Sequence
atgc intronic sequence ATGC exonic sequence...gtgaacaacatttccatttcctgcttcaactataaattatacatgttcaaatattgaaactctaataaataagatcattaaccttactgtttaaaagcagGTGATGTTCCTTGTGAGAATTCACTATTAAGACAAGTGTCAAGTCTCCTGAGAAGATTGCCTGCTATTGAATCTGGGAAATTTCAAGATGATTTCTTGAT
Basic information
species | Glycine max |
transcript | GLYMA06G47850.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G47850.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G56280.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------------------gtgaacaacatttccatttcctgctt--caactataaattatacatgttcaaatattgaaactctaataaataagatcattaaccttactgtttaa------aagcagGTGATGTTCCTTGTGAGAATTCACTATTAAGACAAGTGTCAAGTCTCCTGAGAAGATTGCCTGCTATTGAATCTGGGAAATTTCAAGATGATTTCTTGAT
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gtatattctgttctttcccaagttccgattcttatcaccgtggtttcatgtttaccagtccaggattctagctga--agatagtcaaagttgtgtaagtgtaataatttatctgccaactcatttatgtgtgtagGTGATAAATCTTGTGACAACTCAGTTCTGAGACAAGTATCTAGCCTGCTAAGAAGATTGCCTGCCATGGAATCAGAGAGATTTCAAGATAATTTCTTGAT
upper sequence: GLYMA06G47850.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0015g01950.t01 (Vitis vinifera), 3'ss of exon 6
gtgaacaacatttccatttcctgcttcaactataaattatacat-gttcaaatattgaaactctaataaataagatcattaaccttactgt----ttaaaagcagGTGATGTTCCTTGTGAGAATTCACTATTAAGACAAGTGTCAAGTCTCCTGAGAAGATTGCCTGCTATTGAATCTGGGAAATTTCAAGATGATTTCTTGAT
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-----cattgtatatttttgcttttgaagcaaaataaaatccattacttgcttgggggcagtgtggattaagaggtccttactgtatttgtgtcttttgatgtagGGGATATTCCTTGTGAAAATTCACTGCTGAGACAAGTATCAAGTCTTTTACGGAGATTGCCAGCCATTGAATCAGGGAAGTTTCAAGATGATTTTTTGATMapped 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|8670223|gb|BE191330.1|BE191330EST: TCATAGCAGAATAAAGGTGCTACACCACTATCTTCTTGCAATGCAAAAAG GTGATGTTCCTTGTG
genomic: TCATAGCAGAATAAAGGTGCTACACCACTATCTTCTTGCAATGCAAAAAGgtatgtatca ... ttaaaagcagGTGATGTTCCTTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaaatattgaaactctaataaataagatcattaaccttactgtttaaaagcagGTGATGTTCCTTGTGAGAATTCACTATTAAGACAAGTGTCAAGTCTCCTGAGAAGATTGCCTGCTATTGAATCTGGGAAATTTCAAGATGATTTCTTGAT
atattgaaactctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaacaacatttccatttcctgcttcaactataaattatacatgttcaaatattgaaactctaataaataagatcattaaccttactgtttaaaagcagGTGATGTTCCTTGTGAGAATTCACTATTAAGACAAGTGTCAAGTCTCCTGAGAAGATTGCCTGCTATTGAATCTGGGAAATTTCAAGATGATTTCTTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- -aacaaca
- - - - - - -ccatttc
- - - - - - - - - - ctgcttc
- - - - - - - - - - - - - - - - - - - - -catgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaataa