Sequence
atgc intronic sequence ATGC exonic sequencegtcagtctcactctcctctcttttggatttctttattttttatagccaggatttgagcatgatggtttccagtttgtgtctgacagaaatttggagttataaggttttagtgttggtttttatatattttaagtaattattgtttgctaagtatcttaaactggaaatgaaatgtaacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCATTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
Basic information
species | Glycine max |
transcript | GLYMA08G03730.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G03730.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G29130.1 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtctcactctcctctcttttggatttctttattttttatagccaggatttgagcatgatggtttccagtttgtgtctgacagaaatttggagttataaggttttagtgttggtttttatatattttaagtaattattgtttgctaagtatcttaaactggaaatgaaatg-taacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCATTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
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---------------------------------------------------------------------------------------------------------------gtgagttctctttcgcctta------tgctctctagtgaatcccttttgtcatgtgtttgttgatttgtttttgacgttttacagGTTAATGATACCGTTGGAACACTAGCCGGTGGTAGATACTATAACCCGGATGTTGTTGCTGCTGTTATTTTAGGCACTGGGACAAACGCAGCCTATGTTG
upper sequence: GLYMA08G03730.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0016g03070.t01 (Vitis vinifera), 3'ss of exon 4
gtcagtctcactctcctctcttttggatttctttattttttatagccaggatttgagcatgatggtttccagtttgtg-tctgacaga-aatttggagttataaggttttagtgttggtttttatatattttaagtaattattgtttgctaagtatcttaaactggaaatgaaatgtaacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCATTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
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------------------------------------------------gtaagtcaacttgatttctctttaagagagctctcctagagaattctgttatttcaaatttgagt-ctggtagccttcctttctatctaat--ctgtcaag-aagattttttatttagaattc---ttcaatttgctctgctgatacagGTCAATGATACAATTGGAACACTAGCAGGAGGTAGATATTATGATCAGGATGTCGTTGCTGCAGTGATCTTGGGTACTGGAACAAATGCAGCCTATGTAGMapped 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|21676721|gb|BQ629072.1|BQ629072EST: TAACCAAGTCCATGGAAAAAATTGGCCTGGATATGCGCGTTGCTGCTCTA GTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGAT
genomic: TAACCAAGTCCATGGAAAAAATTGGCCTGGATATGCGCGTTGCTGCTCTAgtcagtctca ... tttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttgctaagtatcttaaactggaaatgaaatgtaacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCATTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
tatcttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtctcactctcctctcttttggatttctttattttttatagccaggatttgagcatgatggtttccagtttgtgtctgacagaaatttggagttataaggttttagtgttggtttttatatattttaagtaattattgtttgctaagtatcttaaactggaaatgaaatgtaacttggtgatttgatgtagGTTAATGATACCATTGGAACATTAGCTGGAGGCAGATTCTACAATCAGGATGTCATTGCTGCTGTGATTCTTGGTACTGGGACAAATGCAGCATATGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT