Sequence
atgc intronic sequence ATGC exonic sequence...tgctcttttagtttgaatcatttcttccatttcagtttgttacttttaagtctgcggaaatgaatcctctcttctttttttcttcatcctttttgagcagGTCCGACACTCATTGGAATCCTTCCTTATGCTGGATTGAAGTTTTACATATATGAAAAACTTAAGAGGCATGTTCCTGAAGAGCACCAAAAGTCTATTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G420119_T01 (Zea mays), 3'ss of exon 4
--tgctcttttagtttgaatc--atttcttccatttcagtttgttacttttaagtctgcggaaatgaatcctctcttctttttttcttcatcctttttgagcagGTCCGACACTCATTGGAATCCTTCCTTATGCTGGATTGAAGTTTTACATATATGAAAAACTTAAGAGGCATGTTCCTGAAGAGCACCAAAAGTCTATTGC
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aatatcctgcaaattttagtttaaatttcattaattgagatgcctg-tattacgtattatatcatgagaggaggattaaagattcttttaatgaattt---cagGCCCAACTCTTATTGGTATTCTTCCATATGCTGGCTTGAAGTTTTACATATATGAAGATCTGAAATCTCAAGTTCCAGACGATTACAAGGATTCTGTTAT
upper sequence: Vv04s0008g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G05550.1 (Glycine max), 3'ss of exon 4
-----tgctcttttagtttgaatcatttctt-ccatttcagtttgttacttttaagtctgcggaaatgaatcctctcttctttttttcttcatcctttttgagcagGTCCGACACTCATTGGAATCCTTCCTTATGCTGGATTGAAGTTTTACATATATGAAAAACTTAAGAGGCATGTTCCTGAAGAGCACCAAAAGTCTATTGC
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aacatatctcagttatcatctgttgtattttactgccttagtgccttgtccatatttttgagtaaattgat--tgaaaacctcgcctttttgttttcctt----agGACCAACCCTTACTGGAATTCTTCCATATGCTGGTTTAAAGTTCTACATGTATGAGAAATTGAAGACTCATGTTCCTGAAGAACATCAAAAGTCCATTAT
upper sequence: Vv04s0008g01060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G14560.1 (Arabidopsis thaliana), 3'ss of exon 4
-tgctcttttagtttgaatcatttcttccat---ttcagtttgttacttttaagtctgcgga-aatgaatcctctcttctttttttcttcatcctttttgagcagGTCCGACACTCATTGGAATCCTTCCTTATGCTGGATTGAAGTTTTACATATATGAAAAACTTAAGAGGCATGTTCCTGAAGAGCACCAAAAGTCTATTGC
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gttacaaattatcttaaactcttatctctgtgtgtgcacttttcctaatttggatttgaagatgattaacaaaggttggagctttcctgtgtctct-----gcagGGCCAACGCTGATCGGGATCCTTCCTTACGCGGGGCTTAAGTTCTACATATATGAGGAATTGAAAAGGCATGTTCCTGAAGAGCATCAAAACTCTGTTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaagtctgcggaaatgaatcctctcttctttttttcttcatcctttttgagcagGTCCGACACTCATTGGAATCCTTCCTTATGCTGGATTGAAGTTTTACATATATGAAAAACTTAAGAGGCATGTTCCTGAAGAGCACCAAAAGTCTATTGC
tgaatcctctcttctt CT-rich tract
ttcttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctcttttagtttgaatcatttcttccatttcagtttgttacttttaagtctgcggaaatgaatcctctcttctttttttcttcatcctttttgagcagGTCCGACACTCATTGGAATCCTTCCTTATGCTGGATTGAAGTTTTACATATATGAAAAACTTAAGAGGCATGTTCCTGAAGAGCACCAAAAGTCTATTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - ccatttc
- - - - - - - - - - - - - - - - - - - - - - - - agtctgc