Sequence
atgc intronic sequence ATGC exonic sequencegtagttttccaattcaatatattatttatttatttatttattattattattattattattattatgcccaataattgatgctctactgaattgtatttggcagCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCAAGAGTTTTG
Basic information
species | Glycine max |
transcript | GLYMA15G12100.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G12100.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G12050.1 (Arabidopsis thaliana), 3'ss of exon 7
gtagttttccaattcaatatattatttatttatttatttattattattatta--ttattattattatgcccaataattgatgctctactgaattgtatttggc---agCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCAAGAGTTTTG
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-------------------------gtactcacttaactatagttttcgttgagtcatctttaacctgaccgggcatgaccggtttttttaaatgtttgttgttatagCTAGGGATATTCAGGCGTGGGAGTATGTACCTCTTGGTCCTTTCCTGGGGAAGAGTTTTG
upper sequence: GLYMA15G12100.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0187g00340.t01 (Vitis vinifera), 3'ss of exon 7
gtagttttccaattcaatatattatttatttatttatttatta-ttattattattattattattatgcccaataattgatgctctactgaattgtatttggcagCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCAAGAGTTTTG
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------------gtacacatgttatttgttgattcatttccaagttttcattgggtttaatatcagttctatc--ttgac-----aagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG
upper sequence: GLYMA15G12100.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 4
gtagttttccaattcaatatattatttatttatttatttatta-ttattattattattattattatgcccaataattgatgctctactgaattgtatttggcagCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCAAGAGTTTTG
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------------gtatacatgttatttgttgattcatttccaagttttcattgggtttaatatcagttctatc--ttgac-----aagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTGMapped 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|5676815|gb|AI937945.1|AI937945EST: ATCTTTGGACTTGTTGTAATGAACGATTGGAGTG CTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCA
genomic: ATCTTTGGACTTGTTGTAATGAACGATTGGAGTGgtagttttcc ... tatttggcagCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attattattattattatgcccaataattgatgctctactgaattgtatttggcagCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCAAGAGTTTTG
aattgat putative branch site (score: 4)
tattattattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttttccaattcaatatattatttatttatttatttattattattattattattattattatgcccaataattgatgctctactgaattgtatttggcagCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCAAGAGTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA