Sequence
atgc intronic sequence ATGC exonic sequenceATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
Basic information
species | Glycine max |
transcript | GLYMA02G17410.1 |
intron # | 19 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 24
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttca--tgttttacagatgacatctattcta-atgcatggtctgtct-tcaatttttttttgtag-------------
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ATGGTCTAAGAACAAAAGATAAAGAGCGTGTATTAGTACTTGCTGCAACTAATAGGCCATTTGACCTTGATGAGGCTGTTGTTAGGAGGCTTCCTAGGCGgtgagtatcatatttttcat-tcattttaagatttgaactgtggtgctaattttatgatttttagataattgacttgactatgcatgtgttttggtatatgtattgcttag
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 24
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtga-gcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
|||| | || || ||||||||||| |||||||| ||||||| ||| ||||| |||||||| || || ||||||||||| ||||||||| | || || ||||| | | | || | | | || | | || | | | | ||| | ||| | ||| | |||| | | ||||
ATGGATTACGCACTAAAGATAAAGAACGTGTACTGGTTCTTGGTGCCACAAATAGGCCTTTCGACCTGGATGAGGCTGTCATTAGGAGGTTCCCGCGCAGgtgacagctataaccttgtgttggggttgggataatgaaaaattgctgtt--tgttgatttctaaccat--ttggtcgttaattactact-gtag
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os07g47530.1 (Oryza sativa), 5'ss of exon 24
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
|||||||| | |||||||||||||| || ||| | || |||||||| || || || || |||||||||||||| |||||| |||||||||| || | ||| | | || | | | | | | || ||||||| |||| || ||| || ||| || | ||| |
ATGGTCTGAGAACAAAAGATAAAGAACGCGTATTAGTACTTGCTGCCACCAATAGACCATTTGATCTTGATGAAGCTGTTGTTAGGAGGCTCCCCAGGAGgtaactttttt---tacatcgctgtggtattccttttatttttaca-atgaaatgctaatggttgcttg-cctgatcacatatcaatttag---
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G042074_T02 (Zea mays), 5'ss of exon 19
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
|||||||| | ||||| || ||||| |||||| | || |||||||| || |||||||| ||||||||||||||||||||||||||| ||||||| | ||||| |||| |||| || || | || ||| || || || | || || || ||||| | | || | |||
ATGGTCTGAGAACAAAGGAGAAAGAACGTGTATTAGTACTTGCTGCAACTAACAGGCCATTTGATCTTGATGAGGCTGTTATTAGGCGGCTTCCAAGGAGgtga----------tttattgtttgtttatagcctaatacg--acatctgtcaa-tagtttattgacc--tcagtcttgtgtgtgttctc-tag
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcat-gttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag--------------------------------------------------
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ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtggga--ctggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G370521_T01 (Zea mays), 5'ss of exon 2
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
|||||||| | |||| || ||||| |||||| | || |||||||| || |||||||| ||||||||||||||||||||| ||||| ||||||| | ||||| |||| ||| || || | || | | | | || | | | | | | | ||| | |||
ATGGTCTGAGAACAAGGGAGAAAGAACGTGTATTAGTACTTGCTGCAACTAACAGGCCATTTGATCTTGATGAGGCTGTTGTTAGGCGGCTTCCAAGGAGgtga----------tttatcgtttgtttatagcctaatacagcatctgtcaatggttttttgacctcagtcttatggggcaataatttctttag
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G168228_T01 (Zea mays), 5'ss of exon 3
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
|||||||| | |||| || ||||| |||||| | || |||||||| || |||||||| ||||||||||||||||||||| ||||| ||||||| | ||||| |||| ||| || || | || | | | | || | | | | | | | ||| | |||
ATGGTCTGAGAACAAGGGAGAAAGAACGTGTATTAGTACTTGCTGCAACTAACAGGCCATTTGATCTTGATGAGGCTGTTGTTAGGCGGCTTCCAAGGAGgtga----------tttatcgtttgtttatagcctaatacaacatctgtcaatggttttttgacctcagtcttatggggcaatgatttctttag
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G409190_T01 (Zea mays), 5'ss of exon 2
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
|||||||| | |||| || ||||| |||||| | || |||||||| || || ||||| ||||||||||||||||||||| ||||| ||||||| | ||||| | | |||| | || | | | | | | | || | | | || | | | | | | ||||| |||
ATGGTCTGAGAACAAGGGAGAAAGAACGTGTATTAGTACTTGCTGCAACTAATAGGCCATTTGATCTTGATGAGGCTGTTGTTAGGCGGCTTCCAAGGAGgtga---tttatcgtttgtttatagcct--aatacaacatctgtcaatggttttttgacctca-gtcttatggggcaataatttctttag----
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G417650_T01 (Zea mays), 5'ss of exon 2
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
||||||| | |||| || ||||| |||||| | || |||||||| || |||| ||| ||||||||||||||||||||| ||||| ||||||| | ||||| |||| ||| || || | || | | | | || | | | | | | | ||| | |||
ATGGTCTAAGAACAAGGGAGAAAGAACGTGTATTAGTACTTGCTGCAACTAACAAGCCATTTGATCTTGATGAGGCTGTTGTTAGGCGGCTTCCAAGGAGgtga----------tttatcgtttgtttatagcctaatacagcatctgtcaatggttttttgacctcagtcttatggggcaataatttctttag
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G157621_T03 (Zea mays), 5'ss of exon 24
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
||||||| | |||||||| ||||| ||||| || || |||||||| || || ||||| ||||||||||| ||||||||| | |||||||| || | ||| | || | | || | ||||| || | |||||| || ||| || | | | ||| || | ||
ATGGTCTTAGGACAAAAGACAAAGAACGTGTTCTGGTACTTGCTGCCACTAATAGGCCATTTGATCTTGACGAGGCTGTTGTCAGGAGGCTCCCCAGGAGgtaaa----ttgcactccgtatttatgctacttttc---ttccaactgtgacatg-gttataa---ataacccggccacaacttctcttcag--
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G482077_T01 (Zea mays), 5'ss of exon 2
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
||| |||| | |||| || ||||| ||||| | || |||||||| || |||||||| |||||||||||||| | |||| ||||| ||||| | ||||| | | |||| | || | | | | | | | || | | | || | | | | | | ||||| |||
ATGATCTGAGAACAAGGGAGAAAGAATGTGTATTAGTACTTGCTGCAACTAACAGGCCATTTGATCTTGATGATGTTGTTGTTAGGCGGCTTAGAAGGAGgtga---tttatcgtttgtttatagcct--aatacaacatctgtcaatggttttttgacctca-gtcttatggggcaataatttctttag----
upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 5'ss of exon 23
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag-------
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ATGGCCTACGTACAAAGGATAAAGAACGTGTATTGGTACTTGCCGCCACCAATAGGCCTTTTGACCTTGATGAGGCTGTTATTAGGAGGCTACCCAGGAGgtaaacatcatatgatta-taatcccttgatttgttgtgtatgagtattagtcaacccagaaaaaccttaattccctactatgtatgttaactgccaacacMapped 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|19269058|gb|BM885314.1|BM885314EST: AACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACG ATTAATGGTTAATTTGCCAGATGCTCCAAACAGAGAAAAAATTCTCAGTGT
genomic: AACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgt ... ttttttgtagATTAATGGTTAATTTGCCAGATGCTCCAAACAGAGAAAAAATTCTCAGTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcatgttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT