Sequence
atgc intronic sequence ATGC exonic sequencegtaggcagcatattcatcatgttctttattttcttttgtacacaactgctactttttttatattgcaaacttaaatttcacaaaacctcttgcatattgacaaaaatcttatgacagaatatctttatttatatatatattttttttagATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATGGGTCTGTTTGAGAAGCGCCGTGCTCGGAAGTTCTTCATCTATGTCCAAG
Basic information
species | Glycine max |
transcript | GLYMA07G30050.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 3
gtaggcagcatattcatcatgttctttattttcttttgtacacaactgctacttt---ttttatattgcaaacttaaatttcacaaaacctcttgcatattgacaaaaatcttatgacagaatatctttatttatatatatattttttttagATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATGGGTCTGTTTGAGAAGCGCCGTGCTCGGAAGTTCTTCATCTATGTCCAAG
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gtatgctgt-tgttcacactaaaatttctttttcttttcttaagtctggtcacatgaatttaattcttggtacattatttttaca------ctttaaaactaacatcagtcttataattgaatat--------gcataaatcttgttctcagATATACAAAGTTCCAGCAACTGATGTTGAAGCACTGAAATCCCCATTGATGGGACTGTTTGAAAAGCGCCGAGCTCGGAAGTTCTTCATTTATGTCCAAG
upper sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S20_16V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaggcagcatattcatcatgttctttattttcttttgtacacaactgctactttttttatattgcaaacttaaatttcacaaaacctcttgcatattgacaaaaatcttatgacagaatatctttatttatatatatattttttttagATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATGGGTCTGTTTGAGAAGCGCCGTGCTCGGAAGTTCTTCATCTATGTCCAAG
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-------------------------------------------gaaggctgtcgatatgatttt--agagctggctgtgctaggtcatctttc-cattgtctgcctattattattaacttgtgttcattcttttccgt---ttccatagGTGTACAAAGTTCCATCTAATGACGTGGAAGCATTGAAGTCTCCTTTGATGGGGCTATTTGAGAAGCGGCGTGCTAGGAAGTTTTTCATCTTTGTCCAGAMapped 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|192300573|gb|FG987940.1|FG987940EST: ATTTGAACTTCAAAGCTGTAGATGGAAGCTTTGTGTATAACAAGGGAAAG ATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATG
genomic: ATTTGAACTTCAAAGCTGTAGATGGAAGCTTTGTGTATAACAAGGGAAAGgtaggcagca ... ttttttttagATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgacaaaaatcttatgacagaatatctttatttatatatatattttttttagATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATGGGTCTGTTTGAGAAGCGCCGTGCTCGGAAGTTCTTCATCTATGTCCAAG
tattgac putative branch site (score: 2)
tatttttttt putative PPT
ttatgacagaatatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggcagcatattcatcatgttctttattttcttttgtacacaactgctactttttttatattgcaaacttaaatttcacaaaacctcttgcatattgacaaaaatcttatgacagaatatctttatttatatatatattttttttagATTTACAAAGTTCCAGCAACAGATGTTGAAGCACTGAAGTCACCATTAATGGGTCTGTTTGAGAAGCGCCGTGCTCGGAAGTTCTTCATCTATGTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC