Sequence
atgc intronic sequence ATGC exonic sequence...atttcttttagattcaaatgtcaatgaaatatattgtagcttatacgatcttttcctgtttcttaaaagcataatgaaccttcttgcatggcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAGCA
Basic information
species | Glycine max |
transcript | GLYMA04G32130.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G32130.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g05070.t01 (Vitis vinifera), 3'ss of exon 2
---------------------------------------------atttcttttag--attcaaatgtcaatgaaatatattgtagcttatacgatcttttcctgtttcttaaaagcataatgaaccttcttgcatggcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAGCA
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gtaagtaaaatattaaactacaaaatattttgattgcaatagtgaaccttgttcaagcatccacttgcctttgcccatgaatggattccacttacatttcaattgttttctagttatg-atctaatctttttattcatgttgggcagGCTGTTGTTACAATGTTCAACTTCCAGCAATATCGCCACATTCAAGCACCAGGGTGGTCACTTGGATGGTCATGGGCCAAAAAGGAAGTAATCTGGAGTA
upper sequence: GLYMA04G32130.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 3'ss of exon 2
atttcttttagattcaaatgtcaatgaaatat--attgtagctta---tacgatcttttcctgtttcttaaaagcataatgaaccttcttgcatggcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAGCA
|| | || | | | | | ||| | | ||| | | | | | ||| || | | || || ||| | | | ||| ||| |||||||||| || |||||||| || || |||||||| |||||||| | || ||||||||| | ||||||||||| |||||||| ||||| |||||||
----agttgaaatgctatttaccaggaacttttaattaaaagtcaggattcctctctttagtgcattgtgtaactatg-tgatcaactcttcttggattggatagGCTGTTGTCACTATGTACAATTTCCAGCAATATCGTCACATTCAATCGCCAGGATGGTCACTGCAATGGACATGGGCAAAAAAGGAGGTGATATGGAGCA
upper sequence: GLYMA04G32130.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ07627 (Selaginella moellendorffii), 3'ss of exon 1
--atttcttttagattcaaatgtcaatgaaatatattgt---agcttatacgatcttttcctgtttcttaaaa-gcataatgaaccttcttgcatggcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAGCA
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gtaagttctcgggatccctctcttccacacacatttcttccgaaatttcgagctctttctccctttcacggcctgtaacccgggatttctt------cttctctagGCACTGGTGACCATGTACAACTACCAGCAATACCGCCACATCGAGACGCCCGGATGGACACTGGGATGGACTTGGGCCAAGAAGGAAGTGATTTGGGGAA
upper sequence: GLYMA04G32130.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ11028 (Selaginella moellendorffii), 3'ss of exon 1
--atttcttttagattcaaatgtcaatgaaatatattgt---agcttatacgatcttttcctgtttcttaaaagcataatgaaccttcttgcatggcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAGCA
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gtaagttctcgggatccctctcttccacacacatttcttccgaaatttcgagttctttctctctttcacggcctctaacccgggatttcttcttctct-----agGCACTGGTGACCATGTACAACTACCAGCAATACCGCCACATCGAGACGCCCGGATGGACACTGGGATGGACTTGGGCCAAGAAGGAAGTGATTTGGGGAAMapped 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|192300281|gb|FG988788.1|FG988788EST: ATATAACAATCAAATGGGATGTCATTAGCTGGACCCCAGATGGCTATGTT GCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCC
genomic: ATATAACAATCAAATGGGATGTCATTAGCTGGACCCCAGATGGCTATGTTgtaagtgacc ... gcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCC
EST:
gi|192308403|gb|FK002803.1|FK002803EST: ATATAACAATCAAATGGGATGTCATTAGCTGGACCCCAGATGGCTATGTT GCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCC
genomic: ATATAACAATCAAATGGGATGTCATTAGCTGGACCCCAGATGGCTATGTTgtaagtgacc ... gcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgatcttttcctgtttcttaaaagcataatgaaccttcttgcatggcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAGCA
tttcttaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttcttttagattcaaatgtcaatgaaatatattgtagcttatacgatcttttcctgtttcttaaaagcataatgaaccttcttgcatggcttgagcagGCTGTTGTGACAATGTACAACTTTCAACAATATCGCCACATTCAGGCCCCCGGATGGTCATTAGGGTGGACATGGGCTAAAAAGGAAGTGATTTGGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - -caatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgcat