Sequence
atgc intronic sequence ATGC exonic sequence...aattgtatatatatttctggtttggtgacttttcagttattattttatacatgtcattcttgaatgttatgtatctgaattgtgcacaattgttatgcagCGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACTACACTACTTTGTATATATGTTTTCGCATTTTGTTGGGTCTATATTAGAAGAATTATGGAGG
Basic information
species | Glycine max |
transcript | GLYMA02G07190.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g42370.3 (Oryza sativa), 3'ss of exon 3
------------------------------------------------aattgtatatatatttctggtttg-gtgacttttcagttattattttatacatgtcattcttgaatgttatgtatctgaattgtgcacaattgttatgcagCGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACTACACTACTTTGTATATATGTTTTCGCATTTTGTTGGGTCTATATTAGAAGAATTATGGAGG
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gtaagtatcatgtttttccagcagttctgtacctatccttaccgtaggaaagacatgtgcgtatttgtttggagttattcttccagtgct-tttcattgagctctcttcaaatcaacttgagcctaatcataaagcatatttggtgcagCGTAATTATCGGTTCTTCTACATGTTTGTATTCTCGACCACGTTACTCTGCCTCTACGTATTTGCTTTCTGTTGGGTGTACATAATCAAGATTAGAAATG
upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G41060.1 (Arabidopsis thaliana), 3'ss of exon 3
aattgtatatatatttctggtttggtgacttttcagtt-attattttatacatgtcattcttgaatgttatgtatctgaattgtgcacaattgttatgcagCGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACTACACTACTTTGTATATATGTTTTCGCATTTTGTTGGGTCTATATTAGAAGAATTATGGAGG
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--------gtaagtttctcggtttttcgttttcctgtccgttagtttctg-acatcagtct---atataattcatctca-ttctccttgggaatt-tgcagAGAAACTATCGATTCTTCTTCATGTTTGTCTTCTCCACGACTCTTCTCTGTGTATATGTGTTCGCCTTTTGTTGTGTCTACATAAAGAAGATCAAAGAGT
upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 3
aattgtatatatatttctggtttggtgacttttcagttattattttatacatgtcattcttgaatgttatgtatctgaattgtgcacaattgttatgcagCGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACTACACTACTTTGTATATATGTTTTCGCATTTTGTTGGGTCTATATTAGAAGAATTATGGAGG
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gtaagtcaaaatccaactgatcccgt---ctttaagctatccacataaaccatagtttcctaaatatcatct---catattctg-atggttgtt--gcagAGGAACTACCGATTCTTCTTCATGTTCGTCTTCTCCACGACCCTTCTATGTATATATGTGTTTGCCTTCTGCTGGGTCTATATAAGAAAGATTATGGAAT
upper sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 3
aattgtatatatatttctggtttggtgacttttcagttattattt-tatacatgtcattcttgaatgt-tatgtatctgaat-tgtgcacaattgtta-tgcagCGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACTACACTACTTTGTATATATGTTTTCGCATTTTGTTGGGTCTATATTAGAAGAATTATGGAGG
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----ttttccagttgtcatcttcaccaacatgataggaatgatgcatgtgcttgaatttgtgggcaatgcatgaatctgaacactttcacaattctgggtgcagCGTAATTATCGATTTTTCTTCATGTTTGTCTTCTCGACGACTCTTCTTTGTATATATGTGTTTGGGTTCTGCTGGGTCTATATTAAGAGGATCATGGATTMapped 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|208050537|gb|GD844122.1|GD844122EST: TGGAACGGTTTGATCACCATTGTCCCTGGGTTGGGCAGTGCATTGGGCTG CGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACCACACTACTTTGT
genomic: TGGAACGGTTTGATCACCATTGTCCCTGGGTTGGGCAGTGCATTGGGCTGgtaagttaga ... tgttatgcagCGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACTACACTACTTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatacatgtcattcttgaatgttatgtatctgaattgtgcacaattgttatgcagCGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACTACACTACTTTGTATATATGTTTTCGCATTTTGTTGGGTCTATATTAGAAGAATTATGGAGG
aattgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattgtatatatatttctggtttggtgacttttcagttattattttatacatgtcattcttgaatgttatgtatctgaattgtgcacaattgttatgcagCGTAATTATCGCTTCTTCTTCATGTTTGTCTTCTCAACTACACTACTTTGTATATATGTTTTCGCATTTTGTTGGGTCTATATTAGAAGAATTATGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - ggtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcacaa