycine max), 3'ss of exon 15
agtccacataaaatgctcattctgtagttattcaatttatatgacctgattctaagtaaagcatttctc--atcattcctat--gtcgttttcattt--catacagCCGGAGCCAGAGTTTCGACCTCCAATGTCTGAAGTTGTGCAAGCACTGGTTCGGTTAGTACAAAGAGCAAGTGTGGTCAAGCGGCGCTCAAGTGATGAAT
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------taattgttgatcaatatgatgcacgtaaacttatttggtggtgttgccattatcataattcttcaaaaaatgttagtaatgattttgattttgcgcacagCCGGAACCCGAATTTCGACCTCCGATGTCTGAGGTGGTGCAAGCATTGGTTCGGTTAGTGCAAAGAGCAAGTGTGGTTAAAAGACGACCCAGTGAAGAAT
upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: PP1S204_22V6.1 (Physcomitrella patens), 3'ss of exon 14
------agtccacataaaatgctcattctgtagttattcaatttatatgacctgattctaagtaaagcatttctcatcattcctatgtcgttttcatttcata--cagCCGGAGCCAGAGTTTCGACCTCCAATGTCTGAAGTTGTGCAAGCACTGGTTCGGTTAGTACAAAGAGCAAGTGTGGTCAAGCGGCGCTCAAGTGATGAAT
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ttcaccgcttgagttgaaggagacaagccggagttg----atttatcttcctcgat---aattgaagttttcctc-taacacttgtggttttgcaatgtgatgtgcagCCGGAGCCCGAGTTCCGACCCCCGATGTCTGAAGTGGTGCAGGCACTTGTAAGGCTGATGCAGCGTGCGAGTCTGAGCAAACGCAGATCGGAGTCCGCTGMapped 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|33410441|gb|CF216068.1|CF216068EST: CTGCAAAGTTTTTGTCACGTTTTGCCGACATCATTGCCTTGTGTGTTCAG CCGGAGCCAGAGTTTCGACCTCCAATGTCTGAAGTTGTGCAAGCACTGGTT
genomic: CTGCAAAGTCTTTGTCACGTTTTGCTGACATCATTGCCTTGTGTGTTCAGgtaaaacttc ... tttcatacagCCGGAGCCAGAGTTTCGACCTCCAATGTCTGAAGTTGTGCAAGCACTGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgattctaagtaaagcatttctcatcattcctatgtcgttttcatttcatacagCCGGAGCCAGAGTTTCGACCTCCAATGTCTGAAGTTGTGCAAGCACTGGTTCGGTTAGTACAAAGAGCAAGTGTGGTCAAGCGGCGCTCAAGTGATGAAT
acctgat putative branch site (score: 4)
ttttcatttc putative PPT
ttttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtccacataaaatgctcattctgtagttattcaatttatatgacctgattctaagtaaagcatttctcatcattcctatgtcgttttcatttcatacagCCGGAGCCAGAGTTTCGACCTCCAATGTCTGAAGTTGTGCAAGCACTGGTTCGGTTAGTACAAAGAGCAAGTGTGGTCAAGCGGCGCTCAAGTGATGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- -ccacata
- - - - - -aatgctc
- - - - - - - - - - - - - - - - - - - - - - -ctgattc
- - - - - - - - - - - - - - - - - - - - - - - - - - -aagtaaa