Sequence
atgc intronic sequence ATGC exonic sequence...ttttccaaatttttagcctccctagtttctatcttttcatttgctttgcgactaaatcaagcacatccttaattttctcattcccttttgtcaaatatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G28310.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g19059.1 (Oryza sativa), 3'ss of exon 1
------------ttttccaaatttttag-----cctccctagtttctatcttttcatttgctttgcgactaaatcaagcacatccttaattttctc----attcccttttg----tcaaa---tatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
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atggcagcttgctttgcaaaattttcagaagcgcaactgaaccctcgcgcctgatatctaaatagctgctcacgaatccacctcccttattgtgtaccagGTACCAAGATGAAGGTCAAGATTCTTCAGTGGCATTCGGTGGCTTCTTGGACATGGGACGCCCAGGATGAAACCTGTGGTATATGCAGGATGGCATTCGA----------------------------
upper sequence: GLYMA10G28310.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
-------ttttccaaatttttagcctccctagtttctatcttttcatttgctttgcgactaaatcaagcacatccttaattttctcattcccttttgtcaaatatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
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aaaaaaacagagtaggttcctcgtccctttagctttaa------cacatgagctcttacaatgcggagtttctattgttgtaactgattgtttctccctgga-atagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT
upper sequence: GLYMA10G28310.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 1
------------------------------------------------ttttccaa----------atttttagcctccctagtttctatctt-----ttcatttgctttgcgactaa-atcaagcacatccttaattttctcattcccttttgtcaaatatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
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gtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactc---tgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
upper sequence: GLYMA10G28310.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0060g00290.t01 (Vitis vinifera), 3'ss of exon 4
------------------------------------------------ttttccaa----------atttttagcctccctagtttctatctt-----ttcatttgctttgcgactaa-atcaagcacatccttaattttctcattcccttttgtcaaatatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
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gtttttatatctggtactcaataattatatctttgactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactc---tgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCTMapped 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|254317371|gb|GR826316.1|GR826316EST: CTTTTGCAGTTGCTAGGCACCAAGATGAAAGTCAACATCTTGC A
genomic: CTTTTGCAGTTGCTAGGCACCAAGATGAAAGTCAACATCTTGCgtatcctttc ... tcaaatatag-
EST:
gi|254317371|gb|GR826316.1|GR826316EST: CTTTTGCAGTTGCTAGGCACCAAGATGAAAGTCAACATCTTGC A
genomic: CTTTTGCAGTTGCTAGGCACCAAGATGAAAGTCAACATCTTGCgtatcctttc ... tcaaatatag-
EST:
gi|193360358|gb|FK325128.1|FK325128EST: CTTTTGCAGTTGCTAGGCACCAAGATGAAAGTCAACATCTTGC A
genomic: CTTTTGCAGTTGCTAGGCACCAAGATGAAAGTCAACATCTTGCgtatcctttc ... tcaaatatag-
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcgactaaatcaagcacatccttaattttctcattcccttttgtcaaatatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
atccttaat putative branch site
tccttaattttctcat CT-rich tract
ttaattttctcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttccaaatttttagcctccctagtttctatcttttcatttgctttgcgactaaatcaagcacatccttaattttctcattcccttttgtcaaatatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - ccaaatt
- - - - - - - - cctccct
- - - - - - - - - - - - - - - - - - - - -tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -caagcac