Sequence
atgc intronic sequence ATGC exonic sequencegtgagatttttgctgaattttcttttaaaatatttttgtaataagtaatagtgtcactaacaatataaaacgtttttgtaatatctaaccatgtgaggttttcttgtcaaaagtatgtaatttcttcctttattttctgcatgcagCACCGAACAGGTTGCTTGGTAGGATGCTATAGAAAATTGCAAAAATGGTGCTTGTCATCCGTCTTTGATGAATACCAACGCTTTGCAGCCGCCAAAGCAA
Basic information
species | Glycine max |
transcript | GLYMA14G05400.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G05400.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G134389_T01 (Zea mays), 3'ss of exon 4
gtgagatttttgctgaattttcttttaaaatatttttgtaataagtaatagtgtcactaacaatataaaacgtttttgtaatatctaaccatgtgaggttttcttgtcaaaagtatgtaatttct-tcctttattttc-tgcatgcagCACCGAACAGGTTGCTTGGTAGGATGCTATAGAAAATTGCAAAAATGGTGCTTGTCATCCGTCTTTGATGAATACCAACGCTTTGCAGCCGCCAAAGCAA
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--------------------------------------------gtaagatcagctct--cagtttacaac-tgtttgtggctgctatcccaagaaacaactgtgaccctggttctgaactaactgttcgatatttgcatatctgcagCACCGAACTGGTTGTTTGGTCGGGTGCTTGAGGAAGCTGCAGAAATGGTGCTTGTCTTCAGTCTTCGACGAGTACCATCGCTTTGCCGCTGCGAAAGCGC
upper sequence: GLYMA14G05400.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0059g01400.t01 (Vitis vinifera), 3'ss of exon 4
------------gtgagatttttgctga-attttcttttaaaatatttttgtaataagtaatagtgtcactaacaa--tataaaacgtttttgtaatatctaac-catgtgaggtttt------cttgtcaaaagtatgtaatttcttcctttattttctgcatgcagCACCGAACAGGTTGCTTGGTAGGATGCTATAGAAAATTGCAAAAATGGTGCTTGTCATCCGTCTTTGATGAATACCAACGCTTTGCAGCCGCCAAAGCAA
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gtatctgcatgaattttattttttttaatatataatttcacacaaactcatttccttgttctccccccgaaagtgaagtttgagttgtttcattaattcacacctcattttaagttccaaaaaccttataagatgtatatggcgtttgcctttcatcttgttgttcagCACCGGACAGGTTGCGTTGTGGGATGCTTAAGAAAATTGCAAAAATGGTGCTTGTCATCTATTTTTGATGAGTACCAGCGGTTCGCAGCTGCTAAAGCTAMapped 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|12687931|gb|BG154327.1|BG154327EST: ATGTCAGGAACCACCCAGTTATAATTCACTGTAAGCGGGGAAAG CACCGAACAGGTTGCTTGGTAGGATGCTATAGAAAATTGCAAAAATGGTGC
genomic: ATGTCAGGAACCACCCAGTTATAATTCACTGTAAGCGGGGAAAGgtgagatttt ... ctgcatgcagCACCGAACAGGTTGCTTGGTAGGATGCTATAGAAAATTGCAAAAATGGTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgaggttttcttgtcaaaagtatgtaatttcttcctttattttctgcatgcagCACCGAACAGGTTGCTTGGTAGGATGCTATAGAAAATTGCAAAAATGGTGCTTGTCATCCGTCTTTGATGAATACCAACGCTTTGCAGCCGCCAAAGCAA
tttcttcctttatttt CT-rich tract
aaaagtatgtaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagatttttgctgaattttcttttaaaatatttttgtaataagtaatagtgtcactaacaatataaaacgtttttgtaatatctaaccatgtgaggttttcttgtcaaaagtatgtaatttcttcctttattttctgcatgcagCACCGAACAGGTTGCTTGGTAGGATGCTATAGAAAATTGCAAAAATGGTGCTTGTCATCCGTCTTTGATGAATACCAACGCTTTGCAGCCGCCAAAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA