Sequence
atgc intronic sequence ATGC exonic sequence...tctcctaataattaactttagctgctggtttgtaatttgatgattgtttttgaggtttgaatgaaatattgacttggttgagttaatgtgtgttgtgcagAGAAAGCCAAGATAGGGGAGAAAGAGTGGTACTTCTTCTGTCAAAAGGATAGGAAGTACCCAACTGGGATGAGAACCAATAGAGCAACAGAATCTGGGTA
Basic information
species | Glycine max |
transcript | GLYMA16G04720.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G04720.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g07640.t01 (Vitis vinifera), 3'ss of exon 1
--tctcctaataattaactttagctgctggtttgtaatttgatgattgtttttgaggtttgaatgaaatattgacttggttgagttaatgtgtgttgtgcagAGAAAGCCAAGATAGGGGAGAAAGAGTGGTACTTCTTCTGTCAAAAGGATAGGAAGTACCCAACTGGGATGAGAACCAATAGAGCAACAGAATCTGGGTA
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gtaatctctctctctatctttctctgtgagttc---tttggttttttggatttggtatttggg-gcgttatttctaatcttttattggacttgattgtacagAGAAAGCAAAGATGGGAGAGAAGGAATGGTATTTCTTTTGCCAGAGAGATAGGAAGTATCCTACAGGCATGAGAACGAATCGAGCTACCGAATCTGGATA
upper sequence: GLYMA16G04720.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S327_64V6.1 (Physcomitrella patens), 3'ss of exon 1
------------------tctcctaata--attaactttagc-tgctggtttgt-aatttgatgattgttt---ttgaggtttgaatgaaatattgac-ttggttgagttaatgtgtgttg----tgcagAGAAAGCCAAGATAGGGGAGAAAGAGTGGTACTTCTTCTGTCAAAAGGATAGGAAGTACCCAACTGGGATGAGAACCAATAGAGCAACAGAATCTGGGTA
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gtgacacaaactcccaatccttccagtatcatctggtgtagtgtgctgtcctccgaatttggtgatcatgtgaactgagatg-gaccgaatcattgaaattagtttcctcggtgggaaatgatcttgcagAGAAAGCGAAGTTAGGGGAGAAGGAGTGGTACTTCTTCAGCCTGCGGGATCGCAAGTATCCGACGGGAATGCGAACAAATAGAGCCACCGAAAAGGGTTAMapped 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|254343378|gb|GR857082.1|GR857082EST: TGCTATTGGAGAGGCTGATTTGAACAAGTGTGAACCTTGGGATTTACCAA AGAAAGCCAAGATAGGGGAGAAAGAGTGGTACTTCTTCTGTCAAAAGGATA
genomic: TGCTATTGGAGAGGCTGATTTGAACAAGTGTGAACCTTGGGATTTACCAAgtaagtttaa ... tgttgtgcagAGAAAGCCAAGATAGGGGAGAAAGAGTGGTACTTCTTCTGTCAAAAGGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttttgaggtttgaatgaaatattgacttggttgagttaatgtgtgttgtgcagAGAAAGCCAAGATAGGGGAGAAAGAGTGGTACTTCTTCTGTCAAAAGGATAGGAAGTACCCAACTGGGATGAGAACCAATAGAGCAACAGAATCTGGGTA
tttgaatgaaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctcctaataattaactttagctgctggtttgtaatttgatgattgtttttgaggtttgaatgaaatattgacttggttgagttaatgtgtgttgtgcagAGAAAGCCAAGATAGGGGAGAAAGAGTGGTACTTCTTCTGTCAAAAGGATAGGAAGTACCCAACTGGGATGAGAACCAATAGAGCAACAGAATCTGGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - -ctgctgg
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