Sequence
atgc intronic sequence ATGC exonic sequencegtgagaatttgaattctaatacagttcttttgttaacatttttcagcctttagctaattagcttttgtctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
Basic information
species | Glycine max |
transcript | GLYMA17G06790.4 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G06790.4 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g45110.1 (Oryza sativa), 3'ss of exon 8
gtgagaatttgaattctaatacagttcttttg---ttaacatttttcagccttta---gctaattagcttttgtctctgat----ttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
|| || |||| | || |||| | | | || | |||| | ||| ||||| || | | | | || | ||||||| ||||||||||| ||||| || |||||| | || |||||||||||||||||| |||||||||| || | ||||| || ||| ||||| || |
gtcagtattt-atttacaatatattgaagtgacatttgattcttttgggggcttacttgctaaatacatatcattttgcatatcttcagATGGTAGATCCTGGTGGAATTGCTAATTGGTCAGTTACACATGTTGATTGGTCTGAGGGAAAATGGCATCCGAGGTCATATAGAGCTGCAGATGTCACCT
upper sequence: GLYMA17G06790.4 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g48700.1 (Oryza sativa), 3'ss of exon 8
gtgagaattt----gaattctaatacagttcttttgttaacatttttcagcctttagctaatt--agcttttgtctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
|| |||| | || ||| | | | |||| | | || | || | || || || | | ||||||||||||| ||| |||||||| |||||| | || ||||||||||||||||| |||||||||| |||||| | ||||||||| || | |
gtaagaactctcaaaaactcttaaatgatgttttt--cagttgtgtttacttcccagtgatttcaggccgttattgtacctgcagATGGTTGATCCAACTGGAATTGCAAATTGGTCAGTGACACATGTTGATTGGTCTGAAGGAAAATGGCATCCTAAAGCTTACAGGGCTGTTGACACAAGCT
upper sequence: GLYMA17G06790.4 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g07880.1 (Oryza sativa), 3'ss of exon 8
--------gtgagaatttgaattctaatacagttcttttgttaacatttttcagcctttagctaattagcttttg-tctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
| | | |||||||| || || | | || || || || ||| | || ||||| | || || ||||||| ||||||||||| || | || |||||| | || ||||||||||||||||| |||||||||| || | || || || ||| |||||||| |
gtcagtaaataatattttgaattgatatttagctttcttcttggtccctt---gcttttctttcatatgctttcactttcatcttcagATGGTAGATCCTGGTGGAATCTCTAATTGGTCAGTGACACATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGGTCGTATAGAGCTATTGATGTTACCT
upper sequence: GLYMA17G06790.4 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G138505_T01 (Zea mays), 3'ss of exon 8
----gtgagaatttg-aattctaatacagttcttttgtt-----aacatttttcagcctttagctaattagcttttgtctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
|| | |||| || ||| || ||||| | | | || ||||| || | || ||| | | ||||||||||||| |||||||| || || ||||||||| | ||||||||||||||||| ||| |||||||||| || | ||||| || ||| |||||||| |
gttagtaattatttttaactctgttatttaccttttttccctcgaccccttgcttccctttttttagtacagttgtgtttattctttagATGGTTGACCCTGGTGGAATAGCTAACTGGTCAGTGACTCATGTTGATTGGTCCGAGGGAAAATGGCATCCAAGGTCATATAGAGCTGCAGATGTTACAT
upper sequence: GLYMA17G06790.4 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G124151_T01 (Zea mays), 3'ss of exon 8
-----------gtgagaatttgaattctaatacagttcttttgttaacatttttcagcctttagctaattagcttttgtctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
| || | ||| | | || | | | | | || |||| || ||| | | | | || ||||||| ||||||||||| || || ||||||||| | ||||||||||||||||| ||| |||||||||| || | ||||| || ||| |||||||| |
gttagtaatccttttcaactgttatttgcctttaatttcctcgatcccttgctttcttttttaagta--tagttatgttttgatcttcagATGGTCGATCCTGGTGGAATAGCTAACTGGTCAGTGACTCATGTTGATTGGTCCGAGGGAAAATGGCATCCAAGGTCATATAGAGCTGCAGATGTTACCT
upper sequence: GLYMA17G06790.4 (Glycine max), 3'ss of exon 7
lower sequence: AT4G30060.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagaatttgaattctaatacagttcttttgttaacatttttcagcctttagctaattagcttttgtctctgatt-tagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
|| | || ||| | | | | ||| | | || |||| || | | | | | || || ||||| ||||||| ||||||||||| |||||| | |||| || |||||||||||||||||||| ||||| || ||| |||| | | || ||||| | ||
gtaataaaccattttcaactcaaaaagactataaaactctctgcattttttatcttcatgttatatatttttggttgcagATGCTTGATCCCGGTGGCATTGCTAACTGGACTGTAACACAAGTTGATTGGTCTGAGAGAAAGTGGCATCCCAAAACATATATGCCTGAGGATATCACAC
upper sequence: GLYMA17G06790.4 (Glycine max), 3'ss of exon 7
lower sequence: AT2G19160.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagaatttg----aattctaat----------acagttcttttgttaacatttt--tcagcctttagctaatta-gcttttgtctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
||||||||| ||||||| | || ||| ||| | ||| | | || | | || ||| | | | | | ||||| |||||||| ||||||||| |||||| | | || |||||||||||||||||||||| ||||| || | | ||||| | || | ||| | ||
gtgagaattcattttgattctaaagagaaagaaaatgtttgattttttagtactttctttatccataatatacttatggtctgataaatttcgcagATGCTTGATCCTACTGGCATTGCTAACTGGACTGTGACATATGTTGATTGGTCTGAGAGAAAGTGGCATCCAAGAAAATACATGCCTGAAGATATCACGC
upper sequence: GLYMA17G06790.4 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0103g00490.t01 (Vitis vinifera), 3'ss of exon 8
-------------------------gtgagaatttgaattctaatacagttcttttgttaacatttttcagcctttagctaattagcttttgtctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
|| | | | || | | | ||| | | | |||| | || | | || |||| ||| | | |||| ||||||| ||||||||||||||||||||| | || |||||||| |||||||| ||| ||||| || ||||||||||||||||||||||||| ||
gtgagatatatataccatttgttccttggtattatatcttttggctctgctctagtctcatcattcccaa--ctgaatatggtt--ctttcatctatttgtcagATAATTGATCCAGGTGGCATTGCAAACTGGTCAGTTACACATGTTGACTGGTCTGAAGCAAAGTGGCATCCAAAATCATACAGGGCTCAGGATGTTAATTMapped 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|209729789|gb|BW658594.1|BW658594EST: AGGGGAAGAATTGCATTGCTGATGAGCATTACTTGCCAACCTTCTTCCAG ATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGG
genomic: AGGGGAAGAATTGCATTGCTGATGAGCATTACTTGCCAACCTTCTTCCAGgtgagaattt ... tctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttttgttaacatttttcagcctttagctaattagcttttgtctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
cttttgtctct CT-rich tract
ttgttaacattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaatttgaattctaatacagttcttttgttaacatttttcagcctttagctaattagcttttgtctctgatttagATGGTTGATCCTGGTGGCATTGCAAACTGGTCACTAACTCATGTTGATTGGTCTGAGAGAAAATGGCACCCTAAATCATACAGGGCTCAGGATGTTACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG