Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgttgcaaaaaggttgcagctagctttttatttctagggactggacttgatgtgtttgaaatcagtactgattttgcatttttgttgcatagTTCTCATGCATACAGGTTATTGTCGCCCAACAGCTTCTCCACCTCCCATGGCTGTACAAGAGTTGCGCACAACCATTCGAGTGCTACCTCCGCAAGATT
Basic information
species | Glycine max |
transcript | GLYMA16G33300.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G33300.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgtgttgcaaaaaggttgcagctagctttttatttctagggactggacttgatgtgtttgaaatcagtactgattttgcatttttgttgcatagTTCTCATGCATACAGGTTATTGTCGCCCAACAGCTTCTCCACCTCCCATGGCTGTACAAGAGTTGCGCACAACCATTCGAGTGCTACCTCCGCAAGATT
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gtatgtaccctaatgaatcttatgcaattattatctttgtttggcccgaacatgac---------attgattctggtcta-----cctgtcatctagTTCTCATGCATACAGGTTACTGTCGTCCCACAGCTTCTCCTCCTCCACCGACAATGCAAGAGCTGCGCACTACTATTAGAGTCTTGCCGTCACAAGATT
upper sequence: GLYMA16G33300.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0130g00270.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtg---ttgcaaaaagg---ttgcagctagctttttatttctagg-gactggacttgatg-tgtttga-aatcagtactgattttgcatttttgttgcatagTTCTCATGCATACAGGTTATTGTCGCCCAACAGCTTCTCCACCTCCCATGGCTGTACAAGAGTTGCGCACAACCATTCGAGTGCTACCTCCGCAAGATT
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gtatgtggtgttacaaaggagagtctagagcttatactgcatttgtagatgatagaacttagtggtatgccataacttatattaatgctgcattattgtctttcagTTCTCATGCATACGGGCTATTGTCGCCCAACGGCTTCTCCTCCTCCACCTGCTATTCAGGAGCTACGTGCTACCATCCGGGTGCTACCTCCACAAGATTMapped 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|192298007|gb|FG993241.1|FG993241EST: CCAGCTATGGGGGACTGATGTTTACACTTATGACTCAGATCTTGTTGCTG TTCTCATGCATACAGGTTATTGTCGCCCAACAGCTTCTCCACCTCCCATGG
genomic: CCAGCTATGGGGGACTGATGTTTACACTTATGACTCAGATCTTGTTGCTGgtatgtgttg ... tgttgcatagTTCTCATGCATACAGGTTATTGTCGCCCAACAGCTTCTCCACCTCCCATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggactggacttgatgtgtttgaaatcagtactgattttgcatttttgttgcatagTTCTCATGCATACAGGTTATTGTCGCCCAACAGCTTCTCCACCTCCCATGGCTGTACAAGAGTTGCGCACAACCATTCGAGTGCTACCTCCGCAAGATT
tactgat putative branch site (score: 2)
tttttgtt putative PPT
atttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgttgcaaaaaggttgcagctagctttttatttctagggactggacttgatgtgtttgaaatcagtactgattttgcatttttgttgcatagTTCTCATGCATACAGGTTATTGTCGCCCAACAGCTTCTCCACCTCCCATGGCTGTACAAGAGTTGCGCACAACCATTCGAGTGCTACCTCCGCAAGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA