Sequence
atgc intronic sequence ATGC exonic sequence...ttctgccctgtagcagtctacatggtaatgctttttaatgccaaattgccaatgctgcttcaaattgatatttttttactatgcgtgataatatttgcagGCACTTTTACATTCTGTTCCATTTGGGAAGATGATTGTTCTTGATCTATTTGCTGATGTAAAACCAATATGGAAAAATTCCTTTCAGTTTTATGGTACTC
Basic information
species | Glycine max |
transcript | GLYMA10G11720.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G11720.2 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G033592_T01 (Zea mays), 3'ss of exon 11
--------------------------ttctgccctgtagcagtctac--atggtaatgctttttaatgccaa----attgccaatgctgctt--caaattgatatttttttacta-----------tgcgtgataatatttgcagGCACTTTTACATTCTGTTCCATTTGGGAAGATGATTGTTCTTGATCTATTTGCTGATGTAAAACCAATATGGAAAAATTCCTTTCAGTTTTATGGTACTC
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gtaagctcaagtcttgcttcactgagtttcactttg-aacagtcaaataaatgtgataaatcatagaatgaaggtcaatgcatatgttgtttgtccttttaacatctatttacaaataacttaacctgctccttttaactttcagGCACTACTTCACTCTGTTCCAATTGGTAAGATGATAGTTCTCGATTTATTTGCTGATGTCAAGCCCATTTGGAAAGTGTCCTCTCAGTTTTACGGCGTAC
upper sequence: GLYMA10G11720.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0064g00370.t01 (Vitis vinifera), 3'ss of exon 11
ttctgccctgtagcagtctacatggtaatgctttttaat-gccaaat-tgccaatgctgcttcaaattgat---atttttttactat--gcgtgataatatttg-cagGCACTTTTACATTCTGTTCCATTTGGGAAGATGATTGTTCTTGATCTATTTGCTGATGTAAAACCAATATGGAAAAATTCCTTTCAGTTTTATGGTACTC
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--------tgcatcactctagttactaacacttttgaatcatcatacatgctgcagcttgttttcttcaattctattgattaattgttaactaggtgatatctgacagGCACTTCTACATTCTGTTCCATTTGGGAAAATGGTAGTTCTTGATCTATTTGCTGATGCCAAACCAATCTGGAGAACATCCTCTCAATTTTATGGCACTCMapped 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|192322077|gb|FK012181.1|FK012181EST: GCTGGCTCTTCTACTCTGACTCATCATTTTGGAAGCCACCTCAAATGAAA GCACTTTTACATTCTGTTCCATTTGGGAAGATGATTGTTCTTGATCTATTT
genomic: GCTGGCTCTTCTACTCTGACTCATCATTTTGGAAGCCACCTCAAATGAAAgtatggaatt ... atatttgcagGCACTTTTACATTCTGTTCCATTTGGGAAGATGATTGTTCTTGATCTATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgccaatgctgcttcaaattgatatttttttactatgcgtgataatatttgcagGCACTTTTACATTCTGTTCCATTTGGGAAGATGATTGTTCTTGATCTATTTGCTGATGTAAAACCAATATGGAAAAATTCCTTTCAGTTTTATGGTACTC
aattgat putative branch site (score: 4)
ttcaaattgatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctgccctgtagcagtctacatggtaatgctttttaatgccaaattgccaatgctgcttcaaattgatatttttttactatgcgtgataatatttgcagGCACTTTTACATTCTGTTCCATTTGGGAAGATGATTGTTCTTGATCTATTTGCTGATGTAAAACCAATATGGAAAAATTCCTTTCAGTTTTATGGTACTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT