Sequence
atgc intronic sequence ATGC exonic sequence...tattacacatttgtaccatataatactctattgttgtacacaagaaaaatattgtgtgttttaggagtttctgtttcatatccttatattgatgtttcagGTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTGGATTACCTCCTGAAGCCAACTATTTGTTTTTGGGGGATTATGTTGATCG
Basic information
species | Glycine max |
transcript | GLYMA03G41200.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G41200.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0036g00370.t01 (Vitis vinifera), 3'ss of exon 1
---tattacacatttgtaccatataatactctattgttgtacacaagaaaaatattgtgtgttttaggagtttctgtttcatatccttatattgatgtttcagGTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTGGATTACCTCCTGAAGCCAACTATTTGTTTTTGGGGGATTATGTTGATCG
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gaatacatggttctttcatcatatgatctgacattggtgttaatggaaaaaaaa--gataactttggcaatgtatttgacatattttctttttgacacc-cagGTGATATACATGGTCAATATTCGGATCTTTTAAGGCTTTTCGACTATGGTGGATTCCCTCCTCAAGCCAATTACTTATTTTTGGGGGATTACGTAGATCG
upper sequence: GLYMA03G41200.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S283_48V6.1 (Physcomitrella patens), 3'ss of exon 2
tattacacatttgtaccatataatactctattgttgtacacaagaaaaatattgtgtgtttta--ggagtttctgtttcatatcc-ttatattgatgtttcagGTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTGGATTACCTCCTGAAGCCAACTATTTGTTTTTGGGGGATTATGTTGATCG
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-tttattttattctattttattttatttta--agcacctactagttacgtgctgtttcttttcttgaagctggtcactgacaagtgttggcatgacactgcagGTGACATCCATGGGCAGTATTCCGACCTCTTGAAACTTTTTGAATATGGTGGTTTTCCACCTGAGGCCAACTACTTGTTTTTAGGGGATTATGTTGACAGMapped 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|193493110|gb|FK460462.1|FK460462EST: CTTGCAACAACCTAATTTATTGGAGCTCGAAGCACCTATTAAGATTTGTG GTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTG
genomic: CTTGCAACAACCTAATTTATTGGAGCTCGAAGCACCTATTAAGATTTGTGgtaattattt ... gatgtttcagGTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTG
EST:
gi|192328341|gb|FK020052.1|FK020052EST: CTTGCAACAACCTAATTTATTGGAGCTCGAAGCACCTATTAAGATTTGTG GTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTG
genomic: CTTGCAACAACCTAATTTATTGGAGCTCGAAGCACCTATTAAGATTTGTGgtaattattt ... gatgtttcagGTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatattgtgtgttttaggagtttctgtttcatatccttatattgatgtttcagGTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTGGATTACCTCCTGAAGCCAACTATTTGTTTTTGGGGGATTATGTTGATCG
tattgat putative branch site (score: 3)
ttatattgatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattacacatttgtaccatataatactctattgttgtacacaagaaaaatattgtgtgttttaggagtttctgtttcatatccttatattgatgtttcagGTGATGTACATGGGCAATATTCTGATCTTTTAAGGCTTTTTGAGTACGGTGGATTACCTCCTGAAGCCAACTATTTGTTTTTGGGGGATTATGTTGATCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - -tgttgta
- - - - - - - - - - - - - - - - - - - - - - aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgt