Sequence
atgc intronic sequence ATGC exonic sequence...aaattttcaaaattgggagtaggcacactttcagttctactaaacttttcataatcgctatatttcaacaaacttgaaaaattagaactcatttgtgcagGCTGGAATGGGTGGAGGAACTGGCACTGGAGGAGCTCCAGTTATTGCCGGTATCACAAAGTCAATGGGTATACTGACTGTTGGTATTGTCACAACCCCTT
Basic information
species | Glycine max |
transcript | GLYMA19G37940.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G37940.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g37160.1 (Oryza sativa), 3'ss of exon 2
-aaattttcaaaattgggagtaggcacactttcagttctactaaacttt--tcataatcgctatatttcaacaaacttgaaaaattagaactcatttgtgcagGCTGGAATGGGTGGAGGAACTGGCACTGGAGGAGCTCCAGTTATTGCCGGTATCACAAAGTCAATGGGTATACTGACTGTTGGTATTGTCACAACCCCTT
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gttcgatttacatctccatgtac-caaaatataaacttttctcttctttagttggaaggagtacgttgtgctcttcattgatcctttgaattcattttt--agGCTGGAATGGGAGGAGGGACAGGCACAGGCGGGGCCCCAGTTATAGCAGGGATTGCAAAGTCCATGGGTATATTAACTGTTGGAATTGTGACAACCCCGT
upper sequence: GLYMA19G37940.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g44420.1 (Oryza sativa), 3'ss of exon 2
aaattttcaaaattgggagtaggcacactttcagttctactaaacttttcataatcgctatatttcaacaaacttgaaaaa-----ttagaactcatttgtgcagGCTGGAATGGGTGGAGGAACTGGCACTGGAGGAGCTCCAGTTATTGCCGGTATCACAAAGTCAATGGGTATACTGACTGTTGGTATTGTCACAACCCCTT
| | | | | | | || |||| | | |||| ||| | | | ||| || || | || |||||||||| ||||||||||| ||||| |||||||| || || || || || || || | ||||| |||||||||||||| ||||| || || || || || |
--------------gtaaatgcttccccctagatggtctcttgacttgtga-aatcatcatacattgaggtatgtgataatagtcttttggtgtccaaactgcagGCTGGGATGGGTGGAGGCACTGGAACTGGAGGTGCCCCTGTAATCGCTGGAATTGCCAAGTCCATGGGTATACTGACAGTTGGCATCGTGACGACACCAT
upper sequence: GLYMA19G37940.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G177224_T02 (Zea mays), 3'ss of exon 1
aaattttcaaaattgggagtaggcacactttcagttctactaaacttttcataatcgctatatttcaacaaacttgaaaaattagaactcatttgtgcagGCTGGAATGGGTGGAGGAACTGGCACTGGAGGAGCTCCAGTTATTGCCGGTATCACAAAGTCAATGGGTATACTGACTGTTGGTATTGTCACAACCCCTT
|||||| | | || |||| | | || | || ||| ||| ||| || | |||| |||||||||||||||||||||||||||| |||||||| ||||| || ||||| || || | ||||| ||||||||||| || ||||| || |||||||| ||||
------gtaaaattctaactgatag----ttgggttcacatgtgaaatcattaggcactgagttttc-caatgttg-----ttctgattcatac-tgcagGCTGGAATGGGTGGAGGAACTGGAACTGGAGGTGCTCCTGTGATTGCTGGAATAGCCAAGTCCATGGGTATACTAACCGTTGGCATAGTCACAACGCCTT
upper sequence: GLYMA19G37940.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g03390.t01 (Vitis vinifera), 3'ss of exon 2
-aaattttcaaaattgggagtaggcacactttcagttctactaaacttttcataatcgctatatttcaacaaacttgaaaaattagaactcatttgtgcagGCTGGAATGGGTGGAGGAACTGGCACTGGAGGAGCTCCAGTTATTGCCGGTATCACAAAGTCAATGGGTATACTGACTGTTGGTATTGTCACAACCCCTT
| ||| | || | | ||| | || | || || | | | ||||| | |||| | || | | | |||||||||||||||||||||||||||||||| || ||||| || ||||| || | |||| ||||||||||| |||| ||||||||||| || |||||||
gagctttatactgttaaaaacttggacaaggtaagctagccttccattcctgtttttatt-tattttttcttacttctgggcctttaatttctatccacagGCTGGAATGGGTGGAGGAACTGGCACTGGTGGGGCTCCTGTGATTGCAGGGGTTGCAAAATCAATGGGTATCTTGACAGTTGGTATTGTTACGACCCCTTMapped 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|193639841|gb|FK590114.1|FK590114EST: AGGAATCAATACAGGAGGCAGTTTATGGAGCTGATATGGTCTTTGTTACA GCTGGAATGGGTGGAGGAACTGG
genomic: AGGAATCAATACAGGAGGCAGTTTATGGAGCTGATATGGTCTTTGTTACAgtatgttcaa ... atttgtgcagGCTGGAATGGGTGGAGGAACTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcataatcgctatatttcaacaaacttgaaaaattagaactcatttgtgcagGCTGGAATGGGTGGAGGAACTGGCACTGGAGGAGCTCCAGTTATTGCCGGTATCACAAAGTCAATGGGTATACTGACTGTTGGTATTGTCACAACCCCTT
ctcattt CT-rich tract
aaacttgaaaaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaattttcaaaattgggagtaggcacactttcagttctactaaacttttcataatcgctatatttcaacaaacttgaaaaattagaactcatttgtgcagGCTGGAATGGGTGGAGGAACTGGCACTGGAGGAGCTCCAGTTATTGCCGGTATCACAAAGTCAATGGGTATACTGACTGTTGGTATTGTCACAACCCCTT
- - - - - - ttgggag
- - - - - - - - - - -ggcacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaat