Sequence
atgc intronic sequence ATGC exonic sequence...tacaaaatttgaataacaatttttaaaaacaagcaaattcttttgcactggtctttcagtttgtctctttcatttatatttgtttaaatatttttggcagGTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTGTATTTGCCAATTGATTTCAAG
Basic information
species | Glycine max |
transcript | GLYMA04G37810.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G37810.2 (Glycine max), 3'ss of exon 7
lower sequence: AT5G07290.1 (Arabidopsis thaliana), 3'ss of exon 10
tacaaaatttgaataacaatttttaaaaacaagcaaattcttttgcactggtctttcagtttgtctctttc-atttatatttgtttaaatatttttggcagGTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTGTATTTGCCAATTGATTTCAAG
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---gtaagtgaattcaccttttctccctattattccctgttttataacattatatgttgctcatttgttcctatttgtctttgttctggtaatggtt-tagGTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAG
upper sequence: GLYMA04G37810.2 (Glycine max), 3'ss of exon 7
lower sequence: AT5G61960.2 (Arabidopsis thaliana), 3'ss of exon 10
-----------------------------------------------tacaa--aatttgaataacaatttttaaaaacaagcaaattcttttgcactggtctttcagtttgtctctttcatttatatttgtttaaatatttt-tggc--agGTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTGTATTTGCCAATTGATTTCAAG
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gtacgtgaactcagtgtctctcttttatttttcttgtctatatcttctgcaactatttatagtttgtgtctttagttaaagatgtattctgtt---ttcatctttga--ctctcttttttttttttttttttttaattctgctatggtttagGTACACTTCGAAGATGCTTCTATCTGCTATTGACGAGCATTGTAAAGGAACTTATGATTTCCTTTATTTGCCAATTGACTTCAAG
upper sequence: GLYMA04G37810.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 11
tacaaaatttgaataacaatttttaaaaaca-agcaaattcttttgcactggtctttcagtttgtctctttcatttatatttgtttaaatatttttggcagGTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTGTATTTGCCAATTGATTTCAAG
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cattcatttctatttgtggttttacacaccataattgctcagattcctgttgcatcctctgttatttctgccttttg-atttgatataatggtaattgtagGTATACTTCAAAAATGCTTCTTGCTGCAATTGATGAACATCATCGAGGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAAMapped 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|151407718|gb|EV277533.1|EV277533EST: GGACAACACTCATGATAAAAAATATTCCCAATAA GTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATATCGAGGAAC
genomic: GGACAACACTCATGATAAAAAATATTCCCAATAAgtatgccaat ... tttttggcagGTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAAC
EST:
gi|11273713|gb|BF324089.1|BF324089EST: CGTGGGGATGACAACCGGACAACACTCATGATAAAAAATATTCCCAATAA GTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAAC
genomic: CGTGGGGATGACAACCGGACAACACTCATGATAAAAAATATTCCCAATAAgtatgccaat ... tttttggcagGTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cactggtctttcagtttgtctctttcatttatatttgtttaaatatttttggcagGTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTGTATTTGCCAATTGATTTCAAG
tattttt CT-rich tract
tttgtctctttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacaaaatttgaataacaatttttaaaaacaagcaaattcttttgcactggtctttcagtttgtctctttcatttatatttgtttaaatatttttggcagGTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTGTATTTGCCAATTGATTTCAAG
- - - - - gaataac
- - - - - - - - - - - - - - acaagca
- - - - - - - - - - - - - - - - - - - - - -tgcactg