Sequence
atgc intronic sequence ATGC exonic sequencegtgagctatcccatcctattcaattgaatactgtattggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
Basic information
species | Glycine max |
transcript | GLYMA02G08360.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G08360.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os08g07760.1 (Oryza sativa), 3'ss of exon 8
gtgagctatcccatcctattcaattgaatactgtattggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
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gtaagc-gtccaatagaa--caagcgaac-ttggagaataatattgagccaact---ttgattgagattcattatttgttacagCTGAGGAGGATCCAGAGGTCCATCTTGGCCAGCTTAAAAGATTTTCACTACGAGAACTACAAGTTGCAACAGATACCTTCAGCAATAAAAACATTCTCGG
upper sequence: GLYMA02G08360.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os04g38480.1 (Oryza sativa), 3'ss of exon 8
gtgagctatcccatcctattcaattgaatactgtattggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
|| | | | || | || | | | || | | | || || | | | | | | ||| | ||||||| |||||||| ||||| |||||||| || |||||||| |||||| | || || || |||||||| || |||| || ||||||||||| ||||| ||
gttggtattatagttgcat---actgcagttcatgatacttatgttatccatttaaataatctat-attctcctttaaattcagCTGAGGAGGATCCGGAAGTGCACCTTGGCCAACTTAAGAGATTCTCACTCCGGGAGCTTCAAGTTGCTACTGATAACTTTAGCAATAAGAATATTCTGGG
upper sequence: GLYMA02G08360.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G384439_T01 (Zea mays), 3'ss of exon 8
gtgagctatcc-catcctattcaatt-gaatactgtattggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
|| || || || | | | || | || |||| | | |||||| | ||| | ||||| | | |||| || || ||||| || || || ||||| |||||||| || || ||| |||||||| | ||||||||||||||| |||||||||||||||||||||||
gtaagtattcaacaggagaataacttagggaacaacattgaatt--tgaattaacttaatgtga---gacttcgaat--gtggcagCCGAGGAAGATCCAGAGGTGCATCTTGGCCAGCTTAAAAGATTTTCACTACGAGAATTACAAGTTGCAACAGATGGCTTCAGCAATAAGAACATTCTTGG
upper sequence: GLYMA02G08360.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G115420_T01 (Zea mays), 3'ss of exon 8
gtgagctatcccatcctattcaattgaatactgtattggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
|| | ||| | | || | | | || | ||| || | ||| | | |||| || |||||||| ||||| || ||||| ||||| || | ||| ||||| || || || ||||||||||| |||| |||||| || ||||||||| | ||
---gtctgtatcatatggtgtactttgttttttgttaacccatattgcctgtttgttcatctgctggcc--cattttgcttcagCCGAGGAGGATCCAGAAGTCCATCTTGGTCAGCTCAAAAAGTTTTCATTGCGGGAGCTTCAAGTTGCAACTGATAATTTCAGTAACAAGAACATTTTAGG
upper sequence: GLYMA02G08360.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G870959_T01 (Zea mays), 3'ss of exon 8
--------gtgagctatcccatcctattcaattgaatactgtattggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
|| ||| | | | | ||| | | | ||| | | | | | || || || | | | ||| |||| || |||||||| ||||| |||||||| ||||| ||||||||||| | |||| |||||||| || || || | ||| | ||| | ||| | || ||
gtcggtattatagttatacaccacagtgcggttgc-tgccatcttgtgctattcactcatttcatctatatgtggtctcctttccatt-cagCCGAGGAGGATCCCGAAGTTCACCTTGGACAGCTCAAGAGGTTCTCGCTGAGAGAGCTGCAAGTCGCCACGGACAATTTTAACAACAGGAATGTCCTGGG
upper sequence: GLYMA02G08360.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 8
gtgagctatcccatcctattcaattgaatactgt-attggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
|| || |||| | | ||| || || | | ||||| |||| ||| || ||||||||||||| || || || || || ||||||||||| ||||| ||| | |||||| | |||||||||||||||| ||| ||||| ||||||||||| ||
----------gttagtggtttaactgaaaaagattattaaccttgcgtatggatagattatcatttg-tttacgtctctttgcagCTGAAGAGGACCCAGAGGTTCATCTGGGGCAGCTTAAAAGGTTTTCACTGCGAGAATTACAAGTTGCAACAGATAGTTTTAGCAACAAGAACATTCTGGGMapped 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|7285665|gb|AW598152.1|AW598152EST: TGCTTGGTGGCGTCGAAGGAAACCACAGGAGTTTTTCTTTGATGTGCCCG CTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTAC
genomic: TGCTTGGTGGCGTCGAAGGAAACCACAGGAGTTTTTCTTTGATGTGCCCGgtgagctatc ... ctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTAC
EST:
gi|208329834|gb|GE128867.1|GE128867EST: TGCTTGGTGGCGTCGAAGGAAACCACAGGAGTTTTTCTTTGATGTGCCCG CTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTAC
genomic: TGCTTGGTGGCGTCGAAGGAAACCACAGGAGTTTTTCTTTGATGTGCCCGgtgagctatc ... ctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtattggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
ttgaataaattaatt 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagctatcccatcctattcaattgaatactgtattggttgaataaattaattggatggaatttgacttacatctaattacagCTGAAGAGGATCCTGAAGTACACCTTGGGCAGCTTAAGAGGTTCTCATTACGAGAACTGCAAGTTGCAACAGATACTTTCAGCAATAAGAACATTCTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC