Sequence
atgc intronic sequence ATGC exonic sequence...gtaacttattgcaataagtttaaaatttattggataacactgtttaattaagaattgttaatcacttattattgtaatgttgcatttcccacacttgcagTTTATGGTGTTTGCTTGCTCAGACTCTCGAGTTTGCCCATCCCACATTCTGGATTTCAATCCGGGTGAAGCCTTTGTGGTCCGAAATATCGCCAACATGG
Basic information
species | Glycine max |
transcript | GLYMA18G19080.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G19080.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G70410.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaacttattgcaataagtttaaaatttattggataacactgtttaatta-agaattgttaa--tcacttattattgtaatgttgcatttcccacacttgcagTTTATGGTGTTTGCTTGCTCAGACTCTCGAGTTTGCCCATCCCACATTCTGGATTTCAATCCGGGTGAAGCCTTTGTGGTCCGAAATATCGCCAACATGG
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-ttagcaaaaacaatta--ttggaaccaaagatggtccactttcttattatagagttaatgaatttgaaaatgatgttgattttttttttttgattatggcagTTTCTGGTGTTTGCTTGCTCTGATTCTCGAGTTTGTCCATCTCACATCTTGAATTTCCAACCTGGTGAGGCTTTTGTTGTCAGAAACATAGCCAATATGG
upper sequence: GLYMA18G19080.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0127g00720.t01 (Vitis vinifera), 3'ss of exon 4
gtaacttattgcaataagtttaaaatttattggataacactgtttaattaagaat---tgttaatcacttattattgtaatgttgcatttcccacacttgcagTTTATGGTGTTTGCTTGCTCAGACTCTCGAGTTTGCCCATCCCACATTCTGGATTTCAATCCGGGTGAAGCCTTTGTGGTCCGAAATATCGCCAACATGG
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-taatataagggaatattttcgaacataagagaattgaggccttaacaaaaggttccatttgtataaggtattcctgaccagtcacagcatttatg--tgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTGGATTTTCAGCCAGGGGAGGCATTTATGGTCCGAAACATTGCGAACATGGMapped 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|15815470|gb|BI787745.1|BI787745EST: GAAGAACCCGGAATTATATGGCGAACTTGCCAAAGGCCAGAGTCCAAAG TTTATGGTGTTTGCTTGCTCAGACTCTCGAGTTTGCCCATCCCACATTCTG
genomic: GAAGAACCCGGAATTATATGGCGAACTTGCCAAAGGCCAGAGTCCAAAGgtcagccaca ... acacttgcagTTTATGGTGTTTGCTTGCTCAGACTCTCGAGTTTGCCCATCCCACATTCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattaagaattgttaatcacttattattgtaatgttgcatttcccacacttgcagTTTATGGTGTTTGCTTGCTCAGACTCTCGAGTTTGCCCATCCCACATTCTGGATTTCAATCCGGGTGAAGCCTTTGTGGTCCGAAATATCGCCAACATGG
tgttaat putative branch site (score: 3)
tttcccac putative PPT
aattgttaatcactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacttattgcaataagtttaaaatttattggataacactgtttaattaagaattgttaatcacttattattgtaatgttgcatttcccacacttgcagTTTATGGTGTTTGCTTGCTCAGACTCTCGAGTTTGCCCATCCCACATTCTGGATTTCAATCCGGGTGAAGCCTTTGTGGTCCGAAATATCGCCAACATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - tattgca