Sequence
atgc intronic sequence ATGC exonic sequence...ctgtcactgatggtccttcttattcatctttttagtttaggaaatttgttgatgctttgtcatcattttaatttttacattctcacatttgtcattacagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTTGGTATTGATTTCACTAAGAGCAATGAGTGGACAG
Basic information
species | Glycine max |
transcript | GLYMA19G07140.5 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g68060.1 (Oryza sativa), 3'ss of exon 1
ctgtcactgatggtccttcttattcatctttttagtttaggaaatttgttgatgctttgtcatcattttaatt--tttacattctcacatttg----tcattacagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTTGGTATTGATTTCACTAAGAGCAATGAGTGGACAG
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----cattagta-taagaatcaggcacataagcaaacaatccagttt-ctattgtgttgctattattcccatgaattggtttgctcaggattaatattaattgcagGTTACTGATGCACTAGCTCAAGCAGGACTTGAGTCTTCGAATCTTATTGTTGGCATTGATTTCACAAAGAGCAATGAATGGTTAG
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G065893_T01 (Zea mays), 3'ss of exon 1
ctgtcactgatggtccttcttattcatctttttagtttaggaaatttgttgatgctttgtcatcattttaatttttacattctcacatttgtcatt--acagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTTGGTATTGATTTCACTAAGAGCAATGAGTGGACAG
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-atttgtgtttggttagagttgctcggttggccacatttcactttcagtt-atgctacgccttgactatctttctgaaagaccaaaccttccccttttgcagGTTACTGATGCTCTAGCTCAAGCAGGACTTGAATCATCAAATCTTATTGTTGGCATTGATTTCACAAAGAGCAACGAGTGGACAG
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G477113_T02 (Zea mays), 3'ss of exon 1
ctgtcactgatggtccttcttattcatctttttagtttaggaaatttgttgatgctttgtcatcattttaatttttacattctcacatttgtcatt--acagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTTGGTATTGATTTCACTAAGAGCAATGAGTGGACAG
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-atttgtgtttggttagagttgctcggttgggcacatttcactttcagtt-atgctacgccttgactatctttctgaaagaccaaaccttccccttttgcagGTTACTGATGCTCTAGCTCAAGCAGGACTTGAATCATCAAATCTTATTGTTGGCATTGATTTCACAAAGAGCAACGAGTGGACAG
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G077809_T02 (Zea mays), 3'ss of exon 1
ctgtcactgatggtccttcttattcatctttttagtttaggaaatttgttgatgctttgtcatcattttaatttttacattctcacatttgtcattacagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTTGGTATTGATTTCACTAAGAGCAATGAGTGGACAG
| | | ||| || || | | | || | || | | | | ||| | | | || || ||||| ||||| ||||| || | ||||| ||||| || |||||||||||| |||| |||||||||| |||||||| ||||||||||
catttgcgttaggttagagttgctcggttggtcacatttcagttatggtactttcccccatgtggactatctttctgaaccaaacctttcccttttgcagGTTACTGATGCTCTAGCTCAAGCAGGACTTGAATCATCAAATCTTATTGTTGGCGTTGATTTCACAAAGAGCAACGAGTGGACAG
upper sequence: GLYMA19G07140.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0066g00290.t01 (Vitis vinifera), 3'ss of exon 1
-ctgtcactgatggtccttcttattcatctttttagtttaggaaatttgttgatgctttgtcatcattttaatttttacattctcacatttgtcattacagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTTGGTATTGATTTCACTAAGAGCAATGAGTGGACAG
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cttgaggcaactgcttactggtgtttaa-tacttgattattattctattttgacattattggttcgaggtggctcacccagtgacaatatcttctttgcagGTGACTGCAGCTCTTGCACGTGCTGGCCTTGAGTCTTCTAATCTCATTGTCGGTATTGACTTCACAAAGAGCAATGAGTGGACAGMapped 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|193381688|gb|FK348959.1|FK348959EST: TAGACAGGAAATACTCGAGAATCACAGATAACTACAACTCCATAGATGAG GTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTT
genomic: TAGACAGGAAATACTCGAGAATCACAGATAACTACAACTCCATAGATGAGgtaagagatg ... gtcattacagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTT
EST:
gi|193592204|gb|FK548712.1|FK548712EST: TAGACAGGAAATACTCGAGAATCACAGATAACTACAACTCCATAGATGAG GTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTT
genomic: TAGACAGGAAATACTCGAGAATCACAGATAACTACAACTCCATAGATGAGgtaagagatg ... gtcattacagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttgatgctttgtcatcattttaatttttacattctcacatttgtcattacagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTTGGTATTGATTTCACTAAGAGCAATGAGTGGACAG
ttctcac putative branch site (score: 2)
tttgtcatcattttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtcactgatggtccttcttattcatctttttagtttaggaaatttgttgatgctttgtcatcattttaatttttacattctcacatttgtcattacagGTGACTGAGGCTCTTGCACGTGCAGGCCTTGAGTCTTCAAATCTTATTCTTGGTATTGATTTCACTAAGAGCAATGAGTGGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA