Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaataaaaaactagttcacatgtaatgttccatatgagatattgccttcagttttgtatttaaattctgtgacattctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTGGAGCAACATGTGTTTACCCACTGCAGGTGGTTAGAACAAG
Basic information
species | Glycine max |
transcript | GLYMA19G28020.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G28020.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g40200.1 (Oryza sativa), 3'ss of exon 2
gtaaa-----aataaaaaactagttcacatgtaatgttccatatgagatattgccttcagttttgtatt--taaattctgtgaca-ttctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTGGAGCAACATGTGTTTACCCACTGCAGGTGGTTAGAACAAG
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gtgagcctccattcagaaactgtttc---tgtttcctacccttttgcttttcaactccgtttcttgattcttgaattttatcatggttgtgtagATCCTGGTCCTCTAGTACAACTGGGCTGTGGGACTGTATCAGGAGCCTTGGGGGCAACATGTGTTTACCCTTTACAGGTTATCAGGACAAG
upper sequence: GLYMA19G28020.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g10740.1 (Oryza sativa), 3'ss of exon 2
gtaaaaataaaaaactagttcacatgtaatgttccatatgagatattgccttcagttttgtatt--------taaattctgtgacattctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTGGAGCAACATGTGTTTACCCACTGCAGGTGGTTAGAACAAG
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---------gtaaactccgt-gcaaaaaattctgtttacatcacagtcctctcaattttcaattgatttcgctaaagtataatcttttatgcagATCCTGGTCCTTTAGTCCAACTAGGTTGTGGGACAGTCTCAGGAGCTCTAGGAGCAACATGTGTTTACCCTTTGCAAGTCATCAGAACAAG
upper sequence: GLYMA19G28020.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G041831_T03 (Zea mays), 3'ss of exon 2
gtaaaaa-taaaaaactagttcacatgtaatgt-tccatatgagatattgccttcagttttgtatttaaattctgtgacattctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTGGAGCAACATGTGTTTACCCACTGCAGGTGGTTAGAACAAG
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gtaggccctctctctcttttttgtgtttcctacctctatttaaactgtgtttcttgattcttcagtgttatctttcaatgtcatgtagATCCTGGTCCTCTAGTACAGCTTGGTTGTGGGACGGTCTCTGGAGCCCTAGGGGCAACATGTGTTTACCCTTTACAGGTTATCAGAACAAG
upper sequence: GLYMA19G28020.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0068g00890.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------gtaaaaataaaaaactagttcacatgtaatgttccatatgagatattgccttcagttttgtatttaaattctgtgacattctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTGGAGCAACATGTGTTTACCCACTGCAGGTGGTTAGAACAAG
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gtaaggctttacatttttacaacccccatttacaagtcttaatctgtgtgtcacttctctgcttctttttattgtat-ttctgttcctgat-ctaccttgtgttgtttctaaaaaaaatttcattttctgtagAACCTGGTCCTCTTTTGCAGCTGGGTTGTGGGACAATTTCTGGGGCTCTTGGGGCAACATGTGTTTACCCATTGCAGGTTATCAGAACAAGMapped 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|18039196|gb|BM307490.1|BM307490EST: GTATGAAACCTTGAAGGATATGTCCAAGCAATATATTCTTCATGATGGAG AACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTG
genomic: GTATGAAACCTTGAAGGATATGTCCAAGCAATATATTCTTCATGATGGAGgtaaaaataa ... cattctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTG
EST:
gi|58016558|gb|CX703300.1|CX703300EST: GTATGAAACCTTGAAGGATATGTCCAAGCAATATATTCTTCATGATGGAG AACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTG
genomic: GTATGAAACCTTGAAGGATATGTCCAAGCAATATATTCTTCATGATGGAGgtaaaaataa ... cattctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccatatgagatattgccttcagttttgtatttaaattctgtgacattctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTGGAGCAACATGTGTTTACCCACTGCAGGTGGTTAGAACAAG
agttttgtatttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaataaaaaactagttcacatgtaatgttccatatgagatattgccttcagttttgtatttaaattctgtgacattctgtagAACCTGGCCCTCTAGTACAATTAGGATGTGGGACTGTATCTGGAGCTCTTGGAGCAACATGTGTTTACCCACTGCAGGTGGTTAGAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG