Sequence
atgc intronic sequence ATGC exonic sequencegtgatgtataaatttagcaataagtttccaatccatatggacaaaaatataaaaggaaagaaagccatttgcattttcattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
Basic information
species | Glycine max |
transcript | GLYMA06G04230.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G04230.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 8
-----------------------------gtgatgtataaatttagcaat-aagtttccaatccatatggacaaaaatataaaaggaaagaaagccatttgcattttcattttgtatattg-cagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
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gtgagggagaattgtttttacttcttgatttgaagtgagaaatcaaaatttaggaaccctgaatgttttatttattttattatttattcctttcttttaaagaatatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
upper sequence: GLYMA06G04230.1 (Glycine max), 3'ss of exon 12
lower sequence: PP1S39_351V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------------------------------------------------------------------------gtgatgtataaatttagcaataagtttccaatccatatggacaaaaatataaaaggaaagaaagccatttgcattttcattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
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gttcgtgagttcattactgaatctttattattaaatgaaaacattcaagttagcctaattttaaactgataagaactttcttgttttagtatatggcgaaacatgttaataccttcttgccggaaagatgtcaaga--gtaaagtttttccatcacaaattctatcattgcagGACGGTGAAGCACTACCAGATGGACCAGTTGTCATTTCTCCTGATGGACTCTTTCCCTCCCTCTATCGCGAAG
upper sequence: GLYMA06G04230.1 (Glycine max), 3'ss of exon 12
lower sequence: PP1S2_272V6.2 (Physcomitrella patens), 3'ss of exon 6
------------------------------------------------------------------------gtgatgtataa--atttagcaataagtttccaatc----catatggacaaaaatataaaaggaaagaaagccat-----ttgcattttcat-----tttgtat-attgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
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gtgcgctatttgttttaaaataataattcaaaacagccgactttagactgattctgaagaaattttcttgttttcatgtagagtgatttggaggtcaactttccaccttgacctatgtctatagctacttgttgtaaagaggtcttgaatattataatttcatcacaatttctgttattgcagGATGGTGAAGCACTTCCAGATGGACCAGTTGTTATTTCTCCTGATGGACTCTTTCCCTCTCTTTATCGCGAAGMapped 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|27426468|gb|CA937988.1|CA937988EST: CAATTTCTCAGGCCTATATTACACGGCAATTCTTAGTTAACCTTAAACAG GATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTT
genomic: CAATTTCTCAGGCCTATATTACACGGCAATTCTTAGTTAACCTTAAACAGgtgatgtata ... tatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacaaaaatataaaaggaaagaaagccatttgcattttcattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
attttcattttgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgtataaatttagcaataagtttccaatccatatggacaaaaatataaaaggaaagaaagccatttgcattttcattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA