Sequence
atgc intronic sequence ATGC exonic sequencegtaaggttttagctaacttgagttccctatctttttattgctgcattcttcttctcatgcaatttatgggtaaatcttgaacagGTCTAATTTTCTGGGTACTAAATTCACCATCTACGACAGTCAGCCGCCACATGACCCTGCAGTCCAGTCGAATTGTCAGTCAAACGGAAGATTACATTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12660.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S222_25V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------gtaaggttttagctaacttgagttccctatctttttattgctgcattcttcttctcatgcaatt-tatgggtaaatcttgaac----agGTCTAATTTTCTGGGTACTAAATTCACCATCTACGACAGTCAGCCGCCACATGACCCTGCAGTCCAGTCGAATTGTCAGTCAAACGGAAGATTACATTCA--
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aatttcagtttctttcacatagaaaaacaagagaacatttgcttgatatgtcaacgtgtgtcttattaactggttgtgcgatttacccgtttactggtagATCGAATTTCCTGGGCACGAAATTCACAATCTACGACAGTCAGCCTCCCCACAGTGGTGTGGTAGCGTCCAACCGT--GGCACTCGGCGTATGGGATCGAAG
upper sequence: Vv18s0001g12660.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S152_91V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------------------------------------------------------------------------gtaaggttttagctaacttgagtt--ccctatc-tttttattgctgcattctt-cttctcatgcaatttatgggtaaatct-tgaacagGTCTAATTTTCTGGGTACTAAATTCACCATCTACGACAGTCAGCCGCCACATGACCCTGCAGTCCAGTCGAATTGTCAGTCAAACGGAAGATTACATTCA--
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gtatccttaatcctatagtcttgacatcgtggacacggatcttttcattctgattcgtacatatgagtttgcaacttgtgctattcaatcctattttcatcagcctgatgattttctttggagcatgctaactgattatattatgtgtatgcccgtctatccacagGTCCAATTTCCTGGGTACAAAGTTCACAATCTACGACAGTCAGCCATCGCACAACGGGGTGGCAGCATCCAACCGCGGGGCC--TGGCGTATGGGAACCAAG
upper sequence: Vv18s0001g12660.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S152_93V6.1 (Physcomitrella patens), 3'ss of exon 3
---------gtaaggttttagctaacttgagttccctatctttttattgctgcattcttcttctcatgcaatttatgggtaaatcttga-------acagGTCTAATTTTCTGGGTACTAAATTCACCATCTACGACAGTCAGCCGCCACATGACCCTGCAGTCCAGTCGAATTGTCAGTCAAACGGAAGATTACATTCA--
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agtggttaattttggtttcttcgttgttaaaggcagtatattaggtttccatcactctttgggacatactaactgtttgtgtataccgatgtatccacagGTCCAATTTCCTGGGTACAAAGTTCACAATCTACGACAGTCAGCCATCGCACAACGGGGTGGCAGCATCCAACCGCGGGGCC--TGGCGTATGGGAACCAAGMapped 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|71862110|gb|DT011165.1|DT011165EST: TTTGGGGACGATTTCTCTCGAGCAACCAATGCATATGTTGGAAAATTAAA GTCTAATTTTCTGGGTACTAAATTCACCATCTACGACAGTCAGCCGCCACA
genomic: CTTGGGGACGATTTCTCTCGAGCAACCAATGCATATGTTGGAAAATTAAAgtaaggtttt ... tcttgaacagGTCTAATTTTCTGGGTACTAAATTCACCATCTACGACAGTCAGCCGCCACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttttattgctgcattcttcttctcatgcaatttatgggtaaatcttgaacagGTCTAATTTTCTGGGTACTAAATTCACCATCTACGACAGTCAGCCGCCACATGACCCTGCAGTCCAGTCGAATTGTCAGTCAAACGGAAGATTACATTCA
aatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggttttagctaacttgagttccctatctttttattgctgcattcttcttctcatgcaatttatgggtaaatcttgaacagGTCTAATTTTCTGGGTACTAAATTCACCATCTACGACAGTCAGCCGCCACATGACCCTGCAGTCCAGTCGAATTGTCAGTCAAACGGAAGATTACATTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA