Sequence
atgc intronic sequence ATGC exonic sequence...agcattttgattgcgttcttcagaacctagaatggaaattattgcatttgatattgtgactggtcttttatattaattatcttcttttctcttttgaaagGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGCAGTGGAATACA
Basic information
species | Glycine max |
transcript | GLYMA07G09750.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09750.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G043056_T01 (Zea mays), 3'ss of exon 2
-agcattttgattgcgttcttcagaacctagaatggaaattattgcatttgatattgtgactggtcttttatattaattat-cttcttttctcttttgaa-agGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGCAGTGGAATACA
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acatatcttgctaatatgttacaagagtaatattttg--ttagtgcctcctctactgtt-ccacctgaaggaaaaaataacactgatatgctgatttgaacagGGACCACAATATGTCTGCACAAATTTCTGGACCTTTGTTTGTACCAATTGCAGTGGATCACA
upper sequence: GLYMA07G09750.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G341732_T02 (Zea mays), 3'ss of exon 3
agcattttgattgcgt-tcttcagaacctagaatggaaattattgcatttgatattgtgactggtcttttatattaattatcttcttttctcttttgaa-agGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGCAGTGGAATACA
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--tatcttgctaatatattatgagaataatgttttgttattgccttccctactgttccacctgaagaaaaaagcaagaacactgatatgctgatttgaacagGGACCACAATATGCCTGCACAAATTTCTGGACCTTCGTTTGTACCAATTGCAGTGGAGCACA
upper sequence: GLYMA07G09750.2 (Glycine max), 3'ss of exon 2
lower sequence: AT4G13350.2 (Arabidopsis thaliana), 3'ss of exon 2
agcattttgattgcgttcttcagaacctagaatggaaattattgcatttgatattgtgactggtcttttatattaat-tatcttcttt--tctcttttgaa-agGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGCAGTGGAATACA
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----------gtaagtttttttttgctcttcatttgatcatttccgataaaaattttgagagaactta-acgttaacgtttcttcttcgatatcatttacttagGGACCACAATATGTTTGCACTACTTTCTGGACTTTTGTTTGTACCAACTGCAGTGGAATACA
upper sequence: GLYMA07G09750.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0016g04210.t01 (Vitis vinifera), 3'ss of exon 1
agcattttgattgcgttcttcagaacctagaatggaaattattgc---atttgatattgtgac---tggtcttttatattaattatcttcttttctcttttgaaagGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGCAGTGGAATACA
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---aatt---ttgtagtccaaagagctcaccaactacattcttcattaacttggaaagatgaaatatagtctatgatatgaaggctaattttttccttccaaacagGGACCGCAATACGTGTGCACAAATTTCTGGACATTTGTTTGCACAACTTGTAGTGGGATACAMapped 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|209722104|gb|BW659319.1|BW659319EST: GTCTTCTCAAGCTTCAACATAATCGCAGATGCATTAACTGCAACAGTCTG GGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGC
genomic: GTCTTCTCAAGCTTCAACATAATCGCAGATGCATTAACTGCAACAGTCTGgtaagatgtt ... cttttgaaagGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgatattgtgactggtcttttatattaattatcttcttttctcttttgaaagGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGCAGTGGAATACA
tattaat putative branch site (score: 2)
ttaattatcttctttt CT-rich tract
ttttatattaattatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcattttgattgcgttcttcagaacctagaatggaaattattgcatttgatattgtgactggtcttttatattaattatcttcttttctcttttgaaagGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGCAGTGGAATACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - -tgattgc
- - - - - - - - - - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgactg