Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatcttttgcctctgaaatactcaccttcaacatagctttcctcttgtcatcatgcattgtttatgcccacttgtttccttgcagGATTACGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAG
Basic information
species | Glycine max |
transcript | GLYMA07G38510.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38510.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os11g17080.1 (Oryza sativa), 3'ss of exon 3
gtaagaatcttttgcctctgaaatactca-ccttcaacatagctttcctcttgtcatcatgcattgtttatgcccacttgtt-tccttgcagGATTACGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAG
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-----------------gtatatcacttttcccccaacaatttctttatgtcctcaaagtttcttataagcatctatttcttgtatttttagGATTATGTTGCAACAAGGTGGTATCGTGCACCTGAACTTTGTGGATCTTTTTTCTCTAAG
upper sequence: GLYMA07G38510.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g05160.1 (Oryza sativa), 3'ss of exon 3
gtaaga-atcttttgcctctgaaatactcaccttcaacatagctttcctcttgtcatcatgcattgtttatgcccacttgtttccttgcagGATTACGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAG
||| | || | ||| | | ||| | || | | || | | || ||| || | || | | || ||||||| |||||||||||||||| |||| || || |||||||||| ||||||||||||
gtacgtcatttcacgcccactacacacta---tgcagctcattactcttaagatttatat-catcagcta-attgatttttctgtttttagGATTATATTGCAACAAGGTGGTACCGAGCACCAGAGCTGTGTGGATCTTTTTTCTCCAAG
upper sequence: GLYMA07G38510.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G089484_T01 (Zea mays), 3'ss of exon 3
--gtaagaatcttttgcctctgaaatactcaccttcaacatagctttcctcttgtcatcatgcattgtttatgcccacttgtttccttgcagGATTACGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAG
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gtatgacattttttgaccactatgctattcagttgttgctaggctatctttcta--gtggtgtctagtttcttact-cttgtttt-----agGATTATGTTGCAACTAGGTGGTACCGAGCACCAGAGTTGTGTGGATCTTTCTTCTCCAAG
upper sequence: GLYMA07G38510.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g02530.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------gtaagaatct-tttgcctctgaaatactcacct---------tcaacatagctttcctcttgtcatcat-----gcattgtttatgcccactt-gtttccttgcagGATTACGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAG
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gtatgcttcttccccatttgtgtgtgtttcttgtcaatcaattgcaatggtctatttttctttgtgacttaaagttgtgtatgggtaaataatgatgtttccctatgaatatctctagaattgacagctttaatttcatgtgattacagGATTATGTTGCAACAAGGTGGTACAGGGCACCTGAATTGTGTGGTTCATTTTTCTCCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatagctttcctcttgtcatcatgcattgtttatgcccacttgtttccttgcagGATTACGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAG
cccacttgtttcctt CT-rich tract
attgtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatcttttgcctctgaaatactcaccttcaacatagctttcctcttgtcatcatgcattgtttatgcccacttgtttccttgcagGATTACGTTGCAACAAGGTGGTATAGAGCTCCTGAATTGTGTGGATCCTTTTTCTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT