Sequence
atgc intronic sequence ATGC exonic sequence...gattattattattattatttttaattatgtgtacgtaaagaatacttcacttcttcaatctatattatgtaatgtttacctattcttctgtctcgtttagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
Basic information
species | Glycine max |
transcript | GLYMA17G33880.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os06g44030.1 (Oryza sativa), 3'ss of exon 15
------------------------gattattattattattatttttaattatgtgtacgtaaagaatacttcacttcttcaatct---------atattat--gtaatgtttacctattcttc--tgtctcgtt--tagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
|| | |||| || || || || | | | ||| | | ||| || ||||| | | | |||| ||| | | | | | | ||||||||||||||||||| ||||| ||||||||||| || ||||| ||||||||||| || ||||||||||||| || | ||| |||||| | ||| | |
gtaagtgtatttctggttcaaatcatttgcttatattggagcacttgatgctggatagatgcttatt-ctttaatgctttgtgctgatgcctgcatattcttactgagctttatctactacataatatttggctgacagTGTGTGCAGTGGCATGTTAACTGTAACTACATTGCCACCGGCTCTAGTGACAAAACTGTAAGATTATGGGATGTTCAAACTGGTGAATGTATACGGATGT
upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G135300_T01 (Zea mays), 3'ss of exon 15
--------------------------------------------------------gattattattattattatttttaattatgtgtacgtaaaga---atacttcacttcttcaat---ctatatt---------atgtaatgttta---cctattcttctgtctcg------ttt-------agTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
| | |||||| |||||||||| | | || ||| || |||||| || ||||| || |||| ||| || | | |||||||| || | ||| ||||||| ||||||||||| ||||| ||||||||||| |||||||| || |||||||| || | |||||||||| |||| || ||||| | ||| | |
gtaagtgaacttgttggtccaatacattaatataattcgagaataacggtttggttaaattgaattattgacatttttaattcttt-tatgtatggacatatacttgtttttatcaatgccctgtattgatgccagcatgccttggctgattttttttcttctgcctggaaatattttgcgtaacagTGTGTCCAGTGGCATGTAAACTGTAACTACATTGCCACTGGCTCTAGCGACAAAACTGTAAGGCTATGGGATGTTCAGACGGGTGAATGCATACGGATGT
upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G376959_T01 (Zea mays), 3'ss of exon 8
-gattattattattattatttttaattatgtgtacgtaaagaatacttcacttcttcaatctatattatgtaatgtttacctattcttctgtctcgtt-tagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
|| || || | |||| || | || | | || | | || || || | | | | | ||| | | | | | ||||||| |||||||| || ||||| |||||||||||||| ||||| || |||||||| || || |||||||||| |||| || |||||| | ||| | |
atgtttggatatctacttgtttttatca-atgccctgtattgatgccagcatgatttggctgatcttttttcct-tctgcctgaaaatgttttgcataacagTGTGTCCAGTGGCACGTAAACTGTAACTACATTGCTACCGGCTCTAGCGACAAAACTGTAAGACTATGGGATGTTCAGACGGGTGAATGTATACGGATGT
upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G170129_T02 (Zea mays), 3'ss of exon 2
-------------------------------------------------------------gattattattattattatttttaattatgtgtacgtaaagaatacttcacttcttcaat--ctatattatgtaa-tgtttacctattcttctgtct-----cgttt--------agTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
|| ||| | | |||| ||| ||| | || | | | | || | || | || || || || | | | |||||| || |||| ||||||| |||||||| || ||||| |||||||||||||| ||||| || |||||||| || || |||||||||| |||| || |||||| | ||| | |
gtaagtgaacttgttggtcctatactctgtgaatagagctttggttaaattgaattattggtgtttttaattcttttatgtttggatatctacttgtttttatcaatgccctgtattgatgccagcatgatttagctgatcttttttccttctgcctgaaaatgttttccataacagTGTGTCCAGTGGCACGTAAACTGTAACTACATTGCTACCGGCTCTAGCGACAAAACTGTAAGACTATGGGATGTTCAGACGGGTGAATGTATACGGATGT
upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G347339_T01 (Zea mays), 3'ss of exon 8
-------------------------------------------------------------gattattattattattatttttaattatgtgtacgtaaagaatacttcacttcttcaat--ctatattatgtaa-tgtttacctattcttctgtct-----cgttt--------agTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
|| ||| | | |||| ||| ||| | || | | | | || | || | || || | || | | | |||||| || |||| |||| || |||||||| || ||||| |||||||||||||| ||||| || |||||||| || || |||||||||| |||| || |||||| | ||| | |
gtaagtgaacttgttggtcctatactctgtgaatagagctttggttaaattgaattattggtgtttttaattcttttatgtttggatatctacttgtttttatcaatgccctgtattgatgccagcatgatttggctgatcttttttccttctgcctgaaaatgttttgcataacagTGCGTCCAGTGGCACGTAAACTGTAACTACATTGCTACCGGCTCTAGCGACAAAACTGTAAGACTATGGGATGTTCAGACGGGTGAATGTATACGGATGT
upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv04s0008g05780.t01 (Vitis vinifera), 3'ss of exon 15
------gattattattat-tattatttttaattatgtgtacgtaaagaatacttcacttcttcaatctatattatgtaatgtttacctattcttctgtctcgtttagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
| || | || | | | |||| | | || | | | | || | | ||| |||||| | ||| | | ||| ||||||| |||||||| | ||||||||||||||||| || ||||| ||||||||||||||||||||||||||||||||||||||||| |||||||| |||
atgccaggctagcagaatgtttcgtagttaactggatcacttgaacttgtgttgtaatattttaggacagatt--gtaatgagtttggatttgt-----ttgttcagTGTGTACAGTGGCACATAAACTGCAACTACATTGCGACAGGCTCAAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAGTGTGTTCGCATTT
upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 15
lower sequence: EFJ25067 (Selaginella moellendorffii), 3'ss of exon 14
gattattattattattatttttaattatgtgtacgtaaagaatacttcacttcttcaatctatattatgtaatgtttacctattcttctgtctcgtttagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
| | || || | | | | ||| || | || | || | | ||| || | | || |||| ||||||||||||||||| ||||| || |||||||| ||||| || ||||| || || | | ||||| ||||| | ||| || ||||| || |||
-------------gtaagttctacctttccgcttatgt----cgtttctctccctcgcataaacttgagcga-gttgctgcatgcgtttgc-------agTGCGTGCAGTGGCATGTCAATTGCAATTATATTGCTACAGGCTCAAGCGACAAGACTGTCAGGCTGTGGGACGTACAAACTGGAGAGTGTGTACGCATTT
upper sequence: GLYMA17G33880.1 (Glycine max), 3'ss of exon 15
lower sequence: EFJ29975 (Selaginella moellendorffii), 3'ss of exon 14
gattattattattattatttttaattatgtgtacgtaaagaatacttcacttcttcaatctatattatgtaatgtttacctattcttctgtctcgtttagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
| | || || | | | | ||| || |||| | || | | ||| || | | || |||| ||||||||||||||||| ||||| || |||||||| ||||| || ||||| || || | | ||||| ||||| | ||| || ||||| || |||
-------------gtaagttctacctttccgcttatgt----cgtttctctccttcgcataaacttgagcga-gttgctgcatgcgtttgc-------agTGCGTGCAGTGGCATGTCAATTGCAATTATATTGCTACAGGCTCAAGCGACAAGACTGTCAGGCTGTGGGACGTACAAACTGGAGAGTGTGTACGCATTTMapped 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|151403584|gb|EV273394.1|EV273394EST: TACAACCTTTGAGAATAATGGCAGGGCATTTGTCAGATGTTGAT TGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGAC
genomic: TACAACCTTTGAGAATAATGGCAGGGCATTTGTCAGATGTTGATgtgagtttta ... tctcgtttagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcacttcttcaatctatattatgtaatgtttacctattcttctgtctcgtttagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
cctattcttctgtctc CT-rich tract
aatctatattatgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattattattattattatttttaattatgtgtacgtaaagaatacttcacttcttcaatctatattatgtaatgtttacctattcttctgtctcgtttagTGTGTGCAGTGGCATGTCAACTGCAACTACATTGCTACTGGCTCCAGTGACAAAACAGTTCGATTATGGGATGTACAGAGTGGGGAATGTGTTCGGGTTT
- - - - - - - - - - - - - -tgtgtac
- - - - - - - - - - - - - - - - - gtaaagaa
- - - - - - - - - - - - - - - - - - - - - -acttcac