Sequence
atgc intronic sequence ATGC exonic sequenceAGCACATGCAGTTCATCCCATCACTGCTGTACAAATGGAGTGGTCCTTATGGAGTCGTGACATTGAGGACGAAATAATTCCTCTGCAGgttagttcaacttcttaaagtttataggaatttatagctcttataactgtttcttcactgaaaaagacatataatttgaacatctctctttttttatgtt...
Basic information
species | Glycine max |
transcript | GLYMA03G40880.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40880.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv14s0030g01960.t01 (Vitis vinifera), 5'ss of exon 4
----------AGCACATGCAGTTCATCCCATCACTGCTGTACAAATGGAGTGGTCCTTATGGAGTCGTGACATTGAGGACGAAATAATTCC--TCTGCAGgttagttcaacttcttaaagtttataggaatttatagctcttataactgtttcttcactgaaaaagacatataatttgaacatctctctttttttatgtt----
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CAATAAGGAGGGCACATGCCGTTCATCCCATCACAGCCTTACAAATGGAGTGGTCACTCTGGAGTCGTGATATTGAGGACGAGATAATTCCACTTTGCAGgtttgttcagattct---agtccaccttctcatttttttcttgcaggagatcactt-ctaaaacctttaagaatatctggaagcatgttttgttcatgtaaaag
upper sequence: GLYMA03G40880.2 (Glycine max), 5'ss of exon 1
lower sequence: PP1S158_112V6.2 (Physcomitrella patens), 5'ss of exon 5
----------AGCACATGCAGTTCATCCCATCACTGCTGTACAAATGGAGTGGTCCTTATGGAGTCGTGACATTGAGGACGAAATAATTCC--TCTGCAGgttagttcaacttcttaaagtttataggaatttatagctctta--taactgtt--tcttcactgaaaaagacatataatttgaacatctctctttttttatgtt
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CAATTAGACGTGCACATAAGGTTCATCCTATAACCGCTGTTCAGGTGGAGTGGTCTTTATGGTCTCGTGACATTGAGGACGAAATTGTTCCCGTCTGCAGgtaattgtaatttgt---ggttttcagtcatcttggattaataggtagcttttaatccacattatctctgatgtgtagaatacgtga-tgacatttttgataaaMapped 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|22523340|gb|BU082151.1|BU082151EST: AGTGGTCCTTATGGAGTCGTGACATTGAGGACGAAATAATTCCTCTGCAG GTGAAAGGCAGGGACGAGTCGAAATGGCTGAAGCAGAGAGTGTGCAGATTC
genomic: AGTGGTCCTTATGGAGTCGTGACATTGAGGACGAAATAATTCCTCTGCAGgttagttcaa ... tatccagcagGTGAAAGGCAGGGACGAGTCGAAATGGCTGAAGCAGAGAGTGTGCAGATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCACATGCAGTTCATCCCATCACTGCTGTACAAATGGAGTGGTCCTTATGGAGTCGTGACATTGAGGACGAAATAATTCCTCTGCAGgttagttcaacttcttaaagtttataggaatttatagctcttataactgtttcttcactgaaaaagacatataatttgaacatctctctttttttatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaga