Sequence
atgc intronic sequence ATGC exonic sequencegtaagagaaatcccctgttagtttctttatgttttgtttgtatgttatttatttagcttaagtgatggattggtgaacttcagGACAAAGATATGAGCAGTTGCAATTTCACTCCTTTTGGAGGGGGACAAAGGCTGTGCCCTGGCCTTGACTTGGCCAGGCTGGAAGCTTCCATCTTCCTAC
Basic information
species | Glycine max |
transcript | GLYMA07G01280.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01280.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g10040.2 (Oryza sativa), 3'ss of exon 3
---------------gtaagagaaatcccctgttagtttctttatgttttgtttgtatgttatttatttagcttaagtgatggattggtgaacttca---gGACAAAGATATGAGCAGTTGCAATTTCACTCCTTTTGGAGGGGGACAAAGGCTGTGCCCTGGCCTTGACTTGGCCAGGCTGGAAGCTTCCATCTTCCTAC
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tgatggtgctgtactactgttgaggcatcctatcattatgatttgatttgggaagtctaataatgtgctaa-ttggtcaagaaatcaatcaatctcaacagGAGAAGGACATGAGCAATGGCAGCTTCACTCCTTTTGGTGGTGGGCAGAGGCTGTGCCCAGGCCTGGATCTGGCCAGGCTGGAAGCTTCCATCTTCCTTC
upper sequence: GLYMA07G01280.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G143235_T01 (Zea mays), 3'ss of exon 6
----------------gtaagagaaatcccctgttagtttc-tttatgttttgtttgtatgttatttatttagcttaagtgatggattggtgaacttcagGACAAAGATATGAGCAGTTGCAATTTCACTCCTTTTGGAGGGGGACAAAGGCTGTGCCCTGGCCTTGACTTGGCCAGGCTGGAAGCTTCCATCTTCCTAC
| | ||| | || | | ||| | ||| | | || || ||| | | ||| ||||| || || | ||||| ||||| |||||||| || || || ||||||||||| ||||| || ||||||||||||||||||||||||| || |
agctttgggtagctgcctttgtgaagcttacagtgaccgtgatttggttcttggaagcctactaacgccttcacttggtcaacaacgtaatgatgaacagGAGAAGGACACGAGCACCATGGGCTTCACCCCTTTTGGCGGTGGGCAGAGGCTGTGCCCAGGCCTGGATCTGGCCAGGCTGGAAGCTTCCATCTTTCTCC
upper sequence: GLYMA07G01280.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0002g02080.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------gtaagagaaatcccctgttag------tttctttatgttttgtttgtatgttatttatttag---cttaagtgatggattggt---gaacttcagGACAAAGATATGAGCAGTTGCAATTTCACTCCTTTTGGAGGGGGACAAAGGCTGTGCCCTGGCCTTGACTTGGCCAGGCTGGAAGCTTCCATCTTCCTAC
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gtaagaagagaacccttttcttcatcttggactaattacttgtttgattgttcttttttgtttttttttccttcggcctttgattagggttctaagttgtgggtggttttggggtgacagGACAAAAATATTAGCAGTTGTAGCTTCACTCCTTTTGGTGGTGGACAAAGGCTGTGTCCAGGGCTTGACTTGGCCAGGCTGGAGGCTTCAATCTTCCTCCMapped 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|15814974|gb|BI787249.1|BI787249EST: ATGACAAAAACTATGAATGTCCATATCAATTCAATCCTTGGAGGTGGCAA GACAAAGATATGAGCAGTTGCAATTTCACTCCTTTTGGAGGGGGACAAAGG
genomic: ATGACAAAAACTATGAATGTCCATATCAATTCAATCCTTGGAGGTGGCAAgtaagagaaa ... tgaacttcagGACAAAGATATGAGCAGTTGCAATTTCACTCCTTTTGGAGGGGGACAAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttttgtttgtatgttatttatttagcttaagtgatggattggtgaacttcagGACAAAGATATGAGCAGTTGCAATTTCACTCCTTTTGGAGGGGGACAAAGGCTGTGCCCTGGCCTTGACTTGGCCAGGCTGGAAGCTTCCATCTTCCTAC
ttgtttgtatgttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagaaatcccctgttagtttctttatgttttgtttgtatgttatttatttagcttaagtgatggattggtgaacttcagGACAAAGATATGAGCAGTTGCAATTTCACTCCTTTTGGAGGGGGACAAAGGCTGTGCCCTGGCCTTGACTTGGCCAGGCTGGAAGCTTCCATCTTCCTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG