Sequence
atgc intronic sequence ATGC exonic sequence...tcatgatactagggagcagcttcggtaaatttttttatatatatattttcattgttattaatgtctgtaatgttactctgaaaaatgatttgacacacagGTGGTGCTCTAAAGCCAACCGATGTTGACACATTATGGGTTCATGTTACTTGTGCTTGGTTTCGACCTGAAGTATCTTTTGCTAGTGATGAAAAGATGGA
Basic information
species | Glycine max |
transcript | GLYMA19G17460.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 12
tcatgatactagggagcagcttcggtaaatttttttatatatatattttcattgt-tattaatgtctgtaatgttactctgaaaaatgatt--tgacacacagGTGGTGCTCTAAAGCCAACCGATGTTGACACATTATGGGTTCATGTTACTTGTGCTTGGTTTCGACCTGAAGTATCTTTTGCTAGTGATGAAAAGATGGA
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--gtggctttataaagtatattcagctttttcacataaacatatggcaccactgcctattaac-tatatccattggctccgctatgttgtcactgatg-atagGAGGTGCATTGAAGCCAACTGATGTGGAAACGTTGTGGGTTCATGTGACATGTGCTTGGTTTCAGCCTGAAGTATGTTTTGCAAGTGAGGAAAAAATGGA
upper sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 12
tcatgatactagggagcagcttcggtaaatttttttatatatatattttcattgt-tattaatgtctgtaatgttactctgaaaa-----atgatttgacacacagGTGGTGCTCTAAAGCCAACCGATGTTGACACATTATGGGTTCATGTTACTTGTGCTTGGTTTCGACCTGAAGTATCTTTTGCTAGTGATGAAAAGATGGA
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------tattagctatcctttcccctcagatcttatagttttaccgagaaattttgcattgttgcccatcaactaaatttgccaatttttgtgtactgataaatagGAGGTGCATTAAAGCCAACTGATGTGGAGACACTGTGGGTTCACGTGACATGTGCTTGGTTTCAGCCTGAAGTATGTTTTGCAAGTGAAGAAAAAATGGA
upper sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 13
tcatgatactagggagcagcttcggtaaattttttta-tatatatattttcattgttattaatgtctgtaatgttactctgaaaaatgatttgacacacagGTGGTGCTCTAAAGCCAACCGATGTTGACACATTATGGGTTCATGTTACTTGTGCTTGGTTTCGACCTGAAGTATCTTTTGCTAGTGATGAAAAGATGGA
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-cagaatttctttcaggagtttcctttggtttggagactttagttactgacaacgaagaacattctttgattttttttgtggttaaatttctttctcttagGTGGTGCTCTAAAGCCAACTGATATTGAGACATTATGGGTTCATGTCACTTGTGCTTGGTTTCAACCTGAAGTTTCTTTCTCAAGTGATGAAAAGATGGAMapped 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|37996740|gb|CF808329.1|CF808329EST: TTGTGAAACACCTGACATCAAGCAGGAATGTTGTCTTTGTCCTGTAAAAG GTGGTGCTCTAAAGCCAACCGATGTTGACACATTATGGGTTCATGTTACTT
genomic: TTGTGAAACACCTGACATCAAGCAGGAATGTTGTCTTTGTCCTGTAAAAGgtgtgtattc ... tgacacacagGTGGTGCTCTAAAGCCAACCGATGTTGACACATTATGGGTTCATGTTACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcattgttattaatgtctgtaatgttactctgaaaaatgatttgacacacagGTGGTGCTCTAAAGCCAACCGATGTTGACACATTATGGGTTCATGTTACTTGTGCTTGGTTTCGACCTGAAGTATCTTTTGCTAGTGATGAAAAGATGGA
attgttattaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatgatactagggagcagcttcggtaaatttttttatatatatattttcattgttattaatgtctgtaatgttactctgaaaaatgatttgacacacagGTGGTGCTCTAAAGCCAACCGATGTTGACACATTATGGGTTCATGTTACTTGTGCTTGGTTTCGACCTGAAGTATCTTTTGCTAGTGATGAAAAGATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
-catgata
- - - - - - - - cagcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgaa