Sequence
atgc intronic sequence ATGC exonic sequence...tgaatctattctgccatgtgaatattttatgttgaatgcttatcattttgaattttcacacatgtttccattggttcattgatgaaatatttacttgcagCATATTATGCCTCCCTATGGCACTCCACCTCATCCCTATGTTGCAATGTATCCCCATGGTGGCATATATGCTCATCCATCCATTCCTCCG
Basic information
species | Glycine max |
transcript | GLYMA16G15810.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G15810.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 4
-tgaatctattctgccatgtgaatattttatgttgaatgcttatcattttgaattttcacacatgtttccattggttcattgatga--aatatttacttgcagCATATTATGCCTCCCTATGGCACTCCACCTCATCCCTATGTTGCAATGTATCCCCATGGTGGCATATATGCTCATCCATCCATTCCTCCG
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gtagatttaatc---gagattaatattttctaccatatatagtacgttaggttaatgaatgaatgtaacgacaacttaagacattgttatttcctttttgtagCATATGATGCCGCCTTATGGAACACCGCCTCATCCGTATGTTACGATGTATCCTCCAGGTGGCATGTATGCTCATCCTTCATTACCTCCG
upper sequence: GLYMA16G15810.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G35530.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------------------------------------tgaatctattctgccatgtgaatattttatgttgaatgcttatcattttgaattttcacacatgtttccattggttcattgatgaaatattta--cttgcagCATATTATGCCTCCCTATGGCACTCCACCTCATCCCTATGTTGCAATGTATCCCCATGGTGGCATATATGCTCATCCATCCATTCCTCCG
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gtgaactggcttacgctttatcgctttttactgtgatgtctatcggtgttcagagtgctggaaaattgcaacattcttattgacttataacgaat--tcgttcagctgtctttcatcatat-ctttgattgattactgaatgagacattaaattttgcagCATATGATGCCTCCTTATGGAACTCCGCCTCATCCTTATGTTGCAATGTATCCCCCAGGTGGCATGTACGCACATCCTTCAATGCCTCCG
upper sequence: GLYMA16G15810.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 4
--tgaatctattctgccatgtgaatattttatgttgaatgcttatcattttgaattttcacacatgtttccattggttcattgatgaaatatttacttgcagCATATTATGCCTCCCTATGGCACTCCACCTCATCCCTATGTTGCAATGTATCCCCATGGTGGCATATATGCTCATCCATCCATTCCTCCG
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agtgcttcaatt-tgtcttttcagcacctatttttttcttctt-taacccaatgttttgtttgatagtttgtacagttttaaaaaattttgtttgcttgcagCATCTAATGCCTCCATATGGTACCCCACCACATCCATATGTTGCAATGTATCCCCCTGGTGGCTTATATGCTCATCCATCTATTCCTCCGMapped 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|7796494|gb|AW781891.1|AW781891EST: GGTTCTTGGCATCAAGCCCCCAAGCCCACCCATATATGTGGGGCGTCCAG CATATTATGCCTCCCTATGGCACTCCACCTCATCCCTATGTTGCAATGTAT
genomic: GGTTCTTGGCATCAAGCCCCCAAGCCCACCCATATATGTGGGGCGTCCAGgtatttgtca ... ttacttgcagCATATTATGCCTCCCTATGGCACTCCACCTCATCCCTATGTTGCAATGTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgaattttcacacatgtttccattggttcattgatgaaatatttacttgcagCATATTATGCCTCCCTATGGCACTCCACCTCATCCCTATGTTGCAATGTATCCCCATGGTGGCATATATGCTCATCCATCCATTCCTCCG
cattgat putative branch site (score: 4)
tttactt putative PPT
attgatgaaatattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaatctattctgccatgtgaatattttatgttgaatgcttatcattttgaattttcacacatgtttccattggttcattgatgaaatatttacttgcagCATATTATGCCTCCCTATGGCACTCCACCTCATCCCTATGTTGCAATGTATCCCCATGGTGGCATATATGCTCATCCATCCATTCCTCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - ctgccat
- - - - - - - - - - - - - - - - -gaatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cacacat