Sequence
atgc intronic sequence ATGC exonic sequence...ttctaaatctttaattaaattgagatacatgactgaatggttgactcaatgaagtttctttttggcttttgactggaatttcccttgaaccaaccaacagGTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTTCTGACAGAGAACTCCTATCTTCATATATATGG
Basic information
species | Glycine max |
transcript | GLYMA05G11200.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G11200.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G54440.2 (Arabidopsis thaliana), 3'ss of exon 7
---------ttctaaatctttaattaaattgagatacatgactgaatggttgactcaatgaagtttctttttggcttttgactggaatttcccttgaaccaaccaacagGTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTTCTGACAGAGAACTCCTATCTTCATATATATGG
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tcatttctattcataatcttctctt---ttgagtcgagtgggtctatgcttgggatttttcagttttcgataaccattttgacgaagttatcaatg------ctaacagGTGTACAAGCGCAGTTATGACGTGTGCATGCAACTATATGAAAAAGAGCTTTGGACTAGGGATTCATATCTTCACGTTTATGG
upper sequence: GLYMA05G11200.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 7
--ttctaaatct--ttaattaaattgagatacatg-actgaatggttgactcaatgaagtttctttttggcttttgactggaatttcccttgaaccaaccaacagGTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTTCTGACAGAGAACTCCTATCTTCATATATATGG
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tcaactgactctacttgtctagatattgttacatccagtggatatatagccca-tgaataatatgttctttctattatt----tttgtcttactgtttcttacagGTCTACAAGCGGAGTTACGATGTGTGCACACAACTATATGAGAAAGAGTTATTGACCGAGAATTCATATCTTCACGTATATGG
upper sequence: GLYMA05G11200.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 6
ttctaaatctttaattaaattgagatacatgactgaatggtt-----gactcaatgaagtttctttttggcttttgactg--gaatttcccttgaaccaaccaacagGTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTTCTGACAGAGAACTCCTATCTTCATATATATGG
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---tgggtagatgatcatgctaatatgaatgagctaatcttacctgggcattagttttgttcttttactattttacactgttgaaattgctt----ctttcttgcagGTGTACAAACGCAGTTTTGATATTTGCATGCAGCTTTATGAGAAGGAGCTTTTAACTGATAGTTCATATCTCTATACATATGGMapped 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|37996904|gb|CF808493.1|CF808493EST: AGACACTCCTCCAGTGGAG GTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTT
genomic: AGACACTCCTCCAGTGGAGgtaagtgtta ... caaccaacagGTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatgaagtttctttttggcttttgactggaatttcccttgaaccaaccaacagGTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTTCTGACAGAGAACTCCTATCTTCATATATATGG
ttttgac putative branch site (score: 3)
tttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctaaatctttaattaaattgagatacatgactgaatggttgactcaatgaagtttctttttggcttttgactggaatttcccttgaaccaaccaacagGTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTTCTGACAGAGAACTCCTATCTTCATATATATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - acatgac
- - - - - - - - - - - - - - - - -tgaatgg
- - - - - - - - - - - - - - - - - - - - - - - -aatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccttga