Sequence
atgc intronic sequence ATGC exonic sequence...ttttcctcctacaagtgcttagggagaagtttatgtaaatagagcttaaaaatgattttcctcaaggtgtcaaatgcgagtttttggattgtaattgcagCAACCGTTTTTGGCGAACTGTGGAGGTTGGAGCCACTGGCGCCACAGAAGAAAACCATGTGGCGTAGAGAAATGGAGTGGCTGTTATGTGTGAGTGATTC
Basic information
species | Glycine max |
transcript | GLYMA12G02620.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G02620.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G38430.1 (Arabidopsis thaliana), 3'ss of exon 2
ttttcctcctacaagtgcttagggagaagtttatgtaaatagagcttaaaaatgattttcctcaaggtgtcaaatgcgagtttttggattgtaattgcagCAACCGTTTTTGGCGAACTGTGGAGGTTGGAGCCACTGGCGCCACAGAAGAAAACCATGTGGCGTAGAGAAATGGAGTGGCTGTTATGTGTGAGTGATTC
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-gtaccatctcaatcttcttccc------tttttgttagttg-gtatatatagtaggggtttctagttttttaataaggct------agtgtccacacagCGACTGTGTTTGGCGAACTATGGAGGCTTGAGCCTCTTGCTCCTCAGAAGAAGGCCATGTGGCGCAGAGAACTTGAGTGGCTGCTCTGTGTTAGCGATTC
upper sequence: GLYMA12G02620.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g03620.t01 (Vitis vinifera), 3'ss of exon 3
ttttcctcctacaagtgcttagggagaagtttatgtaaatagagcttaaaaatgattttcctcaag-gtgtcaaatgcgagttt---ttggattgtaattgcagCAACCGTTTTTGGCGAACTGTGGAGGTTGGAGCCACTGGCGCCACAGAAGAAAACCATGTGGCGTAGAGAAATGGAGTGGCTGTTATGTGTGAGTGATTC
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----ctgaatggagtttttttgttctatttccaattttcttttccttccttttcttgtctatcatgtgagtttctctctaatttaatctgggttgaaattttagCTACCGTGTTTGGAGAACTATGGAGGTTGGAGCCATTGGCACCACAGAAGAAGGCAATGTGGTGCAGGGAGATGGAATGGCTGTTATGTGTGAGTGATTCMapped 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|209700670|gb|BW673027.1|BW673027EST: AGGGGTGTGTACTGCACTTGCAATCTCCAATGCAATAACTAATCTCTCTG CAACCGTTTTTGGCGAACTGTGGAGGTTGGAGCCACTGGCGCCACAGAAGA
genomic: AGGGGTGTGTACTGCACTTGCAATCTCCAATGCAATAACTAATCTCTCTGgttagtgact ... gtaattgcagCAACCGTTTTTGGCGAACTGTGGAGGTTGGAGCCACTGGCGCCACAGAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaaaatgattttcctcaaggtgtcaaatgcgagtttttggattgtaattgcagCAACCGTTTTTGGCGAACTGTGGAGGTTGGAGCCACTGGCGCCACAGAAGAAAACCATGTGGCGTAGAGAAATGGAGTGGCTGTTATGTGTGAGTGATTC
aatgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcctcctacaagtgcttagggagaagtttatgtaaatagagcttaaaaatgattttcctcaaggtgtcaaatgcgagtttttggattgtaattgcagCAACCGTTTTTGGCGAACTGTGGAGGTTGGAGCCACTGGCGCCACAGAAGAAAACCATGTGGCGTAGAGAAATGGAGTGGCTGTTATGTGTGAGTGATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- ttcctcc
- - - - - -caagtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaatgc