Sequence
atgc intronic sequence ATGC exonic sequence...agaaagaattagtctttctttatgctttattctgcattttttgaaaaatgagaatgacgcataattggcatctctattttcttgtttcattgttgtgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
Basic information
species | Glycine max |
transcript | GLYMA19G29100.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g07080.1 (Oryza sativa), 3'ss of exon 6
agaaagaattagtctttctttatgctttattctgcatt-ttttgaaaaatgagaatgacgcataattggcatctctattttcttgtttcattg--ttgtgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
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-gtacgagcgatgcatcttgaatgcaatattgcaattcactttcagttcttactattat-catttcgtctgtttgatctatataacaaaactgactgatgcagAGGGCCAGCTTGGTTACCCTTCTGTGGATACCCAACCAACACCACGGCGCGTTAGTTCCCTGAAAGCAAGGATTATTTCTGTCGCTGCTGCCAACAAGCA
upper sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G443668_T01 (Zea mays), 3'ss of exon 6
agaaagaattagtctttctttatgct-ttattctgcattttttgaaaaatgagaatgacgcataattggcatctctattttctt------gtttcattg--ttgtgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
||| || ||| | | | | || | | | || | | | ||| | ||| ||| | | || | ||||||||| |||||||||||||||||||||||||| ||||| ||||| | | || ||| | | | ||| || || | || ||||| |||||||| ||
------gtttattccttccccagacggccagaccccactcatgtgggagctc---tggcactgggtctgcacttttatggtctataacaaaatcctctgaatgatgcagAGGGTCAGCTTGGGTACCCTTCTGTTGATACCCAACCAACACCAAGGCGTGTTGGTTCGCTCAAGCAAAGGATAATTTCAGTAGCTGCTGCAAACAAGCA
upper sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G072767_T01 (Zea mays), 3'ss of exon 8
------------------------------------------------agaaagaattagtctttctttatgctttattctgcattttttgaaaaatgagaa---tgacgcataattggcatctctattttctt-------gtttcattgttg-tgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
| | | | || | || ||| | ||| | | |||| || || || | | | ||| | ||| ||| || | || ||||||||| |||||||| ||||||||||||||||| ||||| ||||| | | || ||| | | | ||| || || | || ||||| |||||||| ||
gtacgtgtgatgcattttaaatgtatttttaggcaacatgaaccttggacacatatttcatgttctttttctccttactaatattattttctcctgtgggagctctggcactgggtctgcacttttatggtctataacaaagtcctctgaatgatgcagAGGGTCAGCTTGGTTACCCTTCTGTTGATACCCAACCAACACCAAGGCGTGTTGGTTCGCTCAAGCAAAGGATAATTTCAGTAGCTGCTGCAAACAAGCA
upper sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G135133_T01 (Zea mays), 3'ss of exon 5
------------------------------------------------agaaagaattagtctttctttatgctttattctgcattttttgaaaaatgagaa---tgacgcataattggcatctctattttctt-------gtttcattgttg-tgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
| | | | || | || ||| | ||| | | |||| || || || | | | ||| | ||| ||| || | || ||||||||| |||||||| |||||||||||| |||| ||||| ||||| | | || ||| | | | ||| || || | || ||||| |||||||| ||
gtacgtgtgatgcattttaaatgtatttttaggcaacatgaaccttggacacatattttatgttctttttctccttactaatattattttctcctgtgggagctctggcactgggtctgcacttttatggtctataacaaagtcctctgaatgatgcagAGGGTCAGCTTGGTTACCCTTCTGTTCATACCCAACCAACACCAAGGCGTGTTGGTTCGCTCAAGCAAAGGATAATTTCAGTAGCTGCTGCAAACAAGCA
upper sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G893355_T01 (Zea mays), 3'ss of exon 7
------------------------------------------------agaaagaattagtctttctttatgctttattctgcattttttgaaaaatgagaa---tgacgcataattggcatctctattttctt-------gtttcattgttg-tgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA--
| | | | || | || ||| | ||| | | |||| || || || | | | ||| | ||| ||| || | || ||||||||| |||||||| |||||||||||| |||| ||||| ||||| | | || ||| | | | ||| || || | || ||||| |||||||| ||
gtacgtgtgatgcattttaaatgtatttttaggcaacatgaaccttggacacatattttatgttctttttctccttactaatattattttctcctgtgggagctctggcactgggtctgcacttttatggtctataacaaagtcctctgaatgatgcagagGGTCAGCTTGGTTACCCTTCTGTTCATACCCAACCAACACCAAGGCGTGTTGGTTCGCTCAAGCAAAGGATAATTTCAGTAGCTGCTGCAAACAAGCACT
upper sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G403493_T01 (Zea mays), 3'ss of exon 13
agaaagaattagtctttctttatgctttattctgcattttttgaaaaatgagaa-tgacgcataattggcatctctattttctt-------gtttcattgttg-tgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
| | || ||||| | || | | | | ||| || | | | ||| | ||| ||| || | || ||||||| | |||||||| ||||||||||||||||| ||||| ||||| | | || ||| | | | ||| || || | | ||||| |||||||| ||
---------ttgcctcggtttattccttccccagaccccactcatgtgggagctctggcactgggtctgcacttttatggtctataacaaagtcctctgaatgatgcagAGAGTCAGCTTGGTTACCCTTCTGTTGATACCCAACCAACACCAAGGCGTGTTGGTTCGCTCAAGCAAAGGATAATTTCAATAGCTGCTGCAAACAAGCA
upper sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0032g00280.t01 (Vitis vinifera), 3'ss of exon 6
--------agaaagaattagtctttctttatgctttattctgcattttttgaaaaatgagaatgacgcataattggcatctctattttcttgtttcattgttgtgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
| || ||| ||| ||| |||| || || | | | |||| ||| | | || | |||| | |||| | |||||| |||||||| ||| ||||||| ||||| || |||| |||||| |||| ||| ||| ||||| |||||||||||||||||| |||||||| ||
aattaaaaaaaatgaacaagtaagaaaaaatgttttagtcaattacattctactacttttgatgattcatga-----aattcgaatttcaaat---gatgttatttagAGGGTCAGCTTGGATACACTTCTGTGGATACCCAGCCCATACCTCGACGAGTGAGTTCCCTGAAGTCAAAAATTGTTGCTGTTGCTGCTGCAAACAAGCAMapped 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|208127376|gb|GD924464.1|GD924464EST: GTGTTCACTTGGGGATCCAATAGAG AGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAG
genomic: GTGTTCACTTGGGGATCCAATAGAGgtaaaacttg ... tgttgtgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgagaatgacgcataattggcatctctattttcttgtttcattgttgtgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
tctctattttcttgtt CT-rich tract
tattttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaagaattagtctttctttatgctttattctgcattttttgaaaaatgagaatgacgcataattggcatctctattttcttgtttcattgttgtgcagAGGGACAGCTTGGGTACCCTTCTGTTGATACACAACCCACACCTCGTAGAGTATCTTCTTTGAGGTCAAGAATTGTTGCTGTTGCTGCAGCAAACAAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
agaaagaa
- - - - - - - - - tttatgc
- - - - - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - gaaaaat