Sequence
atgc intronic sequence ATGC exonic sequence...ttttcttttagattcaaatgccaatgaaatatattgtggcttctatggtctttttctgtttcttaaaaacatattgaaccgtcttgcatggcttgagcagGCTGTTGTCACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAACA
Basic information
species | Glycine max |
transcript | GLYMA06G22410.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G22410.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G071970_T01 (Zea mays), 3'ss of exon 2
ttttcttttagattcaaatgccaatgaaatatattgtggcttctatggtctttttct---gtttcttaaaaacatattgaacc--gtcttgcatgg-----cttgagcagGCTGTTGTCACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAACA
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----------gaaacatacatcactgataacaagaacatcatccaaaatttatgtcagaagcatgctatgcatacatggttcctgatttcccataaaatacctgctgcagGCTGTTGTCACAATGTTCAATTATCAACAATTTCGGCACATCGGGGCACCTGGATGGCAGCTTGGGTGGACATGGGCAAAAAAGGAGGTTATATGGTCAA
upper sequence: GLYMA06G22410.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g05070.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------ttttcttttag-attcaaatgccaatgaaatatattgtggcttctatggtctttttctgtttcttaaaaacatattgaaccgtcttgcatggcttgagcagGCTGTTGTCACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAACA
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gtaagtaaaatattaaactacaaaatattttgattgcaatagtgaaccttgttcaagcatccacttgcctttgcccatgaatggattccacttacatttcaattgttttctagttatg-atctaatctttttattcatgttgggcagGCTGTTGTTACAATGTTCAACTTCCAGCAATATCGCCACATTCAAGCACCAGGGTGGTCACTTGGATGGTCATGGGCCAAAAAGGAAGTAATCTGGAGTA
upper sequence: GLYMA06G22410.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 3'ss of exon 2
ttttcttttagattcaaatgccaatgaaatatattgtggcttctatggtctttttct---gtttcttaaaaacatat-tgaaccgtcttgcatggcttgagcagGCTGTTGTCACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAACA
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----agttgaaatgctatttaccaggaacttttaattaaaagtcaggattcctctctttagtgcattgtgtaactatgtgatcaactcttcttggattggatagGCTGTTGTCACTATGTACAATTTCCAGCAATATCGTCACATTCAATCGCCAGGATGGTCACTGCAATGGACATGGGCAAAAAAGGAGGTGATATGGAGCAMapped 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|8283725|gb|BE021284.1|BE021284EST: ATATAACAATCAAGTGGGATGTCATTAGCTGGACTCCAGATGGCTATGTT GCTGTTGTCACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCC
genomic: ATATAACAATCAAGTGGGATGTCATTAGCTGGACTCCAGATGGCTATGTTgtaagtgacc ... gcttgagcagGCTGTTGTCACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtctttttctgtttcttaaaaacatattgaaccgtcttgcatggcttgagcagGCTGTTGTCACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAACA
tttcttaaaaacatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcttttagattcaaatgccaatgaaatatattgtggcttctatggtctttttctgtttcttaaaaacatattgaaccgtcttgcatggcttgagcagGCTGTTGTCACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA