Sequence
atgc intronic sequence ATGC exonic sequence...ttctgatggttttatcatgaaaacgaaggtggagaaggtgttggccttcagtgatcctccaaatcttttcaaatcagaagttcatttttgtttgtttcagGTGGTTGTGGTGCTTGCGTAGTTTTAATCTCCAAATATGATCCTGTGCATGACAGAGTTGAGGATTTTACGGCAAGCTCTTGTCTCACACTACTTTGCAG
Basic information
species | Glycine max |
transcript | GLYMA02G44000.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0041g02430.t01 (Vitis vinifera), 3'ss of exon 1
ttctgatggttttatcatgaaa----acgaaggtggagaaggtgttggc-cttcagtgatcctccaaatcttttcaaatcagaagttcatttttgtttgtttcagGTGGTTGTGGTGCTTGCGTAGTTTTAATCTCCAAATATGATCCTGTGCATGACAGAGTTGAGGATTTTACGGCAAGCTCTTGTCTCACACTACTTTGCAG
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-----atagtttagccattgaagattatgattttgtctagcctatcaaaacctcaaaaatcaggtagctgatatattgatatgtttgccaacttcattgtttcagGTGGTTGTGGTGCTTGTGTTGTTCTACTGTCCAAGTATAACCCTATACTTGACCAGTTGGATGATTGTACGGTGAGTTCATGTCTTACCCTGCTTTGTAG
upper sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 1
ttctgatggttttatcatgaaa----acgaaggtggagaaggtgttggcct-tcagtgatcctccaaatcttttcaaatcagaagttcatt--tttgtttgtttcagGTGGTTGTGGTGCTTGCGTAGTTTTAATCTCCAAATATGATCCTGTGCATGACAGAGTTGAGGATTTTACGGCAAGCTCTTGTCTCACACTACTTTGCAG
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-----atagtttagccattgaagattatgattttgtatagcctatcaaaatctcaaaaatcaggcag--ctgatacattgaaatgtttgctaacttcattgtttcagGTGGTTGTGGTGCTTGTGTTGTTCTACTGTCCAAGTATAACCCTGTGCATGACCAGGTGGATGATTGTACGGTGAGTTCATGTCTTACCCTGCTTTGTAG
upper sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0041g02400.t01 (Vitis vinifera), 3'ss of exon 1
ttctgatggttttatcatgaaaacgaaggtggagaaggtgttgg--ccttcagtgatcctccaaatcttttcaaatc---agaagttcatt--tttgtttgtttcagGTGGTTGTGGTGCTTGCGTAGTTTTAATCTCCAAATATGATCCTGTGCATGACAGAGTTGAGGATTTTACGGCAAGCTCTTGTCTCACACTACTTTGCAG
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-------tacacattcaagattatgattctgtatagcccatcaaaaccctaaaaaaaaaaagaaggttgctgatatcttgatatgttttctaactttattgtttcagGTGGTTGTGGTGCTTGCGTTGTCCTACTTTCCAAGTATAATCCTGTGCTTGACCAGGTGGATGATTTTACCGTGAGTTCATGTCTTACCCTGCTTTGTAGMapped 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|209726565|gb|BW666483.1|BW666483EST: CTTGCGAAATCACACTAGTTTCAAGAGTGTCAAGCTCGGCTGTGGTGAAG GTGGTTGTGGTGCTTGCGTAGTTTTAATCTCCAAATATGATCCTGTGCATG
genomic: CTTGCGAAATCACACTAGTTTCAAGAGTGTCAAGCTCGGCTGTGGTGAAGgtatatatta ... tttgtttcagGTGGTTGTGGTGCTTGCGTAGTTTTAATCTCCAAATATGATCCTGTGCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcagtgatcctccaaatcttttcaaatcagaagttcatttttgtttgtttcagGTGGTTGTGGTGCTTGCGTAGTTTTAATCTCCAAATATGATCCTGTGCATGACAGAGTTGAGGATTTTACGGCAAGCTCTTGTCTCACACTACTTTGCAG
tttttgtttgtttc CT-rich tract
aaatcttttcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctgatggttttatcatgaaaacgaaggtggagaaggtgttggccttcagtgatcctccaaatcttttcaaatcagaagttcatttttgtttgtttcagGTGGTTGTGGTGCTTGCGTAGTTTTAATCTCCAAATATGATCCTGTGCATGACAGAGTTGAGGATTTTACGGCAAGCTCTTGTCTCACACTACTTTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
-tctgatg
- - - - - - - -catgaaa
- - - - - - - - - - - - - -ggtggag
- - - - - - - - - - - - - - - - - - -gtgttgg
- - - - - - - - - - - - - - - - - - - - - - - ttcagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - tcctcca