Sequence
atgc intronic sequence ATGC exonic sequence...gaggaaatgattgtctagtttttgactttttacaagtcggcatgtgttaatattccttctgagtacaattttgatttatttcttcctcaatatttggcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCACCTTAATGGGAGAGATACTCATGTGCGCCAGATCAAAGTTTATGGGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g01940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G054247_T01 (Zea mays), 3'ss of exon 4
-----gaggaaatgattgtctagtttttgactttttacaagtcggcatgtgttaatattccttctgagtacaattttgat-ttatttcttcctcaatatttg-gcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCACCTTAATGGGAGAGATACTCATGTGCGCCAGATCAAAGTTTATGGGCCT
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agttagtggaagggacactcta--tttaaagcttgtactacttgat-----tttacttctgtaatgtaggcagatatattactgtctttttttgggtatgtatgcagAGAAACATTCATTCACACATTTATGCTCCAAATTGCTGTTTTATCCAATCATCTGAATGGGAGGGATACTCATGTCCGACAGATCAAGATCTACGGGCCA
upper sequence: Vv04s0023g01940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G06190.2 (Glycine max), 3'ss of exon 5
----------gaggaaatgattgtctagtttttgactttttacaagtcggcatgtgttaatattccttctgagtacaattttgatttatttcttcctcaatatttggcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCACCTTAATGGGAGAGATACTCATGTGCGCCAGATCAAAGTTTATGGGCCT
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agttgtaaccgagataatgga-atgtaacttaaagattgtttctccttcatatcagt--acactagtt---aatagaatcttg--taattgccttttaccgatct--cagGGATACCTTTGTGAACACTTTCATGTTGCAAATTGCTGTGTTGTCAAACCATCTCAATGGAAGGGATACTCACGTGCGGCAGATCAAAGTTTACGGGCCT
upper sequence: Vv04s0023g01940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G25220.1 (Glycine max), 3'ss of exon 4
gaggaaatgattgtctagtttttgactttttacaagtcggcatgtgttaatattcctt--ctgagtacaattttgatttatttcttcctcaatatttggcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCACCTTAATGGGAGAGATACTCATGTGCGCCAGATCAAAGTTTATGGGCCT
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-aagccttagtggttgtaaccgaaataatggaaagattgtttctacttcatatcagtacactagttaatagaatcatgtaattgccttttaccaatca-cagGGATACCTTTGTGAATACTTTCATGTTGCAAATTGCTGTGTTGTCAAACCATCTCAATGGAAGGGATACTCACGTGCGGCAGATCAAAGTTTACGGGCCT
upper sequence: Vv04s0023g01940.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G18290.1 (Arabidopsis thaliana), 3'ss of exon 4
gaggaaatgattgtctagtttttgactttttacaagtcggcatgtgttaatattccttc-tgagtacaattttgatttatttcttcctcaa---tatttggcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCACCTTAATGGGAGAGATACTCATGTGCGCCAGATCAAAGTTTATGGGCCT
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----taataaaggtttaaactaagttctgctgtcatgaatgattggtttctgttggttagtaagcatggatctggtaagtttaaccactgtgtcctcttttcagGGAAACTTTTGTCAATACATTTATGTTACAAATAGCCATTTTGTCAAATCACCTCAACGGGAGAGATACTCATATCCGCCAGATCAAAGTTTACGGCCCTMapped 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|30126730|gb|CB912069.1|CB912069EST: GGTTGGGTTTACATATCCTTATCCGGAAATGATCCTCG GGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCA
genomic: GGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCGgtaagtccac ... tatttggcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCA
EST:
gi|83274535|gb|DV938632.1|DV938632EST: GTCAAGCCAACTGGTTGGGTTTACATATCCTTATCCGGAAATGATCCTCG GGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCA
genomic: GTCAAGCCAACTGGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCGgtaagtccac ... tatttggcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaatattccttctgagtacaattttgatttatttcttcctcaatatttggcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCACCTTAATGGGAGAGATACTCATGTGCGCCAGATCAAAGTTTATGGGCCT
tacaattttgatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaggaaatgattgtctagtttttgactttttacaagtcggcatgtgttaatattccttctgagtacaattttgatttatttcttcctcaatatttggcagGGAAACTTTTGTGAACACTTTTATGTTGCAAATTGCTATATTGTCAAATCACCTTAATGGGAGAGATACTCATGTGCGCCAGATCAAAGTTTATGGGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
-aggaaat
- - - - - - - - - - - - - - - - - - - - catgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - -tccttct