Sequence
atgc intronic sequence ATGC exonic sequence...agattaatttgagattatttctattgccatattcaactatggcatgctgtacgcttgtaatgtagtatggtgcttgctgacaactttattttaagtgcagGTTCTTGGCCCCCTGATTGAACCCCTGACGGAGCAACAACGTTTGGATATCTATAACCTTGGACAATCATGTCAACAAGCAGAAGATGCCCTTTCACAAG
Basic information
species | Glycine max |
transcript | GLYMA18G02430.3 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G02430.3 (Glycine max), 3'ss of exon 7
lower sequence: AT5G10030.1 (Arabidopsis thaliana), 3'ss of exon 7
agattaatttgagattatttctattgccatattcaactatggcatgctgtacgcttgtaatgtagtatggtgcttgctgacaactttattttaagtgc-agGTTCTTGGCCCCCTGATTGAACCCCTGACGGAGCAACAACGTTTGGATATCTATAACCTTGGACAATCATGTCAACAAGCAGAAGATGCCCTTTCACAAG
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---gtaatagaaaaacctgtc---------attaatccataaattgtaatg-gttttttttgca--atgattttggatatggatttttttttttgtgttagGTTCTGTTACCGCATTTTGATCCTTTGACGGATCAACAACTTTTGGATGTATGTAATCTGAGGCAATCATGTCAACAAGCAGAAGATGCGTTATCCCAAG
upper sequence: GLYMA18G02430.3 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0031g01320.t01 (Vitis vinifera), 3'ss of exon 6
agattaatttgagattatttctattgccatattcaactatggcatgctgtacgcttg---taatgtagtatggtgcttgctgacaactttattttaagtgcagGTTCTTGGCCCCCTGATTGAACCCCTGACGGAGCAACAACGTTTGGATATCTATAACCTTGGACAATCATGTCAACAAGCAGAAGATGCCCTTTCACAAG
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gaaataactttc--ttggtcatatttccaaatgaatttttggtctaagttcctttcaacctatcatgagatgatgct-attttcataattatgttgattacagGTTCTTGTTCCACAGCTGGACCCGTTAACAGACCAACAAATTTTGGATGTTTGTAACCTTCGACAATCTTGTCAACAAGCCGAAGATGCTCTTACACAAGMapped 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|254318232|gb|GR832400.1|GR832400EST: AAAGATTTTTCCTATGGATTGGAGGCTTTCGCCCCTCTGAGCTTCTAAAG GTTCTTGGCCCCCTGATTGAACCCCTGACGGAGCAACAACGTTTG-ATATC
genomic: AAAGATTTTTCCTATGGATTGGAGGCTTTCGCCCCTCTGAGCTTCTAAAGgtgatgcctc ... ttaagtgcagGTTCTTGGCCCCCTGATTGAACCCCTGACGGAGCAACAACGTTTGGATATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgtacgcttgtaatgtagtatggtgcttgctgacaactttattttaagtgcagGTTCTTGGCCCCCTGATTGAACCCCTGACGGAGCAACAACGTTTGGATATCTATAACCTTGGACAATCATGTCAACAAGCAGAAGATGCCCTTTCACAAG
tgctgac putative branch site (score: 2)
ctttatttt putative PPT
acaactttattttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agattaatttgagattatttctattgccatattcaactatggcatgctgtacgcttgtaatgtagtatggtgcttgctgacaactttattttaagtgcagGTTCTTGGCCCCCTGATTGAACCCCTGACGGAGCAACAACGTTTGGATATCTATAACCTTGGACAATCATGTCAACAAGCAGAAGATGCCCTTTCACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG