Sequence
atgc intronic sequence ATGC exonic sequencegttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAGCAATTGCATTGTAAAGCTTTATTATTCCTTTCAAGATGAAGAGTACTTATATC
Basic information
species | Glycine max |
transcript | GLYMA20G35110.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35110.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G14350.3 (Arabidopsis thaliana), 3'ss of exon 4
gttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAGCAATTGCATTGTAAAGCTTTATTATTCCTTTCAAGATGAAGAGTACTTATATC
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gtatttaaattccttcaagtggctttcgtt-------tgacatttgtttagttggttgatgtgaatgtggaatctgatt-ttcagGTGGAACATGTAAAAGCAGAGAGAAATTTACTTGCAGAAGTTGATAGCAATTGCATTGTCAAACTGTATTGTTCTTTCCAAGATGAAGAGTACTTGTATC
upper sequence: GLYMA20G35110.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 4
gttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttct-atccctgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAGCAATTGCATTGTAAAGCTTTATTATTCCTTTCAAGATGAAGAGTACTTATATC
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---gtatctccttcaag--ctgcttttgtttgatatatctttgtt-tattatcgttcatgtttgttgaaatctgattctttttcagGTGGAGCATGTGAAAGCAGAGAGAAATTTACTTGCAGAGGTTGACAGCAATTGCATTGTGAAGCTGTATTGTTCTTTTCAAGATGAAGAGTATTTGTATC
upper sequence: GLYMA20G35110.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 3
gttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccc--tgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAGCAATTGCATTGTAAAGCTTTATTATTCCTTTCAAGATGAAGAGTACTTATATC
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-gtatgacttctgttggcctggcagacaat-ttattgtgtgttatat-ttatttttcttattgcccgatttgcttcttaatatttagGTTGAACATGTGAAGGCTGAGAGGAATTTACTTGCAGAGGTTGATAGCAATTGCATTGTCAAACTTTATTGTTCATTCCAAGATGAAGAGTTTCTTTATC
upper sequence: GLYMA20G35110.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------------gttacaa-aatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAGCAATTGCATTGTAAAGCTTTATTATTCCTTTCAAGATGAAGAGTACTTATATC
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tcatcataagaatgataacaataataatgataaatatttttatcgactatgatagtgaaaa--atcatagccattgaattgaaaattttgcggtaat-tgcagGTGGAGCATGTAAAAGCAGAGAGAAATTTGCTTGCAGAGGTCGATAGCAATTGTATTGTGAAGTTGTATTGCTCGTTTCAAGATGAGGAGTATTTGTATTMapped 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|193327700|gb|FK296367.1|FK296367EST: TATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAG GTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGGAGTTGATAG
genomic: TATATGCTATGAAGAAACTTAAGAAATCAGAGATGCTTCGCAGAGGCCAGgttacaaaat ... ccctgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAGCAATTGCATTGTAAAGCTTTATTATTCCTTTCAAGATGAAGAGTACTTATATC
ctttctatccctgttt CT-rich tract
ttgttaaattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttacaaaatcatcaggacttgctctcattgttaaaatgaatattgtcttgttaaattcattggttactttctatccctgtttagGTTGAACATGTAAAAGCTGAGAGGAATCTACTTGCAGAAGTTGATAGCAATTGCATTGTAAAGCTTTATTATTCCTTTCAAGATGAAGAGTACTTATATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA