Sequence
atgc intronic sequence ATGC exonic sequencegtattcttttaacatgcaatcagtgtatccatccccctatcccctctctctttctttgttgatgaatgtcattttcacctctcgaaaataagaaaaatgcttctttctaactttatatcccttcctctttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
Basic information
species | Glycine max |
transcript | GLYMA02G01510.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G121456_T03 (Zea mays), 3'ss of exon 7
gtattcttttaacatgcaatcagtgtatccatccccctatcccctctctctttctttgttgatgaatgtcattttcacctctcgaaaataagaaaaatgcttctttctaactt-tatatcccttcctctttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
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------------------------------------------gtaccagtagtgattgctaataaaatacatgtaggtgtagcttacatatccaagcttcgttaatagaagtcataaaaccggtgaaaatataatgc---agGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG
upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 3'ss of exon 7
gtattcttttaacatgcaatcagtgtatccatccccctatcccctctctctttctttgttgatgaatgtcattttcacctctcgaaaataagaaaaatgcttctttctaactttatatcccttcctctttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
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--------------------------------------gtagtctcttaatcctttcaatcattagtaaaaatctt--ttagtgaagtcttatgaatttcatttttctgatgtgagtcatgctttattcgtaaaactgtagGAAAAAGATACAGTCTACCAAACTCAAGGATAATGATCCATCAGCCGCTTGGTGGAGCTCAAGGTGGCCAAACCGACATTGACATTCAG
upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0005g01530.t01 (Vitis vinifera), 3'ss of exon 7
gtattcttttaacatgcaatcagtgtatccatccccctatcccctctctctttctttgttgatgaatgtcattttcacctctcgaaaataagaaaaatgcttctttctaactttatatccctt-cctctttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
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--------------------------------gtaagtaatttcctaggcttttgttgttagtggtttggagttccacttcgtggca-tatgctttttggtgtgctttgacat-gtgtctgtcacctccctcttaactgaagGAAAAAGATATAGCTTGCCAAACTCAAGGATCATGATCCATCAGCCTCTCGGTGGAGCTCAAGGTGGGCAAACTGACATAGATATTCAGMapped 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|192308112|gb|FK000440.1|FK000440EST: GCTGAGTGCAGGGACAAAAG GAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
genomic: GCTGAGTGCAGGGACAAAAGgtattctttt ... acttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
EST:
gi|193464771|gb|FK430095.1|FK430095EST: TATGGGAGCTTTTCTGCTGAGTGCAGGGACAAAAG GAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
genomic: TATGGGAGCTTTTCTGCTGAGTGCAGGGACAAAAGgtattctttt ... acttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
EST:
gi|15204414|gb|BI427182.1|BI427182EST: TATGGGAGCTTTTCTGCTGAGTGCAGGGACAAAAG GAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
genomic: TATGGGAGCTTTTCTGCTGAGTGCAGGGACAAAAGgtattctttt ... acttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataagaaaaatgcttctttctaactttatatcccttcctctttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
ttctaac putative branch site (score: 1)
cttctttctaacttta CT-rich tract
tttctaactttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattcttttaacatgcaatcagtgtatccatccccctatcccctctctctttctttgttgatgaatgtcattttcacctctcgaaaataagaaaaatgcttctttctaactttatatcccttcctctttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG