Sequence
atgc intronic sequence ATGC exonic sequencegtaaggatatttatttatcaatggtgtaccctttaattttttttcttctgccagtttctgacactacacataaacaatgacttcttttttaatcttgttatgtaattgagttctgcattgaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
Basic information
species | Glycine max |
transcript | GLYMA14G03290.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 2
gtaaggatatttatttatcaatggtgtaccctttaattttttttcttctgccagtttctgacactacacataaacaatgacttcttttttaatcttgttatgtaattgagttctgcattgaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
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-----------------------------------gtaagagatcctgaaatctattctg-cgttttacagaacttgtgactccttctgatgccatcatat-taattttcttttgatatggtgctgcagGGGCCAGGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCTATTGGCCACGTCAGGCATAAGAATCTTGTCCGCCTTCTAGGATATTGTGTTGAGGGAATC
upper sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G026301_T01 (Zea mays), 3'ss of exon 2
gtaaggatatttatttatcaatggtgtaccctttaattttttttcttctgccagtttctgacactacacat-aaacaatgacttcttttttaatcttgttatgtaattgagttctgcattgaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
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--------------------gtaagaacccccggagtttatttttaacctaaaggac---accttccatatcggacatgaaatattgttctgctctcagcatacccacaatgtttgatatgtcattgtagGGGCCAAGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCAATTGGACATGTCAGGCATAAGAATCTTGTCCGCCTTCTTGGATATTGCGTGGAGGGAATA
upper sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
gtaaggatatttatttatcaatggtgtaccctttaattttttttcttctgccagtttctgacactacacataaacaatgacttcttttttaatcttgttatgtaattgagttctgcattgaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
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--------------------------------gtaagaatagatcaaaagc-accttctctcactttttatga----tg--ctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTTMapped 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|208246518|gb|GE048008.1|GE048008EST: GGAACCGAGGTGGCAGTGAAGAAGCTTCTTAACAACTT GGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCGTGT
genomic: GGAACCGAGGTGGCAGTGAAGAAGCTTCTTAACAACTTgtaaggatat ... gaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGT
EST:
gi|7042547|gb|AW472441.1|AW472441EST: AGACTGGTTAATGGAACCGAGGTGGCAGTGAAGAAGCTTCTTAACAACTT GGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGT
genomic: AGACTGGTTAATGGAACCGAGGTGGCAGTGAAGAAGCTTCTTAACAACTTgtaaggatat ... gaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatgacttcttttttaatcttgttatgtaattgagttctgcattgaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
ttttaat putative branch site (score: 3)
ttcct putative PPT
ttttttaatcttgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggatatttatttatcaatggtgtaccctttaattttttttcttctgccagtttctgacactacacataaacaatgacttcttttttaatcttgttatgtaattgagttctgcattgaattcctagGGGCCAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATAGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG