Sequence
atgc intronic sequence ATGC exonic sequenceTCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGtgccaaattcaatttcaatggcatataattcattttttagcaacattgcccagcagaccagcattatgatttgggttgactcattctcatttaacatttt...
Basic information
species | Glycine max |
transcript | GLYMA18G02960.1 |
intron # | 26 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 26
lower sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 4
-TCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGt---gccaaattcaatttcaatggc--atataattcattttttagcaacattgcccagcagaccagcattatgatttgggttgactcattctcatttaacatttt--------------------------------
|||||||| |||||| | ||||| ||| ||||||||| ||| |||||||||||||||||||| | ||||| |||||||| |||||||| || ||||| | || | ||| | || | |||| | | | || | ||| | || | | | | | | || || || ||| | |||| |
ATCAAAGAAAGATAACATGTACAAGGATTGTATGGAGACATGCTCACAATCTGGTGACCGTGAACTGTCAGAGGACTTGCTTGTCTATTTCATCGAGCAGgtttggttcaaacccattcccttgactgatattacgagactagtgataagctaattcagtatac-gccgtaaggtcctagtctgtctacttggcat--agcattctgattagcaaacacatccaatcatgtaacacag
upper sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 26
lower sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 4
-TCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGt---gccaaattcaatttcaatggcatataat-----------------tcattttttagcaacattgcccagcagaccagcattatgatttgggttg---actcattc--tcatttaacatttt
|||||||| |||||| | ||||| ||| ||||||||| ||| |||||||||||||||||||| | ||||| |||||||| ||||| || || ||||| | || | ||| | || | ||||| | || || | | | | | ||||| | || | | | ||| | |||| |||||
ATCAAAGAAAGATAACATGTACAAGGATTGTATGGAGACATGCTCACAATCTGGTGACCGTGAACTGTCAGAGGACTTGCTTGTGTATTTTATCGAGCAGgtttggttgaaacccattctattgactgataatatgagactagcgataagctaattcataaggtcctagtctgtctacttggcattgcattctgattagcaaatccatccattcatgtaacacag-
upper sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 26
lower sequence: GRMZM2G062042_T02 (Zea mays), 5'ss of exon 12
-TCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGt---gccaaattcaatttcaatggcatataattcattttttagcaacattgcccagcagaccagcattatgatttgggttgactcattctcatttaacatttt------------------
|| ||||| || ||| | ||||| || |||||||||| ||| |||||||| ||||||||||| | ||||| ||||| || ||||||||||| ||||| | | | ||| | |||| || || | || | | || |||| | | | | ||| | | | | | ||| |
ATCGAAGAAAGACAACATGTACAAGGACTGCATGGAGACATGCTCACAATCTGGCGACCGTGAACTATCAGAGGACTTGCTCGTGTATTTCATTGAGCAGgtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatac-agcaaaaggcgtatgcttgcattctgattagtaaacgcatccaatcatatgtaatgcag
upper sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 26
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 25
-TCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGt---gccaaattcaatttcaatggcatataattcattttttagcaacattgcccagcagaccagcattatgatttgggttgactcattctcatttaacatttt------------------
|| ||||| || ||| | ||||| || |||||||||| ||| |||||||| ||||||||||| | ||||| ||||| || ||||||||||| ||||| | | | ||| | |||| || || | || | | || |||| | | || | ||| | | | | | |||| |
ATCGAAGAAAGACAACATGTACAAGGACTGCATGGAGACATGCTCACAATCTGGCGACCGTGAACTGTCAGAGGACTTGCTCGTGTATTTCATTGAGCAGgtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatac-agcaaaaagcttatgcttgcattctgattagtaaacacatccaatcatatgtaatgtag
upper sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 26
lower sequence: GRMZM2G115138_T01 (Zea mays), 5'ss of exon 11
-TCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGt---gccaaattcaatttcaatggcatataattcattttttagcaacattgcccagcagaccagcattatgatttgggttgactcattctcatttaacatttt------------------
|| ||||| || ||| | ||||| || |||||||||| ||| |||||||| ||||||||||| | ||||| ||||| || ||||||||||| |||| | | | ||| | |||| || || | || | | || |||| | | | | ||| | | | | | ||| |
ATCGAAGAAAGACAACATGTACAAGGACTGCATGGAGACATGCTCACAATCTGGCGACCGTGAACTGTCAGAGGACTTGCTCGTGTATTTCATTGAGAAGgtttggttcgaacccattgtattggctgatgatatgggagtagctaattcaatactatatac-agcaaaaggcgtatgcttgcattctgattagtaaacgcatccaatcatatgtaatgcag
upper sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 26
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 27
-TCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGtgccaaattcaatttcaatggcatataattcattttttagcaacattgcccagcagaccagcattatgatttgggttgactcattctcatttaacatttt---
|| ||||| || ||||| |||||||| || |||||||| ||||||||||||||||||||||||||||| |||||||||||||||||||||||||| |||| || | | | | | | |||| | | | | || ||| || ||| | | | || || |||| | | |
GTCGAAGAAAGACAACCTGTACAAAGACGCGATGGAGACTGCCTCGCAATCTGGTGACCGTGAACTTGCAGAGGAGTTGCTTGTTTATTTCATTGAGAAGgtacccagaatg-ctagagcaatctgaagacatctctttaactaaagc-catagtcttcca-caatataaaatcaatc-acacaccttcatgcactagcataac
upper sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 26
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 5'ss of exon 27
-TCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGtgccaaattcaatttcaatggcatataattcattttttagcaacattgcccagcagaccagcattat-gatttgggttg-actcattctcatttaacatttt-
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TTCTAAGAAGGATAACTTGTACAAGGATGCCATGGAAACCGCCTCACAATCAGGCGATCGTGATCTTGCTGAGGAATTGCTTACCTTCTTTGTGGACAAGgtagctaatt-gatttatgt----tatcattatttggctaaggcttatgcatattaaaataaattaattgattctaattctgcgtattgggatgtatgacacagMapped 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|18712840|gb|BM522687.1|BM522687EST: TGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGG GAAAGAAAGAATGCTTTGCCTCGTGTCTATTTGTTTGCTATGATTTGATCC
genomic: TGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGtgccaaattc ... gttatgcaggGAAAGAAAGAATGCTTTGCCTCGTGTCTATTTGTTTGCTATGATTTGATCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAAAGAAGGATAACCTTTACAAAGATGCCATGGAGACAGCCTCGCAATCTGGTGACCGTGAACTTGCTGAGGAGTTGCTTGTTTATTTCATTGATCAGGtgccaaattcaatttcaatggcatataattcattttttagcaacattgcccagcagaccagcattatgatttgggttgactcattctcatttaacatttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG