Sequence
atgc intronic sequence ATGC exonic sequence...atctccagcaattgtatgtgttaaagagttaattgaatatctggtgaaaatgtcgtttcatcttacattgtgttggacttatgggttctctctttactagACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGGGATGTGTTGATCTTTCCTGACATGGTTAGATACAG
Basic information
species | Glycine max |
transcript | GLYMA02G47100.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G47100.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G55900.1 (Arabidopsis thaliana), 3'ss of exon 1
-----atctccagcaattgtatgtgttaaagagttaattgaatatctggtgaaaatgtcgtttcatcttacattgtgttggacttatgggttctctctttactagACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGGGATGTGTTGATCTTTCCTGACATGGTTAGATACAG
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acaatgtagcttcttattatct-tgcacatcagtta-taaactatcttttgggtcttttagatgtctttctgatgtttt---tttatctatgcgttgaattgcagACTTTACTCACAATATGTGAGGGACATGATGGTTCAGAGACATCAAATGGGGATGTTCTGATATTTCCAGATATGATCAGATACAG
upper sequence: GLYMA02G47100.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G26620.1 (Arabidopsis thaliana), 3'ss of exon 1
--atctccagcaattgtat-gtgttaaagagttaattgaatatctggtgaaaatgtcgtttcatcttacattgtgttggacttatgggttctctctttactagACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGGGATGTGTTGATCTTTCCTGACATGGTTAGATACAG
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ggattgcttcttttcggatagtctcatgatgatgccttcatgattgtctt---ttgctttgtgcctcatgtttttttttttttttttggccattgtttcgtagACTCGACTCACAATATGTGAGGGGCATGATGGAACAGAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAG
upper sequence: GLYMA02G47100.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0015g00750.t01 (Vitis vinifera), 3'ss of exon 1
atctccagcaattgtatgtgttaaagagttaattgaatatctggtgaaaatgtcgtttcatcttacattgtgttggacttatgggttctctctttactagACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGGGATGTGTTGATCTTTCCTGACATGGTTAGATACAG
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attcatgaatattgccagatctgcagtttatttttccttcctgttgtagtgactgagggttaatggtatgattttgccgttttctatttttcttctcaagACCCGCTTAACAATATGTGAAGGACATGATGGAACTGAGACATCAAATGGAGATGTATTAATATTTCCAGACATGATCAGATACAGMapped 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|298177519|gb|HO023652.1|HO023652EST: GGTTGCTCCATGCCGCCGTTGTTGCAAGGAAGAGTCACATGAAAAAGGAG ACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGG
genomic: GGTTGCTCCATGCCGCCGTTGTTGCAAGGAAGAGTCACATGAAAAAGGAGgtactgtcct ... tctttactagACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaatgtcgtttcatcttacattgtgttggacttatgggttctctctttactagACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGGGATGTGTTGATCTTTCCTGACATGGTTAGATACAG
atcttac putative branch site (score: 3)
ttctctctttact putative PPT
ttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atctccagcaattgtatgtgttaaagagttaattgaatatctggtgaaaatgtcgtttcatcttacattgtgttggacttatgggttctctctttactagACTCGGTTAACGATATGTGAGGGTCATGATGGGACTGAGACATCTAATGGGGATGTGTTGATCTTTCCTGACATGGTTAGATACAG
- ctccagc
- - - - - - tgtatgt
- - - - - - - - - - - - - - - - - - - -tctggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttatgg