Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatataccaagttaccaactctcacattaccatgctatttgtgtttttttggtttgcttatttatgtgtgaatgtgcaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGTTTTCCCATGGCATTCACCACCACCATGCTTTCATGGAGCGTTATTGAGT
Basic information
species | Glycine max |
transcript | GLYMA02G01990.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G01990.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G02800.1 (Arabidopsis thaliana), 3'ss of exon 1
----gtatgtatataccaagttaccaactctcacattaccatgcta---tttgtgtttttttggtttgcttatttatgtgtgaat--gtgcaat---gcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGTTTTCCCATGGCATTCACCACCACCATGCTTTCATGGAGCGTTATTGAGT
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accctaattttgttattatgctttttaggttaaaacagagaaactaagttacatattttcttggaaagcctaatt-tgtgtgaattggtttaattttgtagGTGGATTTGGTGGGAGGATACTACGATGCAGGGGACAATATGAAGTTTGGATTCCCAATGGCATTCACAACCACAATGCTCTCATGGAGTTTAATTGAGT
upper sequence: GLYMA02G01990.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G02290.1 (Arabidopsis thaliana), 3'ss of exon 1
---------gtatgtatat-accaagttaccaactctcacattaccatgctatttgtgtttttttggtttgcttatttatgtgtgaatgt-gcaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGTTTTCCCATGGCATTCACCACCACCATGCTTTCATGGAGCGTTATTGAGT
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ttaaattctgtatcaatatcgtcaaaagatcaaatctttattagttgttttctttcccctctttccaaaaaatctctaatttgtgtgttttgttgattagGTGGATTTGGTTGGAGGGTACTATGATGCAGGAGACAATATCAAATTTGGTTTCCCAATGGCATTCACAACCACAATGCTTTCATGGAGTGTAATTGAAT
upper sequence: GLYMA02G01990.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g00740.t01 (Vitis vinifera), 3'ss of exon 1
--------gtatgtatataccaagttaccaactctcacattaccatgctatttgtgtttt----tttggtttgcttatttatgtgtgaatgtgcaa-tgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGTTTTCCCATGGCATTCACCACCACCATGCTTTCATGGAGCGTTATTGAGT
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gtatgtgtaaatgtgtatgctctgtttcttcaattacttgttttagatttttcatcttttgaagttggttttgttaatttgggcgtggaaatggaaatgcagGTGGATTTGGTTGGAGGGTACTATGACGCAGGGGACAATGTGAAGTTTGGGTTCCCAATGGCCTTCACCACCACCATGCTTTCATGGAGTGTGATCGAGT
upper sequence: GLYMA02G01990.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ21535 (Selaginella moellendorffii), 3'ss of exon 1
gtatgtatataccaagttaccaactctcacattaccatgctatttgtgtttttttggtttgcttatttatgtgtgaatgtgcaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGTTTTCCCATGGCATTCACCACCACCATGCTTTCATGGAGCGTTATTGAGT
||||| | | | ||| | || ||| || || ||| | || | | || | ||| | || ||| | | | | ||||| ||| || |||| ||||| || || ||||| || |||||||||||||| | ||||||||||||||||||||| || || |
gtatgcgt-ttctaagat-cctgctcgttttgtaacaagctctacttgatctctttggttgttctcttcaagGTGGTTCTCCGA-----------------GGAGGCTACATCGACTCTGGAGACAACGTAAAGTTTGGATTCCCCATGGCATTCACGATCACCATGCTTTCATGGAGCGTGATAGAAT
upper sequence: GLYMA02G01990.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ23913 (Selaginella moellendorffii), 3'ss of exon 1
gtatgtatataccaagttaccaactctcacattaccatgctatttgtgtttttttggtttgcttatttatgtgtgaatgtgcaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGTTTTCCCATGGCATTCACCACCACCATGCTTTCATGGAGCGTTATTGAGT
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gtatgcgtttctgagat--cctgctcgttttataagaagctctacttgatctctttggttgttctcttcaagGTGGTTCTCCGA-----------------GGAGGCTACGTCGACTCTGGAGACAACGTAAAGTTTGGATTCCCCATGGCATTCACGATCACCATGCTTTCATGGAGCGTGATAGAATMapped 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|192298776|gb|FG988627.1|FG988627EST: GAATGTCTTGGAGGAGAGACTCTGGCCTCTCTGATGGCTCTGCCATGCAT GTTGATTTGGTTGGAGGGTACTATGATGCT-GGGACAATGTGAAATTTGGT
genomic: GAATGTCTTGGAGGAGAGACTCTGGCCTCTCTGATGGCTCTGCCATGCATgtatgtatat ... tgcaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGT
EST:
gi|208043332|gb|GD840050.1|GD840050EST: GAATGTCTTGGAGGAGAGACTCTGGCCTCTCTGATGGCTCTGCCATGCAT GTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGT
genomic: GAATGTCTTGGAGGAGAGACTCTGGCCTCTCTGATGGCTCTGCCATGCATgtatgtatat ... tgcaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatgctatttgtgtttttttggtttgcttatttatgtgtgaatgtgcaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGTTTTCCCATGGCATTCACCACCACCATGCTTTCATGGAGCGTTATTGAGT
tatttgtgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatataccaagttaccaactctcacattaccatgctatttgtgtttttttggtttgcttatttatgtgtgaatgtgcaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTGAAATTTGGTTTTCCCATGGCATTCACCACCACCATGCTTTCATGGAGCGTTATTGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA