Sequence
atgc intronic sequence ATGC exonic sequence...gattttaatgacattgctattggaaaaatcaaaagctattgccaattttcagtttaattttagtaaaaaccaaccaaatcttctcttgtacggacttcagGTGCCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGACCTTCTCAAGCCAGTGCTTTACACAGAAGAAAGCTACATTGTCCGGGAGG
Basic information
species | Glycine max |
transcript | GLYMA14G31940.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G31940.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G066269_T01 (Zea mays), 3'ss of exon 1
--gattttaatgacattgctattggaaaaat-caaaagctattgccaattttcagtttaattttagtaaaaaccaaccaaatcttctc-ttgtacggacttcagGTGCCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGACCTTCTCAAGCCAGTGCTTTACACAGAAGAAAGCTACATTGTCCGGGAGG
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tcataaggaattactttgctctttgtaccattcaatacgtgagagaaagactcgaccctatcatgatt----ccgatatgacttacacgccgtttacaatgcagGTTCCAATGTTCGAAAACATGGACGACCAACTCCTGGACGCAATGTGCGACCGTGTGAAACCCATGCTGTACACAGAAGGAAGCCACATCGTTCGCGAAG
upper sequence: GLYMA14G31940.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G53130.1 (Arabidopsis thaliana), 3'ss of exon 7
gattttaatgacattgctattggaaaaatcaaaagctattgcca----attttcagtttaattttagtaaaaacc--aaccaaatcttctcttgtacggacttcagGTGCCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGACCTTCTCAAGCCAGTGCTTTACACAGAAGAAAGCTACATTGTCCGGGAGG
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----------------gtaaagaagaaatcatctcctctctttactcgatttctcatttattgtcaacatcactcgtaaccgcatcttgtttt-tgttggttctagGTCCCCATGTTTGAGAAAATGGACGAACAGCTTCTTGATGCGCTCTGTGACCGTTTGCAACCTGTGTTATACACAGAGGAAAGCTACATAGTAAGAGAAG
upper sequence: GLYMA14G31940.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv16s0050g02560.t01 (Vitis vinifera), 3'ss of exon 7
gattttaatgacattgctattggaaaaatcaaaagctattgccaattttcagtttaattttagtaaa--aaccaaccaaatcttct-cttgtacggacttcagGTGCCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGACCTTCTCAAGCCAGTGCTTTACACAGAAGAAAGCTACATTGTCCGGGAGG
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---ttggttttcagcattgtgtgttgtcttcaagttgattggtaatgcaccattaattattactaaaccatggatttacatctttttcttaaacattgttaagGTGCCAATGTTCGAAAAGATGGATGAGCAACTGATGGATGCAATGTGTGACCGTCTCAAGCCAGCACTGTACACAGAAGATAGCTACATCGTCCGGGAGGMapped 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|20812588|gb|BQ297066.1|BQ297066EST: ATTTAAGAAGGGACATAAAGCGTCATCTTTGTTTGGCTTTGCTGATGATT GT-CCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGAC
genomic: ATTTAAGAAGGGACATAAAGCGTCATCTTTGTTTGGCTTTGCTGATGAGAgtaaagtccc ... cggacttcagGTGCCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcagtttaattttagtaaaaaccaaccaaatcttctcttgtacggacttcagGTGCCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGACCTTCTCAAGCCAGTGCTTTACACAGAAGAAAGCTACATTGTCCGGGAGG
gtttaat putative branch site (score: 4)
tttaattttagtaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattttaatgacattgctattggaaaaatcaaaagctattgccaattttcagtttaattttagtaaaaaccaaccaaatcttctcttgtacggacttcagGTGCCAATGTTTGAGAAAATGGACGAACAACTTCTGGATGCAATGTGCGACCTTCTCAAGCCAGTGCTTTACACAGAAGAAAGCTACATTGTCCGGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - -gctattg
- - - - - - - - - - - gaaaaat
- - - - - - - - - - - - - - - - - - tattgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agtaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaacca