Sequence
atgc intronic sequence ATGC exonic sequencegtaatgcagtatcggcaacttaatttaacctgatctaaataaatttgttatttactcattgacttacttctatgcctcattttaaaattgtagCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAATACTCCAGAAGTTGTGCGTGTATATATTGG
Basic information
species | Glycine max |
transcript | GLYMA07G39450.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39450.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 12
-------------------------------------------------------------------------------------------------gtaatgcagtatcggcaacttaatttaacctgatctaaa-taaatttgttatttactcattgacttacttctatgcctcattttaaaattgt----agCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAATACTCCAGAAGTTGTGCGTGTATATATTGG
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gtgagtgttattgctatccctttatagtgtgataacatattccattttcatcctctttatgcataggaaaaaaaatcatggagtgtgataagaaacattgatttgttttttacatttcaagtggagacaaaaaagagtagctatgttgattgaa-agcaaataacgactttgcttc-tgacaaatttatcctcagCTCATGAGAGTCTATGGAGCACTGCTATGGTCGCTTGGGAAAGTTCTGAACACACCAGAAGTCATGCGTGTGTACATAGG
upper sequence: GLYMA07G39450.1 (Glycine max), 3'ss of exon 12
lower sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaa--tgcagtatcggcaacttaatttaacctgatctaaataaatttgttatttactcattgacttacttctatgcctcattttaaaattgtagCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAATACTCCAGAAGTTGTGCGTGTATATATTGG
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gtaagtttcgttttcgtcccattcatttgttatgttc---ataagcttcatttttactcattg--------ttgagccgctttttctaa----agCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
upper sequence: GLYMA07G39450.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 13
----gtaatgcag-tatcggcaacttaatttaacctgatctaaata---aatttgttatttactcattga--cttacttctatgcctcatttta-------aaattgtagCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAATACTCCAGAAGTTGTGCGTGTATATATTGG
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gtaggatttacaactgttatcctcttatttttcattcctcttcatatttaccttttctcccagcaattgatcctcatttcttgacttgattgcatcttgttatactatagCTAATGAGGGTCTATGGTGCATTGATGTGGTCACTTGGGAAAGTTTTGAATACTCCCGAGGTTGTGCGAGTTTATATTGGMapped 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|192295510|gb|FG988084.1|FG988084EST: ACAAGATACGTGTGGTTTTGAATAAGGCAGACCAAATTGATACTCAACAA CTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAAT
genomic: ACAAGATACGTGTGGTTTTGAATAAGGCAGACCAAATTGATACTCAACAAgtaatgcagt ... aaaattgtagCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatttgttatttactcattgacttacttctatgcctcattttaaaattgtagCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAATACTCCAGAAGTTGTGCGTGTATATATTGG
gacttac putative branch site (score: 2)
tcattttaaaattgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgcagtatcggcaacttaatttaacctgatctaaataaatttgttatttactcattgacttacttctatgcctcattttaaaattgtagCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAATACTCCAGAAGTTGTGCGTGTATATATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT