Sequence
atgc intronic sequence ATGC exonic sequence...tttttcttgtttttaaatcaagaaaagaatgatggatttgttcacgataccaccttggattaactcactgttattttctctgatgaataatggatttcagGGGTGGGGCAGTAAAGTTTCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCGGAG
Basic information
species | Glycine max |
transcript | GLYMA12G14060.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G14060.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G014136_T01 (Zea mays), 3'ss of exon 1
-------tttttcttgtttttaaatcaagaaaagaatgatggatttgttcacgataccaccttggattaactcactgttattttctctgatgaata-atggatttcagGGGTGGGGCAGTAAAGTTTCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCGGAG
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agtaagccacttgttgtgtagagtttaccagtgttgt-atggagttcttttgtttgcaatctt-------ctcatgtttagtttattaaatttctctatgtgttccagGGGCAGTGCCATCAAGTTTCTTGGAACAAAGCGCCACCATGACAAGTGGTTGGTTGCCACGGAAAATTATGATATCAAGGGTTGTTTTGCAATGACAGAA
upper sequence: GLYMA12G14060.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0028g02660.t01 (Vitis vinifera), 3'ss of exon 1
-tttttcttgtttttaaatcaagaaaagaatgatggatttgttcacgataccaccttggattaactcactgttattttctctgatgaataatggatttcagGGGTGGGGCAGTAAAGTTTCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCGGAG
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tcaatatatgttagtcagtattaaagagaaaaattgttgtggctgcga-agttcaaggaacttgttaatcattaggtgctttcttcattgatgaatttcagGGGTGGTGCCATCCAGTTTTTTGGAACCAAGCGTCATCATGACAAGTGGTTGAGAGACAGTGAGAATTATGTGATCAAAGGTTGCTTTGCAATGACAGAAMapped 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|16996251|gb|BM085623.1|BM085623EST: ATGTACGATCATTCTCTCGCGGTTAAGCTTGGCGTTCACTTCTTCTTGTG GGGTGGGGCAGTAAAGTTTCTGGGAACCAAGCGCCATCATGACAAGTGGTT
genomic: ATGTACGATCATTCTCTCGCGGTTAAGCTTGGCGTTCACTTCTTCTTGTGgttcgtcaaa ... tggatttcagGGGTGGGGCAGTAAAGTTTCTGGGAACCAAGCGCCATCATGACAAGTGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gataccaccttggattaactcactgttattttctctgatgaataatggatttcagGGGTGGGGCAGTAAAGTTTCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCGGAG
tgttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttcttgtttttaaatcaagaaaagaatgatggatttgttcacgataccaccttggattaactcactgttattttctctgatgaataatggatttcagGGGTGGGGCAGTAAAGTTTCTGGGAACCAAGCGCCATCATGACAAGTGGTTGAATTCTACTGAAAACTATGATATCAAGGGTTGTTTTGCTATGTCGGAG
- - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - -ggatttg
- - - - - - - - - - - - - - - - - - - - - - - - -ccacctt