Sequence
atgc intronic sequence ATGC exonic sequence...ccgaagaatgtttcaaaacgtttcctcatatcttttagtgcatgatgctttgataggatgttttcagtattacaatgatctcttgtttgatattttgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA
Basic information
species | Glycine max |
transcript | GLYMA10G38680.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38680.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G164956_T02 (Zea mays), 3'ss of exon 4
ccgaagaatgtttcaaaacgtttcctcatatcttttagtgcatgatgct--ttgataggatgttttcagtattacaatgatctcttgtttgatattt---tgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA
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---atggatcaattaacatggttt-tcaaatggagcatttaacagtgttggttagctttctgtttgatgcatt-taatcactcctgctaatatatatatgaacagGCAAGGTAGAAGATGCTACCAAAGTACAGACACTTCTGTTCAGTGCCACTCTGCCAGATTGGGTGAATAAG
upper sequence: GLYMA10G38680.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G149520_T02 (Zea mays), 3'ss of exon 4
ccgaagaatgtttcaaaacgtttcctcatatcttttagtgcatgat-gctttgataggatgttttcagtattacaatgatctcttgtt-tgatattttgca-gGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA
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--ttaaaatggatcaattaacatggtttttaaatggagtatctaacagcattcattagatttctgtttgattatt-taattactcactctaatgtatgaaaagGCAAGGTAGAAGATGCTACCAAAGTACAGACGCTTCTGTTCAGTGCCACTCTGCCAGAGTGGGTGAATAAG
upper sequence: GLYMA10G38680.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G62190.1 (Arabidopsis thaliana), 3'ss of exon 4
ccgaagaatgtttcaaaacgtttcctcatatcttttagtgcatgatgctttgataggatgttttcagtattaca-atgatctcttgtttgatattttgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA
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-------gtatgtcgtggt-tttggttttttttcctaat--atga------aacagcttactctttgtatcttatatgttct----ttctataactt-cagGGAAAGTGGAGGATTCTACTAAAGTCCAGACTCTTCTCTTCAGTGCTACTTTGCCATCATGGGTGAAAAATMapped 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|151412885|gb|EV282697.1|EV282697EST: GTTTTGTTGAAGATGTTGAAATGATTCTAG GCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTT
genomic: GTTTTGTTGAAGATGTTGAAATGATTCTAGgtatcttttt ... tattttgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctttgataggatgttttcagtattacaatgatctcttgtttgatattttgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA
gtttgat putative branch site (score: 5)
ttgtttgatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccgaagaatgtttcaaaacgtttcctcatatcttttagtgcatgatgctttgataggatgttttcagtattacaatgatctcttgtttgatattttgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - tcaaaac
- - - - - - - - - - - - - - - - - - - -gcatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggatgtt