Sequence
atgc intronic sequence ATGC exonic sequence...gatctatctattattacgacaatgtaattttcccctttcatttgggactttgagaggggggaaataatgtttcagcatatttattgtgacattaatgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAAGTTGAAAGAACTTCAG
Basic information
species | Glycine max |
transcript | GLYMA07G39320.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g35050.3 (Oryza sativa), 3'ss of exon 5
-------gatctatctattattacgacaatgtaattttcccctttcatttgggactttgagaggggggaaataatgtt-tcagcatatttattgtgacattaatgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAAGTTGAAAGAACTTCAG
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ttagttttaactgcttatcgttactaaaaaaaaaaaatctatgctctgatatggctt-------accactaccatgttcttatcattcatttcatgg-actggtatagGTTGTCTATAATGCAAATAAGCTTGATAAGATGGTCAAAGAGAAGAAGAAAATGCAGAATTGGCTTGATTACTATCAGCTGAAATATGAAAGAAATACAT
upper sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G22120.1 (Arabidopsis thaliana), 3'ss of exon 5
---gatctatctattattacgacaatgtaattttcccctttcatttgggactttgagaggggggaaataatgtttcagcatatttattgtgacatta-atgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCA----AAACAAAGTTGAAAGAACTTCAG
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gcaagttccttagaagttttaaatttgaaaccgtttagttttctttaaaattatgctcttcttgagatgtaagaacaacataaacattgtgagacgatatgtagGTTGTATGCAATGCAAACAAGCTGGCCGATTTGGTGAAAAAGAAGAAAAAGCTGCAGAATTGGCTTGATTACTACCAGCTCAAATACGCTAGGAATAACT----
upper sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 4
gatctatctattattacgacaatgtaattttcccctttcatttgggactttgagaggggggaaat---aatgttt-----cagcatatttattgtgacatta-atgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAAGTTGAAAGAACTTCAG
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---------tttctttagaaaatctagtataaacattgaaatgggtaattcaaaatataaagcattaaaatgtttatattcaatttcctaatttagaagttttatgcagGTTGTATATGATGCAAATAAACTTGCAAAATTGGTCAAGAAGAAGGAAAAAATGCAGAATTGGCTTGACTATTATCAAATTAAATATTCTAGAAATGAATMapped 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|193528107|gb|FK484729.1|FK484729EST: GGAGCTACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACCAG GTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAG
genomic: GGAGC-ACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACCAGgttggttcca ... attaatgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gactttgagaggggggaaataatgtttcagcatatttattgtgacattaatgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAAGTTGAAAGAACTTCAG
cattaat putative branch site (score: 3)
aaataatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatctatctattattacgacaatgtaattttcccctttcatttgggactttgagaggggggaaataatgtttcagcatatttattgtgacattaatgcagGTTGTTTATAATGCAAACAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAAGTTGAAAGAACTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - -caatgta
- - - - - - - - - - - - - - tttcccc
- - - - - - - - - - - - - - - - - - - - - - -gactttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gggggga