Sequence
atgc intronic sequence ATGC exonic sequencetaagaacacttgatggtagcattgatgccatctttgattttatcctatggctcttatcttattatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
Basic information
species | Glycine max |
transcript | GLYMA18G12830.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 2
taagaacacttgatggtagcattgatgccatctttgattttatcctatggctcttatcttattatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
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----------------------gtaagagatcctgaaatctattctgcgttttacagaac-ttgtgactccttct------gatgccatcatattaattttcttt---------tgatatggtg---ctgcagGGGCCAGGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCTATTGGCCACGTCAGGCATAAGAATCTTGTCCGCCTTCTAGGATATTGTGTTGAGGGAATC-
upper sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 2
taagaacacttgatggtagcattgatgccatctt-tgattttatcctatggctcttatctt-attatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
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---------------------gtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaa-------ctgtgatcatattat-cgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA-
upper sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
taagaacacttgatggtagcattgatgccatctttgattttatcctatggctcttatcttattatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
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-------------------------------gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgctt---------cctttttacttgtttagtaaatcctaacacaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT-
upper sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
taagaacacttgatggtagcattgatgccatctttgattttatcctatggctcttatctta-ttatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
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-------------------------------gtaagaatagatcaaaagcaccttctctcactttttatgatgctttggttgaa-------------atttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT-Mapped 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|18730090|gb|BM525675.1|BM525675EST: AATTGATCAATGGATCCGAGGTGGCAGTGAAGAAAATTCTTAACAACTTG GGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTC
genomic: AATTGATCAATGGATCCGAGGTGGCAGTGAAGAAAATTCTTAACAACTTGtaagaacact ... aattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTC
EST:
gi|192331429|gb|FK019902.1|FK019902EST: AATTGATCAATGGATCCGAGGTGGCAGTGAAGAAAATTCTTAACAACTTG GGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTC
genomic: AATTGATCAATGGATCCGAGGTGGCAGTGAAGAAAATTCTTAACAACTTGtaagaacact ... aattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
atttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taagaacacttgatggtagcattgatgccatctttgattttatcctatggctcttatcttattatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG