Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaggttatgaatgcgtgtgagatttagtttcttgtgtgatagatttgtccttattgtgtgtgatacaaagcatgctgattacttctaagtattatagGTTATAAACATGGAGTGGGGTAATTTCCGATCATCACATCTTCCTCTAACAGAATATGATCTAGCTCTGGATGCTGAGAGCTTAAACCCTGGAGAACAG
Basic information
species | Glycine max |
transcript | GLYMA05G35890.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G35890.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g03070.t01 (Vitis vinifera), 3'ss of exon 5
------------------------------------------------------------------------------------------------------gtaagtaggttatgaatgcgtgtgagatttagtttcttgtgtgatagatttgtccttattgtgtgtgatacaaagcatgctgattacttctaagtattatagGTTATAAACATGGAGTGGGGTAATTTCCGATCATCACATCTTCCTCTAACAGAATATGATCTAGCTCTGGATGCTGAGAGCTTAAACCCTGGAGAACAG
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gttagcagttctcttataatttccatctattgatatgtgattaggaatgtactatccatcttctattaaaaacaaaaaatcttgacttttttttaatgtctctttcctgatatagaaatgtttctgtggtttggaacctagtatacaagttatgctattatgtcggaagataaataattttcttaataa----aatttctgtagGTTATCAACATGGAGTGGGGTAACTTTCGATCATCTCACCTTCCACTAACAGAATATGATCAGGTGCTGGATGCTGAGAGTTTAAACCCTGGAGAACAG
upper sequence: GLYMA05G35890.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S12_19V6.1 (Physcomitrella patens), 3'ss of exon 5
gtaagtaggttatgaatgcgtgtgagatttagtttcttgtgt--gatagatttgtccttattgtgtgtgatacaaagcatg-ctgattacttctaagtatt-atagGTTATAAACATGGAGTGGGGTAATTTCCGATCATCACATCTTCCTCTAACAGAATATGATCTAGCTCTGGATGCTGAGAGCTTAAACCCTGGAGAACAG
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-----aaaattttgatcacgattttgatttgatattgggtgatgaatataattagtggctttgt-tgtaatatagcatctaatttgtagcatatgactattgacagGTTATAAACATGGAGTGGGGGAATTTCTGGTCATCTCACTTGCCTCGGACCTATGTGGATGAGTCATTGGACAACGAGAGTTTGAATCCAGGAGAATAT
upper sequence: GLYMA05G35890.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S414_10V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaagtaggtt-atg-aatgcgtgtgagatttagtttcttgtgtgatagatttgtccttattgtgtgtgatacaaagcatgctgattacttctaagtattatagGTTATAAACATGGAGTGGGGTAATTTCCGATCATCACATCTTCCTCTAACAGAATATGATCTAGCTCTGGATGCTGAGAGCTTAAACCCTGGAGAACAG
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--acgttgtttcatatgattcccatgagatgatatttttgacgaactaaactagtgct-attgt-tgcaatgcgtcatctaatctataggatgaattttgacagGTGATAAACATGGAGTGGGGGAATTTCTGGTCATCACATTTGCCTAGGACTTATGTGGATGAATCCTTGGATAACGAGAGTTTGAACCCAGGAGAATACMapped 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|208158099|gb|GD955612.1|GD955612EST: CACATGCTATTCCAAAATGGCATGGCCTTATACCAAAATCAGGAGATATG GTTATAAACATGGAGTGGGGTAATTTCCGATCATCACATCTTCCTCTAACA
genomic: CACATGCTATTCCAAAATGGCATGGCCTTATACCAAAATCAGGAGATATGgtaagtaggt ... agtattatagGTTATAAACATGGAGTGGGGTAATTTCCGATCATCACATCTTCCTCTAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtccttattgtgtgtgatacaaagcatgctgattacttctaagtattatagGTTATAAACATGGAGTGGGGTAATTTCCGATCATCACATCTTCCTCTAACAGAATATGATCTAGCTCTGGATGCTGAGAGCTTAAACCCTGGAGAACAG
tgctgat putative branch site (score: 3)
ttctaagtattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaggttatgaatgcgtgtgagatttagtttcttgtgtgatagatttgtccttattgtgtgtgatacaaagcatgctgattacttctaagtattatagGTTATAAACATGGAGTGGGGTAATTTCCGATCATCACATCTTCCTCTAACAGAATATGATCTAGCTCTGGATGCTGAGAGCTTAAACCCTGGAGAACAG
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