Sequence
atgc intronic sequence ATGC exonic sequencegtatgatatgcttttatgcttgaatttctgtttaaaccttttttctttttttacattctcaactgcatatagacaaggcaccatatcattgttacaagggaacacagtttttaatttcttatagGGTGCTTCAAAGTTTAAGAACTTCATTGAGTCATTGCATGTACACTTGGTGGAGTGTAGTCCAGCACTACAGAAGCTTCAGCACCAGAACTTGAAATGCA
Basic information
species | Glycine max |
transcript | GLYMA11G10540.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G10540.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G28700.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgatatgcttttatgcttgaatttctgtttaaaccttttttctttttttacattctcaactgcatatagacaaggcaccatatcattgttacaagggaacacagtttttaatttcttatagGGTGCTTCAAAGTTTAAGAACTTCATTGAGTCATTGCATGTACACTTGGTGGAGTGTAGTCCAGCACTACAGAAGCTTCAGCACCAGAACTTGAAATGCA
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-----------------------gtatgtatttatgc--tcttgtatccttgacagttctagttccgt-tccataac-ctcgatgatctcattactgaatactaaaacctttga---cttgtagGGTACATCGAAGTTTAAGAATTTCACGGAATCATTGCATATACATTTGGTGGAATGTAGTCCTGCATTGCAGAAGCTTCAGCACCAGAATCTGAAATGTA
upper sequence: GLYMA11G10540.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0066g02600.t01 (Vitis vinifera), 3'ss of exon 4
------------------------------gtatgatatgcttttatgcttgaatttctgt---ttaaacctttt--ttctttttttacattctcaac-tgcata-tagaca---aggcaccatatcattgtta--caagggaacacagtttttaatttcttatagGGTGCTTCAAAGTTTAAGAACTTCATTGAGTCATTGCATGTACACTTGGTGGAGTGTAGTCCAGCACTACAGAAGCTTCAGCACCAGAACTTGAAATGCA
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gtatgtcactacaattctcactatctatttctattcgaatttctcatcttagaaaccttatacttcagaacctttgatttttcttttacactattatcgtgaataatggttatataggaacagttccaattttgattgaagctgcatagcttcta----cttgcagGGTACATCTAAGTTCAAAAACTTCATAGAATCATTGCAAATACATATGGTTGAATGCAGTCCAACATTACAGAAGCTTCAGCACAAGAACTTGAAATGTGMapped 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|192323613|gb|FK017479.1|FK017479EST: TAGTTGAGCTTGGCCCGGGGCGAGGAACTCTCATGGCCGATCTCCTTCGC GGTGCTTCAAAGTTTAAGAACTTCATTGAGTCATTGCATGTACACTTGGTG
genomic: TAGTTGAGCTTGGCCCGGGGCGAGGAACTCTCATGGCCGATCTCCTTCGCgtatgatatg ... tttcttatagGGTGCTTCAAAGTTTAAGAACTTCATTGAGTCATTGCATGTACACTTGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagacaaggcaccatatcattgttacaagggaacacagtttttaatttcttatagGGTGCTTCAAAGTTTAAGAACTTCATTGAGTCATTGCATGTACACTTGGTGGAGTGTAGTCCAGCACTACAGAAGCTTCAGCACCAGAACTTGAAATGCA
ttttaat putative branch site (score: 3)
tttcttat CT-rich tract
agtttttaatttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatatgcttttatgcttgaatttctgtttaaaccttttttctttttttacattctcaactgcatatagacaaggcaccatatcattgttacaagggaacacagtttttaatttcttatagGGTGCTTCAAAGTTTAAGAACTTCATTGAGTCATTGCATGTACACTTGGTGGAGTGTAGTCCAGCACTACAGAAGCTTCAGCACCAGAACTTGAAATGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC