Sequence
atgc intronic sequence ATGC exonic sequence...tgtcaaatgatcatatggttgttgttttacgtgtgaagagtagaataacatcattaattaattaattagtttttatattttatttattttcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCGCTACCTATTGGACTTAAGGCTCCAGCTCTTGATAGTGTGATGA
Basic information
species | Glycine max |
transcript | GLYMA12G13430.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G13430.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g13740.2 (Oryza sativa), 3'ss of exon 4
tgtcaaatgatcatatggt-tgttgttttacgtgtgaagagtagaataacatcattaattaattaatta-gtttttatattttatttattttcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCGCTACCTATTGGACTTAAGGCTCCAGCTCTTGATAGTGTGATGA
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-gtcaaacaaacctaaaccacgctagctgatcggatgaatttttattagttttgttgctccggcatgtgtatatgtatgtttaattttgtctcggtt-gcagTCTAAGGAGAGCATAGACGCAGCCATCGGAGATGTTTTAGTGAAGCCATGGCTGCCGCTTCCCCTCGGCCTCAAGCCACCGTCGCTGGACAGCGTCATGT
upper sequence: GLYMA12G13430.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G44190.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------tgtcaaatgatcatatggttgttg--ttttacgtgtga-agagtagaataacatcattaattaa---ttaattagtttttatattttatttattttcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCGCTACCTATTGGACTTAAGGCTCCAGCTCTTGATAGTGTGATGA
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gtgagtgcaccttttttggtttcaattttgtttattagattttgattatgacataacccaaaaaagttttcgaataaattttggataattaacaatatttcattacttgacggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGGCTGCCGCTTCCTTTGGGACTGAAACCGCCGTCGGTTGACGGTGTTATGA
upper sequence: GLYMA12G13430.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 5
tgtcaaatgatcatatggttgttgttttacgtgtgaagagtagaataac-atcattaatta-attaattagtttttatattt-tatttatt--ttcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCGCTACCTATTGGACTTAAGGCTCCAGCTCTTGATAGTGTGATGA
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-----ggagattgcatggctctctctccatcttaaagggtcagcatgcttgtgaatagagatattaatccttttttttttttctgttttttggtatatattgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGGMapped 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|22933691|gb|BU550830.1|BU550830EST: ATCACGGCATTGGCGTCCTTGGTCCCAGTTCCCTCTTGGACTTTCATCCG TCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGG
genomic: ATCACGGCATTGGCGTCCTTGGTCCCAGTTCCCTCTTGGACTTTCATCCGgtaatttttt ... cattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacatcattaattaattaattagtttttatattttatttattttcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCGCTACCTATTGGACTTAAGGCTCCAGCTCTTGATAGTGTGATGA
ttttatttattttc CT-rich tract
attaattaattaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtcaaatgatcatatggttgttgttttacgtgtgaagagtagaataacatcattaattaattaattagtttttatattttatttattttcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCGCTACCTATTGGACTTAAGGCTCCAGCTCTTGATAGTGTGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - -gttgttg
- - - - - - - - - - - - - - acgtgtg
- - - - - - - - - - - - - - - - - - - - - gaataac