Sequence
atgc intronic sequence ATGC exonic sequence...tgtagatttgtgttggaagtaatcattaagcccagcacaacttaatatttgtcatgcctttcaactttctgagactttttcttgtttattggtcttttagCAAATTGGGACATTCTTTATGGACCTCGTAAACTCTTCTCACAGCTACGCAACTGGAGGGACATCAGTCAGAGAGTTCTG
Basic information
species | Glycine max |
transcript | GLYMA12G05980.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G12960.1 (Arabidopsis thaliana), 3'ss of exon 5
tgtagatttgtgttgga-agtaatcattaagcccagcacaacttaatatttgtcatgcctttcaactttctgagactttttcttgtttattggtcttttagCAAATTGGGACATTCTTTATGGACCTCGTAAACTCTTCTCACAGCTACGCAACTGGAGGGACATCAGTCAGAGAGTTCTG
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---------gtatcgaagagtaaccaagaaaagtgtgacatttt--tatcaaagaagatattggttctcttga-------ttctgaaatctgcatttccagGAAATCCCGATGTTCTTTATGGACATAGTTAATGCTTCACACAGCTATGCAACTGGAGGAACATCAGTCAAAGAGTTCTG
upper sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G12950.1 (Arabidopsis thaliana), 3'ss of exon 5
tgtagatttgtgttgga-agtaatcattaagcccagcacaacttaatatttgtcatgcctttcaactttctgagactttttcttgtttattggtcttttagCAAATTGGGACATTCTTTATGGACCTCGTAAACTCTTCTCACAGCTACGCAACTGGAGGGACATCAGTCAGAGAGTTCTG
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---------gtatcgaagagtaaccaagaaaagtatgacatttt--tatcaaagaagatattggttctcttga-------ttctgaaatctgcatttccagGAAATCTCGATGTTCTTTATGGACATTTTTAATGCTTCTCACAGCTATGCAACAGGAGGAACATCAGTCAGTGAGTTCTG
upper sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 5
-tgtagatttgtgttggaagtaatcattaagcccagcacaacttaatatttgtcat-gcctttcaactttctgagactttttcttgtttattggtcttttagCAAATTGGGACATTCTTTATGGACCTCGTAAACTCTTCTCACAGCTACGCAACTGGAGGGACATCAGTCAGAGAGTTCTG
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tgattaattaattgtataacttctgtttgaaa--atttgaatgtgtaattcatcaaagaaaaaaaaagttgaaattctatttgttctataattgtgtgccagGCAATAGGGACATTCTTCATGGACATTGTTAACTCCTCTCATAGCTATGCAACCGGAGGGACATCAGTTGGAGAGTTCTGMapped 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|208147593|gb|GD944518.1|GD944518EST: TTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATAAG CAAATTGGGACATTCTTTATGGACCTCGTAAACTCTTCTCACAGCTACGCA
genomic: TTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATAAGgtgaattgct ... ggtcttttagCAAATTGGGACATTCTTTATGGACCTCGTAAACTCTTCTCACAGCTACGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttgtcatgcctttcaactttctgagactttttcttgtttattggtcttttagCAAATTGGGACATTCTTTATGGACCTCGTAAACTCTTCTCACAGCTACGCAACTGGAGGGACATCAGTCAGAGAGTTCTG
tctttt CT-rich tract
tttttcttgtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtagatttgtgttggaagtaatcattaagcccagcacaacttaatatttgtcatgcctttcaactttctgagactttttcttgtttattggtcttttagCAAATTGGGACATTCTTTATGGACCTCGTAAACTCTTCTCACAGCTACGCAACTGGAGGGACATCAGTCAGAGAGTTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - -gtgttgg
- - - - - - - - - - - - - - - -ccagcac
- - - - - - - - - - - - - - - - - - - - - - - - - - catgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttctg