Sequence
atgc intronic sequence ATGC exonic sequence...gaaatgttttcacttttgtctttgctgcatgtttgaggatttttaatattgttttaggttgacatctaggctgtgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT
Basic information
species | Glycine max |
transcript | GLYMA0028S00210.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g43350.1 (Oryza sativa), 3'ss of exon 4
gaaatgttttcacttttgtctttgctgcatgtttgaggatttttaatattgttttaggttgacatctaggctgtgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT
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--------------gtcagttctgcagtcatttaagtaatgatgaatgttgctggactagagtttttgtactatga-tgtaattcattatt----tacagGTGGGCCTTCCAGGAACTGGAAAGACGCTTCTTGCAAAAGCTGTCGCAGGGGAAGCTGAAGTCCCATTCATAAGTTGCTCTGCAAGTGAATTTGTGGAGT
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G072865_T05 (Zea mays), 3'ss of exon 4
---------------gaaatgttttcacttttgtctttgctgcatgtttgaggatttttaatattg----ttttaggttgacatctaggct-gtgaatatc-tctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT------------
| | | | | | || | || | | | ||||| || || | | |||||| | | | || | || | | | || | |||||||||||||||| || || || ||||| | |||||||| || || || || ||||| || || ||||| |||||||| ||||||||||| || || ||
ttcgtctcggtgctcgccctcctcgtggtgtcttattggttggttctgcaaatgcttttagtaatggaaactactgcttgacaattgtgtttgttaccataatgtaattctttctctacaggtgggtcttccagggactggaaagacacttcttgcaaaagccgtagcaggagaagcagaagTCCCATTCATAAGTTGCTCTGCTAGTGAATTTGTTGAGCTATATGTAGGCA
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G072865_T01 (Zea mays), 3'ss of exon 4
gaaatgttttcacttttgtctttgctg-catgtttgaggatttttaatattgttttaggttgacatctaggctgtgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT
||| | ||| ||| || | || || || | | | | ||| | |||| | |||||||||||||||| || || || ||||| | |||||||| || || || || ||||| || || ||||| |||||||| ||||||||||| || || ||
--------------gttggttctgcaaatgcttttagtaatggaaactactgcttgacaattgtgtttgttaccataatgtaattcttt----ctctacagGTGGGTCTTCCAGGGACTGGAAAGACACTTCTTGCAAAAGCCGTAGCAGGAGAAGCAGAAGTCCCATTCATAAGTTGCTCTGCTAGTGAATTTGTTGAGC
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 4
lower sequence: AT3G47060.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------gaaatgttttcacttttgtctt-tgctgcatgtttgaggatttttaatattgtttta----ggttgacatctaggctg-tgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT
| || ||||||||| |||| | | | | | | ||||| || ||| | | | | ||| || | | | || || || ||||| |||||||| || ||||| || || | |||||||||||||| |||||||||||||| || || || |||||||| ||||| |||||||| |||||
gtgagttttatcatttgatttcactttattcttatattacgtatatatcatggtttaacgtttggttacaagagctctcctttagaatgatatgcctttgactcctttcttttccagGTTGGTCTTCCCGGAACAGGGAAAACCCTTCTTGCAAAGGCTGTTGCTGGGGAAGCTGAAGTCCCCTTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 4
------gaaatgttttcacttttgtctttgctgcatgtttgaggatttttaatattgttttaggttgacatct--aggctgtgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT
||| | | | | || | || | ||| | || |||| |||| || | | | | | | | | |||| ||||||||||| ||||| || || | |||||||| ||||| ||||||||| ||||||| ||||| |||||||| ||||| |||||||| |||||
gtgagtttaataatgtagttacaacttatggccatttcttaggtggtttatgcgcaatgtttggttactatctttagaatttatggctttatttccctgttttggtagGTCGGTCTTCCTGGAACAGGGAAAACCCTTCTTGCAAAAGCTGTTGCTGGGGAATCTGATGTTCCATTCATAAGTTGCTCTGCAAGTGAGTTTGTAGAGC
upper sequence: GLYMA0028S00210.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 4
-----gaaatgttttcacttttgtctttgctgcatgtttgaggatttttaatattgttttaggttgacatctaggctgtgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT
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ctaccaaagaacagatacaagtggtttc----cataatttactcttggatgtaagtttttatgtatggctttgatttgtaagtacggct-ttggctatcttacagGTGGGTCTTCCTGGGACAGGTAAGACTCTCCTAGCAAAGGCTGTGGCTGGGGAGGCTGAAGTGCCTTTTATAAGTTGTTCTGCAAGTGAGTTTGTAGAATMapped 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|254321724|gb|GR825041.1|GR825041EST: CAGACAGATATGTAAGGCTTGGTGCTCGGCCACCTCGTGGTGTTCTCTTG GTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGG
genomic: CAGACAGATATGTAAGGCTTGGTGCTCGGCCACCTCGTGGTGTTCTCTTGgtaagttcta ... taccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGG
EST:
gi|16276875|gb|BI942089.1|BI942089EST: CAGACAGATATGTAAGGCTTGGTGCTCGGCCACCTCGTGGTGTTCTCTTG GTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGG
genomic: CAGACAGATATGTAAGGCTTGGTGCTCGGCCACCTCGTGGTGTTCTCTTGgtaagttcta ... taccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattgttttaggttgacatctaggctgtgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT
ttacctt CT-rich tract
tgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaatgttttcacttttgtctttgctgcatgtttgaggatttttaatattgttttaggttgacatctaggctgtgaatatctctcttgattaccttacagGTGGGTCTTCCTGGCACAGGTAAGACTTTACTTGCAAAGGCTGTGGCTGGGGAAGCTGATGTGCCATTTATAAGTTGTTCTGCTAGTGAGTTCGTAGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - -gtctttg
- - - - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggctgt