Sequence
atgc intronic sequence ATGC exonic sequence...atctctgaaatctggtttgtttaagttttgtagcatccaagttgattttttcttttagtttatgtatagtaagtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
Basic information
species | Glycine max |
transcript | GLYMA11G06720.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 14
-------atctctgaaatctggtttgtttaagttttgtagcatccaagttgatttttt---cttttagtttatgtatagtaagta---tattt-caaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
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gtaatgtattggttaagctattttgggctagggt--gaaatactctgctttgttctgtgggttgttgatttttatttgcaaaattaattatttactgtatatctcttttaccagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 14
---atctctga---aatctggtttgtttaagttttgtagcatccaagttgatttttt---cttttagtttatgtatagtaagtatatttcaaa----actttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
|| | | || || ||||| || | | | || | || || | | | || ||| | | | || | |||| | | | || | ||||||||||| || ||||| || |||||| | |||||||| || || || || |||| ||||| || |||||||||||||| ||||||
gtaatttattggttaagctattttgtgctagggt-gaaatattctgctttgttctgtgggttgttgatttttatttgcaaaatttattatttactgtatatctcttttaccagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 12
-------atctctgaaatctggtttgtttaagttttgtagcatcca---agttgat---tttttcttttagtttatgtatagtaagtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
| | || | ||| | || | || || ||| | | ||||||||| | | || | | ||| || | | | | ||||||||||| || ||||| |||||||| | |||||||| ||||| || || | ||||||||||| || ||||||||||| ||||||
gtaattggttattttaagcaaacttgggcttaatgtgaggtattcatttgtttggtacatgtttcttttatctcagaaatccttgcttcattgtcaatttgtatcttgaccagGGAGCTGTCAACTTTGCATTGATGATGTCACAAATGGAGGGAGGTTGTCCAGTAGACTACAACACTATCACTGATCTCTTCCTTCAG
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 14
---atctctgaaatctggtttgtttaagttttgtagcatccaagttgattttttcttttagtttatgtatagta-agtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
|| || ||| | || | | |||||| | || | | | | | || ||| |||| | ||| | || |||||| || || ||||||||| | |||||| |||||||||||||||| ||||| |||| |||||||||||||| ||||| || ||||||
tggattgcttgtctct---tctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggaggataattcaca-ttttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 3'ss of exon 15
--atctctgaa------atctggtttgtttaagtttt-------gtagcatccaagttgattttttcttt-tagtttatgtatagtaagtatatt-tcaaaactttctttat-tgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
| ||| || || |||| ||||| | || | || | | || | | | | ||||| | |||| || | | | || | | ||||||| |||||||| ||||||||||||||| |||| ||||| ||||||| || | ||||| || || ||||| | || ||||||
gtacttctaaatgacatatgctgtttctttaaaaataacccaaggttgtatttctgataatctacaatctgttttttatcttcagtactaatgtcattgtctcattatgtgcatgcagGGTGCTGTAAACTTTGCTCTGATGATGTCTCAGTTGGAAAGAGGATGTCCAGTAGACTATAATGTTATCACTGACTTGTTCCTTCAG
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
lower sequence: EFJ24508 (Selaginella moellendorffii), 3'ss of exon 14
atctctgaaatctggtttgtttaagttttgtagcatccaagttgattttttcttttagtttatgtatagtaagtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
| | | || ||| || || | | | | || | | |||| || |||||||||||||| |||||||||||||||||||| ||||| || || ||||||||| || || ||||| ||||| |||
--------------------------------------------gtatagttcgttgtcttactcatggt-----tttcccgtattgatcctctgtccagGCGGCCGTAAATTTTGCTCTCATGATGGCTCAAATGGAAGGCGGATGTCCAATGGACTACAACGTTATTACCGATCTTTTTCTGCAG
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
lower sequence: EFJ13237 (Selaginella moellendorffii), 3'ss of exon 14
atctctgaaatctggtttgtttaagttttgtagcatccaagttgattttttcttttagtttatgtatagtaagtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
| | | || ||| || || | | | | || | |||||| || |||||||||||||| |||||||||||||||||||| ||||| || || ||||||||| || || ||||| ||||| |||
--------------------------------------------gtatagttcgttgtcttactcatggt-----tttcccgtattgatcctctgtgcagGCGGCCGTAAATTTTGCTCTCATGATGGCTCAAATGGAAGGCGGATGTCCAATGGACTACAACGTTATTACCGATCTTTTTCTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttcttttagtttatgtatagtaagtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
ctttctttatt CT-rich tract
ttttagtttatgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atctctgaaatctggtttgtttaagttttgtagcatccaagttgattttttcttttagtttatgtatagtaagtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- ctctgaa
- - - - - tctggtt
- - - - - - - - - - - - - - - - gcatcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaact