Sequence
atgc intronic sequence ATGC exonic sequence...tcacgatttgattcgaaagctttccgatacatgatttgtatcccgattcaactgccgtggctaataactttggcaaccttgttttctttatttaatgcagTTTCTAGAAACAGGACCTGAACTGGGAAGTCACTATAATGACGTAATTGCACCTCAAGATGTTGCAACATATGGAGGACTTTGTGCACTTGCAACATTTG
Basic information
species | Glycine max |
transcript | GLYMA03G01880.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01880.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0048g01980.t01 (Vitis vinifera), 3'ss of exon 2
tcacgatttgattcgaaagctttccgatacatgatttg--tatcccgattcaactgccgtggctaataactttggcaaccttgttttctttatttaat-gcagTTTCTAGAAACAGGACCTGAACTGGGAAGTCACTATAATGACGTAATTGCACCTCAAGATGTTGCAACATATGGAGGACTTTGTGCACTTGCAACATTTG
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--gttacttggat-gcaacatagaagagaaattttcagattattatgcgccatattgaattgatcattccatcaatgaattaatgtctctggtttattcacagTTCTTGGAAACAGGTGCTGAACTGGGGAACAACTACACAGAAGTGATTGCTCCACAAGATGTTGCTACCTATGGTGGTCTTTGTGCACTTGCAAGCTTTG
upper sequence: GLYMA03G01880.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S311_49V6.1 (Physcomitrella patens), 3'ss of exon 2
tcacgatttgattcgaaagctttccgatacatg-atttgtatcccgattcaactgccgtggctaataactttggcaaccttgttttctttatttaatgcagTTTCTAGAAACAGGACCTGAACTGGGAAGTCACTATAATGACGTAATTGCACCTCAAGATGTTGCAACATATGGAGGACTTTGTGCACTTGCAACATTTG
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ccgtgttcaggtccttgagagatgcgagtgacgtagttggattaagttccagacacttctga-agtggcgtagcagctcatatcatgggttttttacgcagTTTGTTGACACGAACTTTGAGTTGGGAAGCAACTATTCAGATGTAACAGCTCCTCAAGATGTTGCAACATATGGAGGTCTTTGCGCTCTTGCATCATTCG
upper sequence: GLYMA03G01880.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S31_338V6.1 (Physcomitrella patens), 3'ss of exon 2
tcacgatttgattcgaaagctttccgatacatgatttgtatcccgattcaactgccgtggctaataactttggcaaccttgttttctttatttaatgcagTTTCTAGAAACAGGACCTGAACTGGGAAGTCACTATAATGACGTAATTGCACCTCAAGATGTTGCAACATATGGAGGACTTTGTGCACTTGCAACATTTG
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attggttgtgatagacgagatgtcccttgaggagttaaagtgggaagttcggattagcatataaaggcgttacagctcatgctattggtttggtacgcagTTTGTTGACACGAACTTCGAGTTGGGTAGCAACTACTCAGATGTTATAGCTCCCCAAGATGTTGCAACATATGGAGGTCTTTGCGCGCTTGCATCGTTTGMapped 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|27427398|gb|CA938918.1|CA938918EST: CAGGATTGGCTAATCTAGAAGCCAAAAAGTACAAGCTTGCTGCCCGAAAG TTTCTAGAAACAGGACCTGAACTGGGAAGTCACTATAATGACGTAATTGCA
genomic: CAGGATTGGCTAATCTAGAAGCCAAAAAGTACAAGCTTGCTGCCCGAAAGgtctgttcct ... tttaatgcagTTTCTAGAAACAGGACCTGAACTGGGAAGTCACTATAATGACGTAATTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcaactgccgtggctaataactttggcaaccttgttttctttatttaatgcagTTTCTAGAAACAGGACCTGAACTGGGAAGTCACTATAATGACGTAATTGCACCTCAAGATGTTGCAACATATGGAGGACTTTGTGCACTTGCAACATTTG
ccttgttttctttatt CT-rich tract
ttgttttctttattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcacgatttgattcgaaagctttccgatacatgatttgtatcccgattcaactgccgtggctaataactttggcaaccttgttttctttatttaatgcagTTTCTAGAAACAGGACCTGAACTGGGAAGTCACTATAATGACGTAATTGCACCTCAAGATGTTGCAACATATGGAGGACTTTGTGCACTTGCAACATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - gctttcc
- - - - - - - - - - - - - - - -tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - caactgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttggc