Sequence
atgc intronic sequence ATGC exonic sequence...taaaataaggtgatacctttgtagttaaaagtgaaaatagaaaataagaataaaaaatatttctcaaattaaaccattcactactatctcttttatgtagACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGTGCAAGCATAAGTGGCTCCAACAACAACATCCCAGCCCCAAACAACACAT
Basic information
species | Glycine max |
transcript | GLYMA02G05930.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05930.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g15830.1 (Oryza sativa), 3'ss of exon 2
---------------------------------------------------------taaaataaggtgatacctttgtagt-taaaagtgaaaatagaaaataagaataaaaaatatttctcaaattaaaccattcactactatctctttta--------------------tgtagACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGTGCAAGCATAAGTGGCTCCAACAACAACATCCCAGCCCCAAACAACACAT
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gtatgtagcagagataagctctatcagaaccacacaaaagaatatcacattcggaaatagaaggagaaatgaactgtgtattattattatttctgtatgagcttagagaaaagaaccgctcctaggatgagctcaacagtgccgtgttttgtgactgaatttgcactcaaacctgcagGTTGGTGGCCCGTACTGGGATGTGCCACTTGGCCGGAGGGACTCACTGGGTGCCAGCATCCAGGGCTCCAACAACGACATCCCAGCTCCCAACAACACCC
upper sequence: GLYMA02G05930.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G089982_T01 (Zea mays), 3'ss of exon 2
-----------------------------------taaaataaggtgatac-ctttgtagttaaaagtgaaaatagaaaataagaataaaaaatatttctcaaattaaaccattcactactatctcttttatgtagACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGTGCAAGCATAAGTGGCTCCAACAACAACATCCCAGCCCCAAACAACACAT
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gtatgttccacacttccactatcgacaatcctttccaacctcaaggaacagacatgatatttgtgagtgtatatatatatatatagtgatagct--ttggcaaacttagatattttctg--agctctaaaccgtagGTTGGTGGACCATACTGGGACGTGCCACTTGGCCGGAGAGACTCGCTCGGTGCAAGCATCCAGGGCTCCAACAATGACATCCCAGCCCCCAACAACACAC
upper sequence: GLYMA02G05930.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G66390.1 (Arabidopsis thaliana), 3'ss of exon 2
taaaataaggtgatacctttgtagttaaaagtgaaaatagaaaataagaataaaaaatatttctcaaattaaaccattcactactatctcttttatg-tagACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGTGCAAGCATAAGTGGCTCCAACAACAACATCCCAGCCCCAAACAACACAT
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--------------------------gtaagtactcatcacaattcactacacacaaaattagttgattattatcaataatt-tgacaaatgaaataacagACGGGTGGACCGAGCTGGGAAGTACCTCTAGGAAGAAGAGACGCGAGAGGAGCAAGCTTGAGTGGTTCCAACAACGACATTCCTGCTCCAAACAACACTT
upper sequence: GLYMA02G05930.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0023g02570.t01 (Vitis vinifera), 3'ss of exon 2
--------taaaataaggtgatacctttgtagttaaaagtgaaaatagaaaataagaataaaaaatatttctcaaattaaaccattcactactatctcttttatgtagACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGTGCAAGCATAAGTGGCTCCAACAACAACATCCCAGCCCCAAACAACACAT
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gtaagtattattatcagttgtcacatttttcagtcttgttcttgacatggcacagctaccatctttagccagcatggtga--tatttacttct-ttttgagtgtacagACTGGGGGGCCTAGCTGGGAGGTGCCACTGGGGAGAAGGGACTCCAGAGGTGCCAGCTTGAGTGGTTCCAACAACAACATTCCTGCTCCAAACAACACCTMapped 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|6502440|gb|AW203813.1|AW203813EST: TGTCTTGTGCTGACATCTTGACTCTAGCTGCAAGAGATTCAGTTGTTCTT ACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGT
genomic: TGTCTTGTGCTGACATCTTGACTCTAGCTGCAAGAGATTCAGTTGTTCTTgtaagtgact ... ttttatgtagACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGT
EST:
gi|192333128|gb|FK026457.1|FK026457EST: TGTCTTGTGCTGACATCTTGACTCTAGCTGCAAGAGATTCAGTTGTTCTT ACTGGTGGACCAAACTGGGAAGTACCTTTAGG
genomic: TGTCTTGTGCTGACATCTTGACTCTAGCTGCAAGAGATTCAGTTGTTCTTgtaagtgact ... ttttatgtagACTGGTGGACCAAACTGGGAAGTACCTTTAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaataaaaaatatttctcaaattaaaccattcactactatctcttttatgtagACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGTGCAAGCATAAGTGGCTCCAACAACAACATCCCAGCCCCAAACAACACAT
ctactatctctttt CT-rich tract
taaaaaatatttctca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaataaggtgatacctttgtagttaaaagtgaaaatagaaaataagaataaaaaatatttctcaaattaaaccattcactactatctcttttatgtagACTGGTGGACCAAACTGGGAAGTACCTTTAGGCAGAAGGGACTCACTAGGTGCAAGCATAAGTGGCTCCAACAACAACATCCCAGCCCCAAACAACACAT
-aaaataa
- - - - - tgatacc
- - - - - - - - - - - - - - - - - - - - - - - - - taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattca