Sequence
atgc intronic sequence ATGC exonic sequencegtattaaaaacaaactgattacatttatttgatcatgtactttaacataaggtttagtatcaagtttcatcccatgtccttggtcacagGCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGGATGCTAGAAGTGAGTTCTGTAGCAGCTGAAGTTCGTCTTGGAATGGACT
Basic information
species | Glycine max |
transcript | GLYMA07G01860.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G366146_T01 (Zea mays), 3'ss of exon 13
gtattaaaaac---aaactgattacatttatttgatcatgtac---tttaacataaggtt------------tagtatcaagtttc--atcccatgtcc--ttggtca--cagGCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGGATGCTAGAAGTGAGTTCTGTAGCAGCTGAAGTTCGTCTTGGAATGGACT
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gtacataaagctctatgttgtacttacttttttgttcgttaataaatttaaaacagggttaaaaaataaaaataaagtgaagtatctaatcttatgttcaattatgcaactagGCAATTCCTGGAGTGCCTAAAATTAAAGATAAGTACAATCCTGCAACGTGGATGCTGGAGGTCAGTTCAGTTGCAGCTGAAGTGCGACTAAAGATGGATT
upper sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 18
lower sequence: AT3G16340.1 (Arabidopsis thaliana), 3'ss of exon 14
gtattaaaaacaaactgattacatttatttgatcatgtactttaacataaggtttagtatcaagtttcatcccatgtccttgg-----tcacagGCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGGATGCTAGAAGTGAGTTCTGTAGCAGCTGAAGTTCGTCTTGGAATGGACT
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--------gtcagatt--ctacatttaatttgtcaaggtctctatattaaaatgtaagaactttcatgatcagtcctcttttgagaaactgcagGCGATTCATGGAGTTCCGAAGATTAAAGAGAAGTATAATCCGGCGACATGGATGCTAGAAGTGAGCTCAATGGCTGCAGAAGCTAAGCTTGAGATAGATT
upper sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 16
gtattaaaaacaaactgattacatttatttgatcatgtactttaacataaggtttagtat---caagtttcatccca----tgtc-cttggtcacagGCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGGATGCTAGAAGTGAGTTCTGTAGCAGCTGAAGTTCGTCTTGGAATGGACT
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---------------gtacctcattttcctgaaacccagtcttttcaaaaggaggagaatggactaatctgatcccaccattgttattttatcgcagGCGATTCCCCAAGTCCCGAAAATTAAAGAAAAGTATAACCCAGCAACATGGATGCTGGAAGTGAGCTCAATTGCTGCTGAGATTAGGCTTGAAATGGACT
upper sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv09s0002g03560.t01 (Vitis vinifera), 3'ss of exon 7
gtattaaaaacaaactgattacatttatttgatcatgtactttaacataaggtttagtat---caagtttcatccca----tgtc-cttggtcacagGCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGGATGCTAGAAGTGAGTTCTGTAGCAGCTGAAGTTCGTCTTGGAATGGACT
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---------------gtacctcattttcctgaaacccagtcttttcaaaaggaggagaatggactaatctgatcccaccattgttattttatcacagGCGATCCCCAAG-TCCCGAAAATTAAAGAAAAGTATAACCCAGCAACATGGATGCTGGAAGTGAGCTCAATTGCTGCTGAGATTAGGCTTGAA-------Mapped 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|14009025|gb|BG725629.1|BG725629EST: GAATACTTTGAG GCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGG
genomic: GAATACTTTGAGgtattaaaaa ... ttggtcacagGCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtactttaacataaggtttagtatcaagtttcatcccatgtccttggtcacagGCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGGATGCTAGAAGTGAGTTCTGTAGCAGCTGAAGTTCGTCTTGGAATGGACT
ctttaac putative branch site (score: 3)
tgtcctt putative PPT
tttaacataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattaaaaacaaactgattacatttatttgatcatgtactttaacataaggtttagtatcaagtttcatcccatgtccttggtcacagGCAATTCCAGGGGTTCCAAAAATTAAAGAGATGTACAACCCAGCAACATGGATGCTAGAAGTGAGTTCTGTAGCAGCTGAAGTTCGTCTTGGAATGGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG