Sequence
atgc intronic sequence ATGC exonic sequencegtaaggctttttctttggtaaagattctttgttgggctttatcaatttgtgctgatgttttgatggggtaactttttgaagttaatttatgacaaatgtgaatgctaacccggtcttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTA
Basic information
species | Glycine max |
transcript | GLYMA16G26550.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 9
gtaaggctttttctttggtaaagattctttgttgggctttatcaatttgtgctgatgttttgatggggtaactttttgaagttaatttatgacaaatgtgaatgctaacccggtcttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTA
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--------------gtaattaag-ctaattgcagg----cactaacctaaagcgttgttct--ttggacttctgttc-atgccattgcgataataattttttttctaatttaaccttctctgtgt-cacagATGGCGAGATTGAATGAAGGCCTGTCTCTTTTTGATGCAATACTGATTGTTCCAATGTTTCAGATTGCTTGGACCTTTTTTTCTATTTGCACAGGATTTG
upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G144254_T03 (Zea mays), 3'ss of exon 6
gtaaggctttttctttggtaaagattctttgttgggctttatcaatttgtgctgatgttttgatggggtaactttttgaagttaatttatgacaaatgtgaatgctaacccggtcttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTA
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-----------------------------------gtatggctaacctaatgcgttgttc--atgaggctactctgctgctcttatttgt--ctaat-------tcaactccatatgccctatgtg-acagATGGGAAGATTGAATGAAGGGTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTG
upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G477146_T02 (Zea mays), 3'ss of exon 9
gtaaggctttttctttggtaaagattctttgttgggctttatcaatttgtgctgatgttttgatggggtaactttttgaagttaatttatgacaaatgtgaatgctaacccggtcttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTA
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------------------------------gtatggctaacctaat--gtgttgttcctgaggctactccgctgct-gctgttttcctacgtcgttgtctaattcaagttccgtatgccttatgtg-acagATGGCAAGACTGAATGAGGGGCTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATTTGTACAGGATTTG
upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaaggctttttctttggtaaagattctttgttgggctttatcaatttgtgctgatgttttgatggggtaactttttgaagttaatttatgacaaatgtgaatgctaacccggtcttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTA
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-----------------gtaaaaaaaaacc-tcaagct--actgaaatattttggtgctttgttgtgccg-----ttgagactatatagttactgaagtaaaaacgtctttcatgtgcttctgtt--gcagATGACAAGATTGAATGAAGGATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCA
upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 9
gtaaggctttttctttggtaaagattctttgttgggctttatcaatttgtgctgatgttttgatggggta-actttttgaagttaatttatgacaaatgtgaatgctaacccggtcttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTA
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-------------------agagagaaaaagaaaaaagaaacaaaaaaaaatcaatgctgcaattggttggacatgttaaattttgcaaacaactgatat--atatta------tctccttc-----tgcagATGGCAAGGTTGAACGAAGGGTTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAAATTGCTTGGACTTTCTTCTCTATTTGTACAGGATTTGMapped 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|58021111|gb|CX707853.1|CX707853EST: GGTTCACATATTCCATGCTTCTTTTATTTCTTAGTACTGCTGGATTTTGG ATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTT
genomic: GGTTCACATATTCCATGCTTCTTTTATTTCTTAGTACTGCTGGATTTTGGgtaaggcttt ... aattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagttaatttatgacaaatgtgaatgctaacccggtcttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTA
tgctaac putative branch site (score: 1)
tcttttcca putative PPT
ttaatttatgacaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggctttttctttggtaaagattctttgttgggctttatcaatttgtgctgatgttttgatggggtaactttttgaagttaatttatgacaaatgtgaatgctaacccggtcttttccaattgtgcagATGACCAGGTTGAATGAAGGACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA