Sequence
atgc intronic sequence ATGC exonic sequence...aaagcccatttagatttcagtatgttacttgcttcacatgaatgagttaatgtgaaaccatctctttacccctttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACTTGCCTTGTTGCTAAAAGGTTGGGCACTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTTTACGGCTC
Basic information
species | Glycine max |
transcript | GLYMA02G10220.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G10220.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G04950.1 (Arabidopsis thaliana), 3'ss of exon 8
aaagcccatttagatttcagtatgttacttgcttcacatgaatgagttaatgtgaaaccatctctttacccc----tttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACTTGCCTTGTTGCTAAAAGGTTGGGCACTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTTTACGGCTC
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----tgtattgagattatgtaaaccagccttgggataatgagttggttgtttgagcaatgtttcataaccatgaagctgagtgaactttttcttttggtgccagCTGCACCAGTTGATGCCATCTGTTGTAACATGCCTTGTATCAAGAAAGCTTGGAAATAGATTTGCTGACAACCACTGGGAACTCAGAGATTTTGCGGCAA
upper sequence: GLYMA02G10220.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv12s0059g00300.t01 (Vitis vinifera), 3'ss of exon 7
-aaagccca-tttagatttcagtatgttacttgcttcacatgaatgagttaatgtgaaaccatct---ctttacccctttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACTTGCCTTGTTGCTAAAAGGTTGGGCACTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTTTACGGCTC
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gatactctagcttatgtgttaaagtgaca---gacatgtattgatgtcctttttgggaagtgtctaacttctgtacatctaatggggcatctttccttg--tcagCTGCACCAATTAATGCCATCTGTGGTTACCTGCCTTGTTGCAAAACGAATTGGAAATAGACTTGCAGACAACCACTGGGAACTTCGAGACTTCACAGCAAMapped 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|27427071|gb|CA938591.1|CA938591EST: GAGTTGTTAGTAGCCTTTTGCAAAACCCTCACATCCAAATTGAACCATAT CTACACCAGTTGATGCCATCTGTTGTGACTTGCCTTGTTGCTAAAAGGTTG
genomic: GAGTTGTTAGTAGCCTTTTGCAAAACCCTCACATCCAAATTGAACCATATgtaagtttgc ... catgcttcagCTACACCAGTTGATGCCATCTGTTGTGACTTGCCTTGTTGCTAAAAGGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaatgtgaaaccatctctttacccctttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACTTGCCTTGTTGCTAAAAGGTTGGGCACTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTTTACGGCTC
agttaat putative branch site (score: 4)
tctctttacccctttt putative PPT
tttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagcccatttagatttcagtatgttacttgcttcacatgaatgagttaatgtgaaaccatctctttacccctttttctttctgtttttgcatgcttcagCTACACCAGTTGATGCCATCTGTTGTGACTTGCCTTGTTGCTAAAAGGTTGGGCACTAGGTTGGCAGACAACCACTGGGAACTTAGAGACTTTACGGCTC
- - -ccattta
- - - - - - - - - - - - - - - gcttcac
- - - - - - - - - - - - - - - - - - - -gaatgag