Sequence
atgc intronic sequence ATGC exonic sequencegtaagttggctgcatttgatgttctaggcttatgttcatacacaaagtaatagctacttatcatttctgaatacagtttaaattgtgtttttgtctacttgtttcctttcagGTCTTGCTCGGAAGGAGGATTTCCCATTTATTACTTATTACTGCCCACACTGTCACGCCCTGAACAAACCAAAGCAATCGGATGAGCGTATATCTGGTTT
Basic information
species | Glycine max |
transcript | GLYMA17G29620.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G29620.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0215g00090.t01 (Vitis vinifera), 3'ss of exon 5
gtaagttggctgcatttgatgttctaggcttatgttcatacacaaagt--aatagctacttatcatttctgaatacagtttaaattgtgtttttgtctacttgtttcctttcagGTCTTGCTCGGAAGGAGGATTTCCCATTTATTACTTATTACTGCCCACACTGTCACGCCCTGAACAAACCAAAGCAATCGGATGAGCGTATATCTGGTTT
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-tgaagtagttatgtcctgtcttc---gtttttgttaattttgttttttgaagagttgagtaccactactgaa-gtagttttg-------tcctgtct--ttgtttttgtgcagGACTTGCCCGGAAGGAGGATTTCCCATATGTAACTTATTACTGCCCACACTGTCATGCCCTGAATCAATCAAAGCAAGCAGAAGAGCATGCTTCTCGTTC
upper sequence: GLYMA17G29620.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0432g00020.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------gtaagttggctgcatttgatgttctaggcttatgttcatacacaaagtaatagctacttatcatttctgaatacagtttaaattgtgt-------ttttgtc---tacttgtttcctttcagGTCTTGCTCGGAAGGAGGATTTCCCATTTATTACTTATTACTGCCCACACTGTCACGCCCTGAACAAACCAAAGCAATCGGATGAGCGTATATCTGGTTT
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gtaagtggagtgaggacctcatccttannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgaagtagttttgtcctgtttttgtttttgtgcagGACTTGCCCGGAAGGAGGATTTCCCATATGTAACTTATTACTGCCCACACTGTCATGCCCTGAATCAATCAAAGCAAGCAGAAGAGCATGCTTCTCGTTCMapped 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|5606130|gb|AI900228.1|AI900228EST: CCAACACAGTCTTATG-AGCTTATATGCGGTAACTGCCGCATGCATAATG GTCTTGCTCGGAAGGAGGATTTCCCATTTATTACTTATTACTGCCCACACT
genomic: CCAACACAGTCTTATGCA-CTTATATGCGGTAACTGCCACATGCATAATGgtaagttggc ... ttcctttcagGTCTTGCTCGGAAGGAGGATTTCCCATTTATTACTTATTACTGCCCACACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatcatttctgaatacagtttaaattgtgtttttgtctacttgtttcctttcagGTCTTGCTCGGAAGGAGGATTTCCCATTTATTACTTATTACTGCCCACACTGTCACGCCCTGAACAAACCAAAGCAATCGGATGAGCGTATATCTGGTTT
tttttgtctacttgtt CT-rich tract
tttaaattgtgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttggctgcatttgatgttctaggcttatgttcatacacaaagtaatagctacttatcatttctgaatacagtttaaattgtgtttttgtctacttgtttcctttcagGTCTTGCTCGGAAGGAGGATTTCCCATTTATTACTTATTACTGCCCACACTGTCACGCCCTGAACAAACCAAAGCAATCGGATGAGCGTATATCTGGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA