Sequence
atgc intronic sequence ATGC exonic sequence...tgactggtaggtcttatatttttgaattacccgagtttttgttatatttttctcaacttgtatgctgattttatatacattattttctttgcttgtacagCACAAACATCAGGAACAACTGTAACCTTTATGATTGTAGAAGGATGGGTTTTAACAGTTGCATCAGTTGGTGATTCCCGTTGCATACTTGAGCCTTCCGA
Basic information
species | Glycine max |
transcript | GLYMA06G04210.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G04210.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os09g28560.1 (Oryza sativa), 3'ss of exon 2
----tgactggtaggtcttatatttttgaattacccgagtttttgttatatttttctcaacttgtatgctgattttatatacattattttctttgcttgtacagCACAAACATCAGGAACAACTGTAACCTTTATGATTGTAGAAGGATGGGTTTTAACAGTTGCATCAGTTGGTGATTCCCGTTGCATACTTGAGCCTTCCGA
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ctcttctttaagatgtcttttaggttatagccttataggtacctgtaaagttgagtgatgctttttctctttactgaagcac----tctcttttgctgtttcagCGGAAACTTCTGGTACCACTGTTACATTTGTAGTAATAGATGAGTGGGTTGTAACGGTAGCATCAGTTGGTGATTCACGTTGCATACTAGAATCTGCTGA
upper sequence: GLYMA06G04210.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G052699_T02 (Zea mays), 3'ss of exon 2
tgactggtaggtcttatatttttgaattacccgagtttttgttatatttttctcaacttgtatgc-tgattttatatacattattttctttgcttgtacagCACAAACATCAGGAACAACTGTAACCTTTATGATTGTAGAAGGATGGGTTTTAACAGTTGCATCAGTTGGTGATTCCCGTTGCATACTTGAGCCTTCCGA
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ctactactagattatactgccatatgttttacca-tgtggactatgacgagaaccatctttacgcattactatatcgtatctgttgggttgtcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
upper sequence: GLYMA06G04210.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G47380.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------tgac-tggt--aggtcttatatttttgaatt-acccgagtttttgttatatttttctcaacttgtatgctgattttatat-acattattttctttgcttgta---cagCACAAACATCAGGAACAACTGTAACCTTTATGATTGTAGAAGGATGGGTTTTAACAGTTGCATCAGTTGGTGATTCCCGTTGCATACTTGAGCCTTCCGA
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gtatgaacttatcaatgaaaaaccttgtgatgtgattcaagtcccaagagggtgaactcgtctgtgtctttat-attcttatatcattctg-gtgaaggctatgtttgaggttttattgttttcttgcatttcagCAAGGACGTCTGGAACGACTGTAACTTTTGTCATAGTAGAAGGATGGGTGGTGAGTGTTGCATCTGTAGGTGACTCTCGTTGCATACTTGAGCCTGCTGAMapped 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|213589875|gb|DB969640.1|DB969640EST: GGCTTTGGTTGCAGGCTTTGTAAAAACTGATAAAGATTTTCAAGAGAAAG CACAAACATCAGGAACAACTGTAACCTTTATGATTGTA
genomic: GGCTTTGGTTGCAGGCTTTGTAAAAACTGATAAAGATTTTCAAGAGAAAGgtataactag ... gcttgtacagCACAAACATCAGGAACAACTGTAACCTTTATGATTGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttctcaacttgtatgctgattttatatacattattttctttgcttgtacagCACAAACATCAGGAACAACTGTAACCTTTATGATTGTAGAAGGATGGGTTTTAACAGTTGCATCAGTTGGTGATTCCCGTTGCATACTTGAGCCTTCCGA
tgctgat putative branch site (score: 3)
ttattttctttgctt putative PPT
attttatatacattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgactggtaggtcttatatttttgaattacccgagtttttgttatatttttctcaacttgtatgctgattttatatacattattttctttgcttgtacagCACAAACATCAGGAACAACTGTAACCTTTATGATTGTAGAAGGATGGGTTTTAACAGTTGCATCAGTTGGTGATTCCCGTTGCATACTTGAGCCTTCCGA
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