Sequence
atgc intronic sequence ATGC exonic sequencegtaatagtctctcttatattttcctcactgagaagcttcctattgtaaccataaaacttgatgatatctacatttttggtttattgtttcgttctgagattaaattttgtgttgttgccttctttgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACATTGTAGTTATGAAGCGTTCTCAGCCTAAAGTACTGCGCTTGAATTTGATT
Basic information
species | Glycine max |
transcript | GLYMA08G20750.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20750.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 3'ss of exon 4
gtaatagtctctcttatattttcctcactgagaagcttcctattgtaaccataaaacttgatgatatctacatttttggtttattgtttcgttctgagattaaattttgtgttgttgccttctttgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACATTGTAGTTATGAAGCGTTCTCAGCCTAAAGTACTGCGCTTGAATTTGATT
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------------------------------gtaagggtcaaatcctat---tacagtgtgcataaatacatcataaccttttttttttctgttttc---ttatgtttcatgtttctgctaatt----agGGAGTTGAAGCATGAAGAGAAACATTGCGTGGAGGAGCTACAGTGTAATATTGTTGTTATGAAGCGTTCTCAACCTAAAGTTGTTCGGTTGAATCTTGTG
upper sequence: GLYMA08G20750.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g51190.3 (Oryza sativa), 3'ss of exon 3
gtaatagtctctcttatattttcctcactgagaagct-tcctattgtaaccataaaacttgatgatatctacatttttggtttattgtttcgttctgagattaaattttgtgttgttgccttctt-tgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACATTGTAGTTATGAAGCGTTCTCAGCCTAAAGTACTGCGCTTGAATTTGATT
| | | | |||| | || | | | || | | || | || |||| || | | | | | ||| | | | ||| || ||| || | |||||||| || || || |||||||||||||| || || |||||||| | ||||||||| |||| ||| ||||| || || ||||| || |
-----------------------------gtaatgttatcctgtactacatttcacagtttttacagtgcac-tgttacttttaacccctcttccgtatctgcatcattgagcaatggtcttgttactcagGGAGTTGAAACATGAAGAGAAACGTTGCATGGAAGAACTTCAATGCAACATTGTTGCTATGAAGCGCTCTCGGCCCAAAGTTCTTCGTCTGAATCTGGTG
upper sequence: GLYMA08G20750.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G057618_T02 (Zea mays), 3'ss of exon 4
gtaatagtctctcttatattttcctcactgagaagcttcctattgtaaccataaaacttgatgatatctacatttttggtttattgtttcgttctgagattaaattttgtgttgttgccttctttgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACATTGTAGTTATGAAGCGTTCTCAGCCTAAAGTACTGCGCTTGAATTTGATT
||||| ||| | | | ||| | || || || | | || ||||||| || || || ||| | | |||||| | ||||| ||| || || | | || || ||||| ||||| || |||| || || ||||| |||||||| |||||||||||||||||||||||||| || || | ||| | |
gtaatggtcaactctcaact--cctgaaacagtagtttttt---------------ttgaatacagcctacattctttcattgttatttttgcttaa---taaattgtatgttgctgctgcttt---agGGATTTGAAGCACGAGGAGAAGCGTTGTGTGGAGGAGCTTCAGTGCAACATTGTTGTTATGAAGCGTTCTCAGCCTAAAGTCCTTCGGCTTAATCTTGTG
upper sequence: GLYMA08G20750.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G480607_T06 (Zea mays), 3'ss of exon 3
gtaatagtctctcttatattttcctcactgagaagcttcctattgtaaccataaaa-cttgatgatatc-tacatttttggtttattgtttcgttctgagattaaattttgtgttgttgc--cttctttgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACATTGTAGTTATGAAGCGTTCTCAGCCTAAAGTACTGCGCTTGAATTTGATT
| | || | | | || ||||| | ||| ||| || || || || ||| | | |||||||| ||||| ||| || || ||| | | || |||||||| ||||| || |||| || || ||||| |||||||| ||||||||||| |||||||||||||| || || | ||| | |
-----------------------------gtatggtcaactgctaaatcagtagtttcttgaatacatcctacgttctttcattgttatttttgcttaa---taaattttatgttgctgctgctgctgctcagGGATTTGAAGCATGAGGAGAAGCGTTGTGTGGAGGAGCTTCAGTGCAACATTGTTGTTATGAAGCGATCTCAGCCTAAAGTCCTTCGACTTAATCTTGTG
upper sequence: GLYMA08G20750.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g02420.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------gtaatagtctctcttatattttcctcactgagaagcttcctattgtaaccataaaacttgatgatatctacatttttggtttatt-gtttcgttctgagattaaat---tttgtgttg------------ttgccttctttgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACATTGTAGTTATGAAGCGTTCTCAGCCTAAAGTACTGCGCTTGAATTTGATT
|| | | | | || |||| |||| ||| ||| |||| | | | || || | || || || |||||| | ||| || || | || | | || ||| ||| || | ||||| ||||| |||||||||||||| | |||||||| || ||||| || |||||||| ||||||||||| || || |||||||| || |||||||||||| ||
gtaatatactctttctaatttttccataaaaatgtttttatttatttatttatttt-catttccctc-ctgggaattcctttatt-tctctgtcaagct-gttgtctattaatttcttggttcagcagttatgtccttattttcattactcttcccttggttaaaagttacttgtgttatgtgcagGCAGCTCAAACATGAGGAAAAATGCTGCATGGAGGAGCTGCAATGCAACATTGTGGTTATGAAGCGCTCCCAACCTAAAGTTCTCCGCTTGAATTTGGTTMapped 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|193665069|gb|FK612079.1|FK612079EST: GTGGCTGCCGAAGCCAAGAAAGCACAAGCCAATTGGGTTGTATTAGACAA ACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACAT
genomic: GTGGCTGCCGAAGCCAAGAAAGCACAAGCCAATTGGGTTGTATTAGACAAgtaatagtct ... ttctttgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggtttattgtttcgttctgagattaaattttgtgttgttgccttctttgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACATTGTAGTTATGAAGCGTTCTCAGCCTAAAGTACTGCGCTTGAATTTGATT
ttgttgccttcttt CT-rich tract
attaaattttgtgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatagtctctcttatattttcctcactgagaagcttcctattgtaaccataaaacttgatgatatctacatttttggtttattgtttcgttctgagattaaattttgtgttgttgccttctttgcagACAGCTTAAACATGAGGAAAAGCGATGCATGGAAGAACTGCAGTGTAACATTGTAGTTATGAAGCGTTCTCAGCCTAAAGTACTGCGCTTGAATTTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC