Sequence
atgc intronic sequence ATGC exonic sequence...gctgcaaattgcctagtattattttagttttcatgttttagaattgaatatttgtgtattctcatatagttttttttccctgcttatgattcatgaacagGTCGTGGCTATAACAGTATTTTTCTTGCTATCTATAGCATATTATGCTTTCTTTGCTCCTTTTCTTGGAAAGGACATCTATGAATATTTGGCTATTGGTG
Basic information
species | Glycine max |
transcript | GLYMA04G01720.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G01720.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G33640.1 (Arabidopsis thaliana), 3'ss of exon 1
gctgcaaattgcctagtattattt--tagttttcatgttttagaattgaatatttgtgtattctcatatagttttttttccctgcttatgattcatgaacagGTCGTGGCTATAACAGTATTTTTCTTGCTATCTATAGCATATTATGCTTTCTTTGCTCCTTTTCTTGGAAAGGACATCTATGAATATTTGGCTATTGGTG
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ttttctttttcctctgctttatgtgtttgtggataaaacacacatttaagtttatgtatatggttatctaacatggtctgt-tgctcatg-ttgctgtgcagGTTGTTGCCATAACTGTATTTTTCTTGCTAACTGTCGCTTACTATGCCTTCTTTGCTCCATTTCTTGGAAACAAACTCTATGAATATATTGCCATTGGTG
upper sequence: GLYMA04G01720.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0122g00920.t01 (Vitis vinifera), 3'ss of exon 1
--gctgcaaattgcctagtattattttagttttcatgttttagaattgaatatttgtgtattctcatatagttttttttccctgcttatgattca-tgaacagGTCGTGGCTATAACAGTATTTTTCTTGCTATCTATAGCATATTATGCTTTCTTTGCTCCTTTTCTTGGAAAGGACATCTATGAATATTTGGCTATTGGTG
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tgggagcatatg--cgatcattctctttattcat-tgggataatatcctgccttttattagttttttgtgcttgtgtactcacccacttttttcaatgtgtagGTTGTGGCTATAACAGTCTTTTTCTTGCTATCTGTCGCATTTTATGCCTTTTTTGCTCCCTTCCTTGGGAAGGATATCTATGAATATGTGGCAATCAGTGMapped 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|151395855|gb|EV265732.1|EV265732EST: CGGTCATGGCTAGGCGTCATGGATGGGAGCTCCCCTTTCACACTTTTCAG GTCGTGGCTATAACAGTATTTTTCTTGCTATCTATAGCATATTATGCTTTC
genomic: CGGTCATGGCTAGGCGTCATGGATGGGAGCTCCCCTTTCACACTTTTCAGgtacactggt ... tcatgaacagGTCGTGGCTATAACAGTATTTTTCTTGCTATCTATAGCATATTATGCTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatatttgtgtattctcatatagttttttttccctgcttatgattcatgaacagGTCGTGGCTATAACAGTATTTTTCTTGCTATCTATAGCATATTATGCTTTCTTTGCTCCTTTTCTTGGAAAGGACATCTATGAATATTTGGCTATTGGTG
tattctcatatagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctgcaaattgcctagtattattttagttttcatgttttagaattgaatatttgtgtattctcatatagttttttttccctgcttatgattcatgaacagGTCGTGGCTATAACAGTATTTTTCTTGCTATCTATAGCATATTATGCTTTCTTTGCTCCTTTTCTTGGAAAGGACATCTATGAATATTTGGCTATTGGTG
gctgcaa
- - - - ttgccta
- - - - - - - - - - - - - - - tcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgtattc