Sequence
atgc intronic sequence ATGC exonic sequencegtcggtttctgaaattattgagatgttgttttgggcagagaaaactgaatgtctttttgacgttcttggtggcagttatgttttagacttttagtttattgaacatgtaattgagtatcatgttgttgcagATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGC
Basic information
species | Glycine max |
transcript | GLYMA15G13380.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G13380.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os12g41170.1 (Oryza sativa), 3'ss of exon 2
gtcggtttctgaaattattgagatgttgttttgggcagagaaaactgaatgtctttttgacgttcttggtggca--gttatgttttagacttt--tagtttattg--aacatgtaattgagtatcatgttgttgc----agATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGC
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----------------------------------------tgaactggatctctcacaggaactcatagtcacactattacattttgatttctggtagggaaataccatgatatcactga-tattatgcctatgtctttagGAGTCAAACTACCAAAGGTATCTGGATAGCACGATGTGTTGGTGTTGAGCCGTGTACTGTTGTGATGGATTTGGAGGGTACTGATGGAAGAGAAAGAGGA
upper sequence: GLYMA15G13380.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G390374_T01 (Zea mays), 3'ss of exon 2
gtcggtttctgaaattattgagatgttgttttgggcagagaaaactgaatgtc-tttttgacgttcttggtggcagttatgttttagactt--ttagtttattgaacatgtaattgagtatcatgttgttgcagATCG----CAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGC
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-------------------------------------ttttatacccatcatcacccctaaccatatcatgaaaaattgtagcttctacttatttatgttgatagagaagttattg-gtgttctatttttgttattagGAGCCAAACTACTAAAGGTATCTGGATAGCACGTTGTGTTGGTGTTGAACCTTGTACTGTTGTATTGGATCTGGAGGGTACTGATGGAAGAGAGAGAGGA
upper sequence: GLYMA15G13380.2 (Glycine max), 3'ss of exon 2
lower sequence: AT5G45160.1 (Arabidopsis thaliana), 3'ss of exon 3
gtcggtttctgaaattattgagatgttgttttgggcagagaaaactgaatgtctttttgacgttcttggtggcagttatgttttagacttttagttta--ttgaacatgtaattgagtat-catgttg--ttgcagATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGC
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-------------gttagtgat-tgtcattt--------gtcaatt-attgttttttataatctttttgtggcaatgccacttttggggttgaaattgggttgactttgtaaattactcttcattttcattttcagGAGTCAAACAACTAAAGGTATTTGGATGGCTAGGTGTGTTGGTATTGAGCCTTTCACAATTGCTATGGATTTGGAGGGTACTGATGGGAGAGAAAGAGGC
upper sequence: GLYMA15G13380.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0125g00430.t01 (Vitis vinifera), 3'ss of exon 2
gtcggtttctgaaattattgagatgt-tgttttgggcagagaaaactgaatgtctttttgacgttcttggtggcagttatgttttagactttt----agtttattgaacatgtaattgagtatcatgttgttgcagATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGC
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gttagttttttagtttcttaagctttgtatttttaaagggtgtgggtttgtttgtttatttcttgtttcttttttattttgttttaacattcccgacaatatgagagacatgagatgtaatttctttttactatagGAGTCAAACAACTAAGGGAATTTGGATGGCAAATTGTGTTGGTATTGAGCCTTTAACAATTGCCATGGATTTAGAGGGCACTGATGGGAGGGAAAGAGGCMapped 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|213604826|gb|DB960535.1|DB960535EST: AATCATCTTTTCCACACAAGTTTCAGGGAGATGGATGCTTTCAGGGGAAG ATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCC
genomic: AATCATCTTTTCCACACAAGTTTCAGGGAGATGGATGCTTTCAGGGGAAGgtcggtttct ... gttgttgcagATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCC
EST:
gi|11689067|gb|BF596743.1|BF596743EST: TTTCAGGGGAAG ATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCC
genomic: TTTCAGGGGAAGgtcggtttct ... gttgttgcagATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgttttagacttttagtttattgaacatgtaattgagtatcatgttgttgcagATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGC
ttttagtttattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcggtttctgaaattattgagatgttgttttgggcagagaaaactgaatgtctttttgacgttcttggtggcagttatgttttagacttttagtttattgaacatgtaattgagtatcatgttgttgcagATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG