Sequence
atgc intronic sequence ATGC exonic sequencegtatctcccatcttttacttgcttgtatttttagtcagcttatgcgtgtgtatggcttataaacaattatgcgtttagttcttaataatcttcagaaaataggctactaagtagtaaaagaagaactatactcctctaggttataaaagagtgcatgctctatttcagGTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAAGGTACTGCTGATGCAGTGAGGCAGTTTCACTGGCTCTTTGAG
Basic information
species | Glycine max |
transcript | GLYMA17G01900.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G01900.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G391936_T03 (Zea mays), 3'ss of exon 3
gtatctcccatcttttacttgcttgtatttttagtcagcttatgcgtgtgtatggcttataaacaattatgcgtttagttcttaataatcttcagaaaataggctactaagtagtaaaagaagaactatactcctctaggttataaaagagtgcatgctctatttcagGTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAAGGTACTGCTGATGCAGTGAGGCAGTTTCACTGGCTCTTTGAG
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---------------------gtgccaactccag--aatatacgtatatatatagttctctagggaatggctgacaaagccacaaggattcgtggttcaacacttcatctctggtgatctggaaagggtattt------gacagatcgggattctgactgtttttcagGTTCTAGCAGCAACCCAGAGGCCTGGAACGGAGGGGAAAAGGTGGTTTCAGGGTACTGCTGATGCAGTTCGGCAGTTCGACTGGCTTTTCGAT
upper sequence: GLYMA17G01900.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g02880.t01 (Vitis vinifera), 3'ss of exon 3
gtatctcccatcttttacttgcttgtatttttagtcagcttatgcgtgtgtatggcttataaacaattatgcgtttagttcttaataatcttcagaaaataggctactaagtagtaaaagaagaactatactcctcta-------ggttataaaagagtgcatgctc-tatttcagGTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAAGGTACTGCTGATGCAGTGAGGCAGTTTCACTGGCTCTTTGAG
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----------------------------------------------------------------------------agaccgatatagtcttagccaaatgttaccatgaatatggatgtaagagttccatttctttaccaggagactgattaaagaatggtttcttgtatgccagGCTCTAGCAGCCACTCAAACTCCAGGGGAGGCTGGTAAAAGATGGTTCCAGGGCACTGCAGATGCTGTGCGGCAGTTCCATTGGCTCTTTGAG
upper sequence: GLYMA17G01900.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ25399 (Selaginella moellendorffii), 3'ss of exon 3
gtatctcccatcttttacttgcttgtatttttagtcagcttatgcgtgtgtatggcttataaacaattatgcgtttagttcttaataatcttcagaaaataggctactaagtagtaaaagaagaactatactcctctaggttataaaagagtgcatgctctatttcagGTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAAGGTACTGCTGATGCAGTGAGGCAGTTTCACTGGCTCTTTGAG
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------------------------------------------------------------------------------------gtggaggaaatgagagag-ctagaaaaatctgttatacggagtgtttggtctcagatcttt---gtgcgtgtgattgatgt-agGTACTGGCAGCAACGCAAACTCCAGGGGAGTCTGGTATGAATTGGTTTCAAGGGACCGCGGACGCCGTGAGGCAGTTCACTTGGCTTTTTGAGMapped 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|17518594|gb|BM187636.1|BM187636EST: GCGCTTACAACTCTGGTAATGGAGTCACCTTTGGAGATGGCTACGTAGAG GTTCTTGCAGCAACCCAAACTCCA
genomic: GCGCTTACAACTCTGGTAATGGAGTCACCTTTGGAGATGGCTACGTAGAGgtatctccca ... tctatttcagGTTCTTGCAGCAACCCAAACTCCA
EST:
gi|13125839|gb|BG316409.1|BG316409EST: GCGCTTACAACTCTGGTAATGGAGTCACCTTTGGAGATGGCTACGTAGAG GTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAA
genomic: GCGCTTACAACTCTGGTAATGGAGTCACCTTTGGAGATGGCTACGTAGAGgtatctccca ... tctatttcagGTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAA
EST:
gi|20449568|gb|BQ253692.1|BQ253692EST: GCGCTTACAACTCTGGTAATGGAGTCACCTTTGGAGATGGCTACGTAGAG GTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAA
genomic: GCGCTTACAACTCTGGTAATGGAGTCACCTTTGGAGATGGCTACGTAGAGgtatctccca ... tctatttcagGTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaaagaagaactatactcctctaggttataaaagagtgcatgctctatttcagGTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAAGGTACTGCTGATGCAGTGAGGCAGTTTCACTGGCTCTTTGAG
ctctatttc CT-rich tract
ttataaaaga 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 |
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gtatctcccatcttttacttgcttgtatttttagtcagcttatgcgtgtgtatggcttataaacaattatgcgtttagttcttaataatcttcagaaaataggctactaagtagtaaaagaagaactatactcctctaggttataaaagagtgcatgctctatttcagGTTCTTGCAGCAACCCAAACTCCAGGGGAGGCAGGTAAAAAGTGGTTTCAAGGTACTGCTGATGCAGTGAGGCAGTTTCACTGGCTCTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT